Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-012952
(1027 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001029526.1| MKI67 FHA domain-interacting nucleolar phosp... 471 e-133
Alignment gi|NP_001229511.1| cleavage stimulation factor subunit 2 tau va... 60 3e-09
Alignment gi|NP_777110.1| cleavage stimulation factor subunit 2 [Bos taur... 59 5e-09
Alignment gi|XP_001254105.1| PREDICTED: cleavage stimulation factor subun... 59 5e-09
Alignment gi|XP_002699579.1| PREDICTED: similar to RNA binding motif prot... 58 1e-08
Alignment gi|NP_001193433.1| RNA-binding protein 39 [Bos taurus]. 55 8e-08
Alignment gi|XP_002689241.1| PREDICTED: heterogeneous nuclear ribonucleop... 54 2e-07
Alignment gi|XP_593096.3| PREDICTED: heterogeneous nuclear ribonucleoprot... 54 2e-07
Alignment gi|NP_001096578.1| ribonucleoprotein PTB-binding 1 [Bos taurus]. 54 3e-07
Alignment gi|NP_001074996.1| RNA-binding protein Musashi homolog 1 [Bos t... 53 4e-07
>ref|NP_001029526.1| MKI67 FHA domain-interacting nucleolar phosphoprotein [Bos taurus].
Length = 296
Score = 471 bits (1212), Expect = e-133
Identities = 239/294 (81%), Positives = 252/294 (85%), Gaps = 2/294 (0%)
Frame = +3
Query: 78 MAALAAQVGPLLSLNPQEDAKFQKKVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ 257
MAA PLLSLNPQEDAKF+K+VA RRRATKQ EKQK TPGVIYVGHLPP+LYETQ
Sbjct: 1 MAAFGGPAKPLLSLNPQEDAKFKKEVAQVRRRATKQQEKQKPTPGVIYVGHLPPTLYETQ 60
Query: 258 IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI 437
IRAYFSQFGTVTR RLSRSKKTGNSKGYGFVEFESEDVA+IAAETMNNYLFGERLLKCH
Sbjct: 61 IRAYFSQFGTVTRFRLSRSKKTGNSKGYGFVEFESEDVAKIAAETMNNYLFGERLLKCHF 120
Query: 438 IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG 617
IPPEKVHEELFREWHMPFKRPS+PAVKRYNQ R+L QKLRMEERFKKKEK LRKRLAKKG
Sbjct: 121 IPPEKVHEELFREWHMPFKRPSYPAVKRYNQNRSLVQKLRMEERFKKKEKLLRKRLAKKG 180
Query: 618 IDYNFPSL--VLHKDEEKPSFTGPRNSRKHQXXXXXXXXXXXXXXNTPEKTVDSQGPTPV 791
IDYNFPSL VLHK+EE S TGP+NSRKHQ TPEK VDSQGPTPV
Sbjct: 181 IDYNFPSLVKVLHKNEENASNTGPQNSRKHQ-ALRKKKKAASVTPETPEKAVDSQGPTPV 239
Query: 792 CTPTFLEKRKSEVAKMNDDDKDHEIVFQQPVSGAKEETQETQIPTSSRKKEEKQ 953
CTP FLEKRKSEVAKMNDDDKD+EIVF+QPVSG KEETQETQ P SS+KK ++
Sbjct: 240 CTPAFLEKRKSEVAKMNDDDKDNEIVFKQPVSGVKEETQETQSPASSKKKRRRK 293
>ref|NP_001229511.1| cleavage stimulation factor subunit 2 tau variant [Bos taurus].
Length = 642
Score = 60.1 bits (144), Expect = 3e-09
Identities = 30/84 (35%), Positives = 46/84 (54%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G+V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGSVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|NP_777110.1| cleavage stimulation factor subunit 2 [Bos taurus].
Length = 572
Score = 59.3 bits (142), Expect = 5e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_001254105.1| PREDICTED: cleavage stimulation factor subunit 2, partial [Bos
taurus].
Length = 275
Score = 59.3 bits (142), Expect = 5e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_002699579.1| PREDICTED: similar to RNA binding motif protein, X-linked 2 [Bos
taurus].
Length = 358
Score = 58.2 bits (139), Expect = 1e-08
Identities = 48/175 (27%), Positives = 80/175 (45%), Gaps = 13/175 (7%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
I++G LP L E I FSQ+G + + L R KKTG SKG+ F+ +E + +A +
Sbjct: 58 IFLGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTVLAVDNF 117
Query: 396 NNYLFGERLLKCHIIP----PEKVHE--ELFRE-------WHMPFKRPSFPAVKRYNQKR 536
N R ++ + PE E E+ RE H P S + K+
Sbjct: 118 NGIKIKGRTIRVDHVSNYRLPEDSEEMDEVTRELQERGCGTHTPPPSSSEGSEDDKPTKK 177
Query: 537 TLRQKLRMEERFKKKEKSLRKRLAKKGIDYNFPSLVLHKDEEKPSFTGPRNSRKH 701
+ K +++ K KEK+ R+ A++ + P + K+++ P ++S KH
Sbjct: 178 HKKDKKEKKKKKKDKEKTGREVQAEQPASSSLPRSKMIKEKDDPG--SKKHSGKH 230
>ref|NP_001193433.1| RNA-binding protein 39 [Bos taurus].
Length = 530
Score = 55.5 bits (132), Expect = 8e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 249 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 308
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 309 CAKKALEQLNGFELAGRPMK 328
>ref|XP_002689241.1| PREDICTED: heterogeneous nuclear ribonucleoprotein A0 [Bos taurus].
Length = 305
Score = 53.9 bits (128), Expect = 2e-07
Identities = 27/81 (33%), Positives = 45/81 (55%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG L + E + +FSQFGTV + + K++G +G+GFV F++ D A AA
Sbjct: 100 LFVGGLKGDVAEGDLIEHFSQFGTVEKAEIIADKQSGKKRGFGFVYFQNHDAADKAAVVK 159
Query: 396 NNYLFGERLLKCHIIPPEKVH 458
+ + G R+ +P E +H
Sbjct: 160 FHPIQGHRVEVKKAVPKEDIH 180
>ref|XP_593096.3| PREDICTED: heterogeneous nuclear ribonucleoprotein A0 [Bos taurus].
Length = 305
Score = 53.9 bits (128), Expect = 2e-07
Identities = 27/81 (33%), Positives = 45/81 (55%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG L + E + +FSQFGTV + + K++G +G+GFV F++ D A AA
Sbjct: 100 LFVGGLKGDVAEGDLIEHFSQFGTVEKAEIIADKQSGKKRGFGFVYFQNHDAADKAAVVK 159
Query: 396 NNYLFGERLLKCHIIPPEKVH 458
+ + G R+ +P E +H
Sbjct: 160 FHPIQGHRVEVKKAVPKEDIH 180
>ref|NP_001096578.1| ribonucleoprotein PTB-binding 1 [Bos taurus].
Length = 716
Score = 53.5 bits (127), Expect = 3e-07
Identities = 29/77 (37%), Positives = 41/77 (53%)
Frame = +3
Query: 204 TPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIA 383
T ++ V +LPPSL + Q FG++ R L S++TG+SKGYGF E+ +D A A
Sbjct: 130 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGHSKGYGFAEYMKKDSAARA 189
Query: 384 AETMNNYLFGERLLKCH 434
+ G R L H
Sbjct: 190 KSDLLGKPLGPRTLYVH 206
>ref|NP_001074996.1| RNA-binding protein Musashi homolog 1 [Bos taurus].
Length = 362
Score = 53.1 bits (126), Expect = 4e-07
Identities = 33/102 (32%), Positives = 50/102 (49%)
Frame = +3
Query: 150 KVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGN 329
KVA RR K + K I+VG L + ++ YF QFG V L K T
Sbjct: 93 KVAFPRRAQPKMVTRTKK----IFVGGLSVNTTVEDVKQYFEQFGKVDDAMLMFDKTTNR 148
Query: 330 SKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHIIPPEKV 455
+G+GFV FESED+ E ++ + ++++C P++V
Sbjct: 149 HRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKAQPKEV 189
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 35,392,025
Number of extensions: 855607
Number of successful extensions: 2976
Number of sequences better than 1.0e-05: 34
Number of HSP's gapped: 2942
Number of HSP's successfully gapped: 35
Length of query: 342
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 239
Effective length of database: 14,273,310
Effective search space: 3411321090
Effective search space used: 3411321090
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-012952
(1027 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_533319.2| PREDICTED: similar to MKI67 FHA domain interact... 426 e-119
Alignment gi|XP_858230.1| PREDICTED: similar to MKI67 FHA domain interact... 417 e-117
Alignment gi|XP_543585.2| PREDICTED: similar to cleavage stimulation fact... 60 3e-09
Alignment gi|XP_850506.1| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
Alignment gi|XP_549135.2| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
Alignment gi|XP_861538.1| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
Alignment gi|XP_861513.1| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
Alignment gi|XP_861476.1| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
Alignment gi|XP_861450.1| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
Alignment gi|XP_861405.1| PREDICTED: similar to cleavage stimulation fact... 59 6e-09
>ref|XP_533319.2| PREDICTED: similar to MKI67 FHA domain interacting nucleolar
phosphoprotein (Nucleolar protein interacting with the
FHA domain of pKI-67) (hNIFK) (Nucleolar phosphoprotein
Nopp34) isoform 1 [Canis familiaris].
Length = 297
Score = 426 bits (1095), Expect = e-119
Identities = 214/295 (72%), Positives = 240/295 (81%), Gaps = 2/295 (0%)
Frame = +3
Query: 78 MAALAAQVGPLLSLNPQEDAKFQKKVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ 257
MAALA P LSLNPQE+AKF+K+V A RRA +Q EK+KLTPGVIYVGHLPP+LYETQ
Sbjct: 1 MAALAGPAKPFLSLNPQEEAKFRKEVTQACRRAAQQKEKEKLTPGVIYVGHLPPALYETQ 60
Query: 258 IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI 437
IRAYFSQFGTVTR RLSRSK+TGNSKGY FVEF SEDVA+I A+TMNNYLFGERLL+CH
Sbjct: 61 IRAYFSQFGTVTRFRLSRSKRTGNSKGYAFVEFASEDVAKIVADTMNNYLFGERLLQCHF 120
Query: 438 IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG 617
IPPEKVHEELFREW++PFK+PS+PAVKRYNQ RTL QKL+MEERFKKKEK LRK+LAKKG
Sbjct: 121 IPPEKVHEELFREWYIPFKKPSYPAVKRYNQNRTLLQKLQMEERFKKKEKLLRKKLAKKG 180
Query: 618 IDYNFPSLVLHKDEEKPSFTGPRNSRKHQ--XXXXXXXXXXXXXXNTPEKTVDSQGPTPV 791
IDY+FPSL+LHK E+ S TG Q TPEKTVDSQG TPV
Sbjct: 181 IDYDFPSLILHKKEKNASDTGLEKPTDSQVLPKKKKKKKKSSRTTTTPEKTVDSQGSTPV 240
Query: 792 CTPTFLEKRKSEVAKMNDDDKDHEIVFQQPVSGAKEETQETQIPTSSRKKEEKQS 956
CTP FLEKRKSE AK+N DD+D+EIVF+QPV G KEETQETQ PT SRKK +++S
Sbjct: 241 CTPAFLEKRKSEAAKINVDDEDNEIVFKQPVPGVKEETQETQTPTRSRKKRQRKS 295
>ref|XP_858230.1| PREDICTED: similar to MKI67 FHA domain interacting nucleolar
phosphoprotein (Nucleolar protein interacting with the
FHA domain of pKI-67) (hNIFK) (Nucleolar phosphoprotein
Nopp34) isoform 2 [Canis familiaris].
Length = 276
Score = 417 bits (1073), Expect = e-117
Identities = 212/293 (72%), Positives = 240/293 (81%)
Frame = +3
Query: 78 MAALAAQVGPLLSLNPQEDAKFQKKVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ 257
MAALA P LSLNPQE+AKF+K+V A RRA +Q EK+KLTPGVIYVGHLPP+LYETQ
Sbjct: 1 MAALAGPAKPFLSLNPQEEAKFRKEVTQACRRAAQQKEKEKLTPGVIYVGHLPPALYETQ 60
Query: 258 IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI 437
IRAYFSQFGTVTR RLSRSK+TGNSKGY FVEF SEDVA+I A+TMNNYLFGERLL+CH
Sbjct: 61 IRAYFSQFGTVTRFRLSRSKRTGNSKGYAFVEFASEDVAKIVADTMNNYLFGERLLQCHF 120
Query: 438 IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG 617
IPPEKVHEELFREW++PFK+PS+PAVKRYNQ RTL QKL+MEERFKKKEK LRK+LAKKG
Sbjct: 121 IPPEKVHEELFREWYIPFKKPSYPAVKRYNQNRTLLQKLQMEERFKKKEKLLRKKLAKKG 180
Query: 618 IDYNFPSLVLHKDEEKPSFTGPRNSRKHQXXXXXXXXXXXXXXNTPEKTVDSQGPTPVCT 797
IDY+FPSLVL K ++K ++SR TPEKTVDSQG TPVCT
Sbjct: 181 IDYDFPSLVLPKKKKKKK----KSSR---------------TTTTPEKTVDSQGSTPVCT 221
Query: 798 PTFLEKRKSEVAKMNDDDKDHEIVFQQPVSGAKEETQETQIPTSSRKKEEKQS 956
P FLEKRKSE AK+N DD+D+EIVF+QPV G KEETQETQ PT SRKK +++S
Sbjct: 222 PAFLEKRKSEAAKINVDDEDNEIVFKQPVPGVKEETQETQTPTRSRKKRQRKS 274
>ref|XP_543585.2| PREDICTED: similar to cleavage stimulation factor, 3 pre-RNA
subunit 2, tau [Canis familiaris].
Length = 459
Score = 60.1 bits (144), Expect = 3e-09
Identities = 30/84 (35%), Positives = 46/84 (54%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G+V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGSVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_850506.1| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
3 [Canis familiaris].
Length = 557
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_549135.2| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
2 [Canis familiaris].
Length = 597
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_861538.1| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
10 [Canis familiaris].
Length = 562
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_861513.1| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
9 [Canis familiaris].
Length = 471
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_861476.1| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
8 [Canis familiaris].
Length = 498
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_861450.1| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
7 [Canis familiaris].
Length = 253
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_861405.1| PREDICTED: similar to cleavage stimulation factor subunit 2 isoform
5 [Canis familiaris].
Length = 577
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 37,009,556
Number of extensions: 882777
Number of successful extensions: 3998
Number of sequences better than 1.0e-05: 87
Number of HSP's gapped: 3884
Number of HSP's successfully gapped: 92
Length of query: 342
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 239
Effective length of database: 15,440,896
Effective search space: 3690374144
Effective search space used: 3690374144
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-012952
(1027 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001095297.1| antigen KI-67 [Sus scrofa]. 545 e-155
Alignment gi|XP_001926989.1| PREDICTED: cleavage stimulation factor subun... 60 2e-09
Alignment gi|XP_003360436.1| PREDICTED: cleavage stimulation factor subun... 59 3e-09
Alignment gi|XP_003135279.1| PREDICTED: cleavage stimulation factor subun... 59 3e-09
Alignment gi|NP_001230600.1| RNA binding motif protein, X-linked 2 [Sus s... 58 1e-08
Alignment gi|XP_003360015.1| PREDICTED: RNA-binding protein 39 [Sus scrof... 55 5e-08
Alignment gi|XP_003360014.1| PREDICTED: RNA-binding protein 39 [Sus scrof... 55 5e-08
Alignment gi|XP_003360013.1| PREDICTED: RNA-binding protein 39 [Sus scrof... 55 5e-08
Alignment gi|XP_001925282.1| PREDICTED: RNA-binding protein 39 isoform 2 ... 55 5e-08
Alignment gi|XP_003360012.1| PREDICTED: RNA-binding protein 39 [Sus scrof... 55 5e-08
>ref|NP_001095297.1| antigen KI-67 [Sus scrofa].
Length = 294
Score = 545 bits (1403), Expect = e-155
Identities = 272/293 (92%), Positives = 274/293 (93%)
Frame = +3
Query: 78 MAALAAQVGPLLSLNPQEDAKFQKKVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ 257
MAALAA VGPLLSLNPQEDAKFQKKVA ARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ
Sbjct: 1 MAALAAXVGPLLSLNPQEDAKFQKKVAXARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ 60
Query: 258 IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI 437
IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI
Sbjct: 61 IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI 120
Query: 438 IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG 617
IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG
Sbjct: 121 IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG 180
Query: 618 IDYNFPSLVLHKDEEKPSFTGPRNSRKHQXXXXXXXXXXXXXXNTPEKTVDSQGPTPVCT 797
IDYNFPSLVLHKDEEKPSFTGPRNSRKHQ NTPEKTVDSQGPTPVCT
Sbjct: 181 IDYNFPSLVLHKDEEKPSFTGPRNSRKHQALRKKKKKEALAALNTPEKTVDSQGPTPVCT 240
Query: 798 PTFLEKRKSEVAKMNDDDKDHEIVFQQPVSGAKEETQETQIPTSSRKKEEKQS 956
PTFLEKRKSEVAKMNDDDKDHEIVF+QPVSGAKEETQETQIPTSSRKK K +
Sbjct: 241 PTFLEKRKSEVAKMNDDDKDHEIVFKQPVSGAKEETQETQIPTSSRKKRRKNN 293
>ref|XP_001926989.1| PREDICTED: cleavage stimulation factor subunit 2 tau variant
isoform 1 [Sus scrofa].
Length = 615
Score = 60.1 bits (144), Expect = 2e-09
Identities = 30/84 (35%), Positives = 46/84 (54%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G+V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGSVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_003360436.1| PREDICTED: cleavage stimulation factor subunit 2-like isoform 2
[Sus scrofa].
Length = 592
Score = 59.3 bits (142), Expect = 3e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|XP_003135279.1| PREDICTED: cleavage stimulation factor subunit 2-like isoform 1
[Sus scrofa].
Length = 572
Score = 59.3 bits (142), Expect = 3e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|NP_001230600.1| RNA binding motif protein, X-linked 2 [Sus scrofa].
Length = 329
Score = 57.8 bits (138), Expect = 1e-08
Identities = 46/175 (26%), Positives = 79/175 (45%), Gaps = 13/175 (7%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
I++G LP L E I FSQ+G + + L R KKTG SKG+ F+ +E + +A +
Sbjct: 38 IFLGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTVLAVDNF 97
Query: 396 NNYLFGERLLKCHII----------PPEKVHEELFREW---HMPFKRPSFPAVKRYNQKR 536
N R ++ + + V +EL H P + S + K+
Sbjct: 98 NGIKIKGRTIRVDHVSNYRAPKDSEETDDVTKELQERGCGAHTPSQSSSESSEDDKPTKK 157
Query: 537 TLRQKLRMEERFKKKEKSLRKRLAKKGIDYNFPSLVLHKDEEKPSFTGPRNSRKH 701
+ K ++R K KEK+ ++ LA++ + P + K+++ P S+KH
Sbjct: 158 HKKDKKEKKKRKKDKEKTDQEVLAEQPASSSSPRSKMTKEKDDP------GSKKH 206
>ref|XP_003360015.1| PREDICTED: RNA-binding protein 39 [Sus scrofa].
Length = 502
Score = 55.5 bits (132), Expect = 5e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 221 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 280
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 281 CAKKALEQLNGFELAGRPMK 300
>ref|XP_003360014.1| PREDICTED: RNA-binding protein 39 [Sus scrofa].
Length = 504
Score = 55.5 bits (132), Expect = 5e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 217 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 276
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 277 CAKKALEQLNGFELAGRPMK 296
>ref|XP_003360013.1| PREDICTED: RNA-binding protein 39 [Sus scrofa].
Length = 508
Score = 55.5 bits (132), Expect = 5e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 221 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 280
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 281 CAKKALEQLNGFELAGRPMK 300
>ref|XP_001925282.1| PREDICTED: RNA-binding protein 39 isoform 2 [Sus scrofa].
Length = 524
Score = 55.5 bits (132), Expect = 5e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 243 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 302
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 303 CAKKALEQLNGFELAGRPMK 322
>ref|XP_003360012.1| PREDICTED: RNA-binding protein 39 [Sus scrofa].
Length = 530
Score = 55.5 bits (132), Expect = 5e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 243 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 302
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 303 CAKKALEQLNGFELAGRPMK 322
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 22,719,010
Number of extensions: 544314
Number of successful extensions: 1987
Number of sequences better than 1.0e-05: 27
Number of HSP's gapped: 1961
Number of HSP's successfully gapped: 28
Length of query: 342
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 242
Effective length of database: 8,854,232
Effective search space: 2142724144
Effective search space used: 2142724144
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-012952
(1027 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_080748.3| MKI67 FHA domain-interacting nucleolar phosphop... 291 4e-79
Alignment gi|NP_112539.2| cleavage stimulation factor subunit 2 tau varia... 60 3e-09
Alignment gi|NP_573459.1| cleavage stimulation factor subunit 2 [Mus musc... 59 5e-09
Alignment gi|NP_573505.2| RNA-binding protein 39 [Mus musculus]. 55 7e-08
Alignment gi|NP_766350.2| RNA-binding protein 34 [Mus musculus]. 55 1e-07
Alignment gi|NP_082187.1| ribonucleoprotein PTB-binding 1 [Mus musculus]. 55 1e-07
Alignment gi|NP_775552.1| RNA-binding motif protein, X-linked 2 [Mus musc... 54 3e-07
Alignment gi|NP_084148.1| heterogeneous nuclear ribonucleoprotein A0 [Mus... 53 3e-07
Alignment gi|NP_473384.1| RNA-binding protein Musashi homolog 2 [Mus musc... 53 3e-07
Alignment gi|NP_032655.1| RNA-binding protein Musashi homolog 1 [Mus musc... 53 4e-07
>ref|NP_080748.3| MKI67 FHA domain-interacting nucleolar phosphoprotein [Mus
musculus].
Length = 317
Score = 291 bits (746), Expect = 4e-79
Identities = 168/320 (52%), Positives = 212/320 (66%), Gaps = 28/320 (8%)
Frame = +3
Query: 78 MAALAAQVGPLLSLNPQEDAKFQKKVALARRRATK--QPEKQKLTPGVIYVGHLPPSLYE 251
MA LA P L+LNPQED++F+K + + R K Q +K+KL GV+Y+GHLP +L E
Sbjct: 1 MAGLAGPAKPSLALNPQEDSQFEKALTQIQGRTKKPQQKKKEKLNRGVVYLGHLPSTLSE 60
Query: 252 TQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKC 431
+ I Y +QFG ++R RLSRSK+TGNSKGY FVEFESEDVA+I AETM+NYLFGERLL C
Sbjct: 61 SHIYNYCAQFGDISRFRLSRSKRTGNSKGYAFVEFESEDVAKIVAETMDNYLFGERLLSC 120
Query: 432 HIIPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAK 611
+P +KVH++LF + + F RPSFPAVKRYN+KR Q L+ME RFKKKEK LRK+LA
Sbjct: 121 KFMPRKKVHKDLFSQRNALFHRPSFPAVKRYNRKRGHLQMLKMEYRFKKKEKLLRKKLAA 180
Query: 612 KGIDYNFPSLVL---------HKDEE--------KPSFTG-PRNSRKHQXXXXXXXXXXX 737
KGIDY+FPSLVL H+D E K +G PR K
Sbjct: 181 KGIDYSFPSLVLPKPKNIAVAHRDSEGNQVLPDQKEGLSGEPRRKEKMMKEDISNNIPKK 240
Query: 738 XXXNTPEK-TVDSQGPTPVCTPTFLEKRKSEVAKMNDDDKDHEIVFQQPVSGAKEETQET 914
+ +K +VDSQGPTPVCTPTFLE+RKS+V ++ DKD EI+ + PV KE+TQ+T
Sbjct: 241 RKRSRRKKSSVDSQGPTPVCTPTFLERRKSQVMEVG-GDKDDEIILKLPVPPVKEDTQKT 299
Query: 915 QIPTSS-------RKKEEKQ 953
PTS+ RK++ KQ
Sbjct: 300 --PTSASPGGKRPRKRKSKQ 317
>ref|NP_112539.2| cleavage stimulation factor subunit 2 tau variant [Mus musculus].
Length = 632
Score = 60.1 bits (144), Expect = 3e-09
Identities = 30/84 (35%), Positives = 46/84 (54%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G+V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGSVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|NP_573459.1| cleavage stimulation factor subunit 2 [Mus musculus].
Length = 580
Score = 59.3 bits (142), Expect = 5e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|NP_573505.2| RNA-binding protein 39 [Mus musculus].
Length = 530
Score = 55.5 bits (132), Expect = 7e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 243 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 302
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 303 CAKKALEQLNGFELAGRPMK 322
>ref|NP_766350.2| RNA-binding protein 34 [Mus musculus].
Length = 442
Score = 54.7 bits (130), Expect = 1e-07
Identities = 40/171 (23%), Positives = 81/171 (47%), Gaps = 13/171 (7%)
Frame = +3
Query: 141 FQKKVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKK 320
F+ +V LA A++ ++VG+LP + ++ + +F G++ +R+ R+
Sbjct: 275 FRIRVDLASETASRDKRS-------VFVGNLPYKIEDSALEEHFLDCGSIVAVRIVRNPL 327
Query: 321 TGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHIIPPEKVHEE-----LFREWHM 485
TG +G+G+V FE+ D +A + N+ L G +L + EK+ ++ L ++
Sbjct: 328 TGVGRGFGYVLFENTDAVHLALKLNNSELMGRKLRVMRSVNKEKLKQQNSNPSLKKDVIK 387
Query: 486 PFKRPSFPAVKRYNQKRTLRQKLRMEERF--------KKKEKSLRKRLAKK 614
P +R +F + + + K + F KKK+K +K++ K
Sbjct: 388 PKQRLNF--TSKEGKFHSKEGKFHSKNAFIGEKAVLMKKKKKGQKKKVQMK 436
>ref|NP_082187.1| ribonucleoprotein PTB-binding 1 [Mus musculus].
Length = 748
Score = 54.7 bits (130), Expect = 1e-07
Identities = 33/100 (33%), Positives = 48/100 (48%), Gaps = 5/100 (5%)
Frame = +3
Query: 204 TPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIA 383
T ++ V +LPPSL + Q FG++ R L S++TG+SKGYGF E+ +D A A
Sbjct: 130 TDALLCVANLPPSLTQAQFEELVRPFGSLERCFLVYSERTGHSKGYGFAEYMKKDSAARA 189
Query: 384 AETMNNYLFGERLLKCH-----IIPPEKVHEELFREWHMP 488
+ G R L H + P +H H+P
Sbjct: 190 KSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDHLP 229
>ref|NP_775552.1| RNA-binding motif protein, X-linked 2 [Mus musculus].
Length = 326
Score = 53.5 bits (127), Expect = 3e-07
Identities = 41/134 (30%), Positives = 62/134 (46%), Gaps = 10/134 (7%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
I+VG LP L E I FSQ+G + + L R KKTG SKG+ F+ +E + +A +
Sbjct: 38 IFVGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTVLAVDNF 97
Query: 396 NNYLFGERLLKC-HI----IPPEK-----VHEELFREWHMPFKRPSFPAVKRYNQKRTLR 545
N R ++ H+ P E V EL + PS P ++ L
Sbjct: 98 NGIKIKGRTIRVDHVSNYRAPQESEDVDDVTRELQEKGCGVKTPPSSPPEVSEDEDAKLT 157
Query: 546 QKLRMEERFKKKEK 587
+K + +++ KKK K
Sbjct: 158 KKHKKDKKEKKKRK 171
>ref|NP_084148.1| heterogeneous nuclear ribonucleoprotein A0 [Mus musculus].
Length = 305
Score = 53.1 bits (126), Expect = 3e-07
Identities = 27/81 (33%), Positives = 44/81 (54%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG L + E + +FSQFG V + + K++G +G+GFV F+S D A AA
Sbjct: 100 LFVGGLKGDVAEGDLIEHFSQFGAVEKAEIIADKQSGKKRGFGFVYFQSHDAADKAAVVK 159
Query: 396 NNYLFGERLLKCHIIPPEKVH 458
+ + G R+ +P E +H
Sbjct: 160 FHPIQGHRVEVKKAVPKEDIH 180
>ref|NP_473384.1| RNA-binding protein Musashi homolog 2 [Mus musculus].
Length = 346
Score = 53.1 bits (126), Expect = 3e-07
Identities = 33/102 (32%), Positives = 50/102 (49%)
Frame = +3
Query: 150 KVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGN 329
KVA RR K + K I+VG L + ++ YF QFG V L K T
Sbjct: 94 KVAFPRRAQPKMVTRTKK----IFVGGLSANTVVEDVKQYFEQFGKVEDAMLMFDKTTNR 149
Query: 330 SKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHIIPPEKV 455
+G+GFV FE+EDV E ++ + ++++C P++V
Sbjct: 150 HRGFGFVTFENEDVVEKVCE-IHFHEINNKMVECKKAQPKEV 190
>ref|NP_032655.1| RNA-binding protein Musashi homolog 1 [Mus musculus].
Length = 362
Score = 52.8 bits (125), Expect = 4e-07
Identities = 33/102 (32%), Positives = 50/102 (49%)
Frame = +3
Query: 150 KVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGN 329
KVA RR K + K I+VG L + ++ YF QFG V L K T
Sbjct: 93 KVAFPRRAQPKMVTRTKK----IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR 148
Query: 330 SKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHIIPPEKV 455
+G+GFV FESED+ E ++ + ++++C P++V
Sbjct: 149 HRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKAQPKEV 189
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 31,043,970
Number of extensions: 745422
Number of successful extensions: 2796
Number of sequences better than 1.0e-05: 41
Number of HSP's gapped: 2755
Number of HSP's successfully gapped: 44
Length of query: 342
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 240
Effective length of database: 12,553,887
Effective search space: 3012932880
Effective search space used: 3012932880
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-012952
(1027 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_115766.3| MKI67 FHA domain-interacting nucleolar phosphop... 397 e-111
Alignment gi|NP_056050.1| cleavage stimulation factor subunit 2 tau varia... 60 3e-09
Alignment gi|NP_001316.1| cleavage stimulation factor subunit 2 [Homo sap... 59 6e-09
Alignment gi|NP_057108.2| RNA-binding motif protein, X-linked 2 [Homo sap... 57 4e-08
Alignment gi|NP_055829.2| RNA-binding protein 34 isoform 1 [Homo sapiens]. 57 4e-08
Alignment gi|NP_001229529.1| RNA-binding protein 39 isoform d [Homo sapie... 55 8e-08
Alignment gi|NP_001229528.1| RNA-binding protein 39 isoform c [Homo sapie... 55 8e-08
Alignment gi|NP_004893.1| RNA-binding protein 39 isoform b [Homo sapiens]. 55 8e-08
Alignment gi|NP_909122.1| RNA-binding protein 39 isoform a [Homo sapiens]. 55 8e-08
Alignment gi|NP_001070820.1| probable RNA-binding protein 23 isoform 3 [H... 54 2e-07
>ref|NP_115766.3| MKI67 FHA domain-interacting nucleolar phosphoprotein [Homo
sapiens].
Length = 293
Score = 397 bits (1021), Expect = e-111
Identities = 198/293 (67%), Positives = 237/293 (80%)
Frame = +3
Query: 78 MAALAAQVGPLLSLNPQEDAKFQKKVALARRRATKQPEKQKLTPGVIYVGHLPPSLYETQ 257
MA + GP+LSLNPQED +FQK+VA R+R T++ ++++LTPGV+YV HLP L ETQ
Sbjct: 1 MATFSGPAGPILSLNPQEDVEFQKEVAQVRKRITQRKKQEQLTPGVVYVRHLPNLLDETQ 60
Query: 258 IRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETMNNYLFGERLLKCHI 437
I +YFSQFGTVTR RLSRSK+TGNSKGY FVEFESEDVA+I AETMNNYLFGERLL+CH
Sbjct: 61 IFSYFSQFGTVTRFRLSRSKRTGNSKGYAFVEFESEDVAKIVAETMNNYLFGERLLECHF 120
Query: 438 IPPEKVHEELFREWHMPFKRPSFPAVKRYNQKRTLRQKLRMEERFKKKEKSLRKRLAKKG 617
+PPEKVH+ELF++W++PFK+PS+P+VKRYN+ RTL QKLRMEERFKKKE+ LRK+LAKKG
Sbjct: 121 MPPEKVHKELFKDWNIPFKQPSYPSVKRYNRNRTLTQKLRMEERFKKKERLLRKKLAKKG 180
Query: 618 IDYNFPSLVLHKDEEKPSFTGPRNSRKHQXXXXXXXXXXXXXXNTPEKTVDSQGPTPVCT 797
IDY+FPSL+L K E S T + S K Q +TPEKTVDSQGPTPVCT
Sbjct: 181 IDYDFPSLILQK-TESISKTNRQTSTKGQ-VLRKKKKKVSGTLDTPEKTVDSQGPTPVCT 238
Query: 798 PTFLEKRKSEVAKMNDDDKDHEIVFQQPVSGAKEETQETQIPTSSRKKEEKQS 956
PTFLE+RKS+VA++NDDDKD EIVF+QP+S KEE QETQ PT SRKK + S
Sbjct: 239 PTFLERRKSQVAELNDDDKDDEIVFKQPISCVKEEIQETQTPTHSRKKRRRSS 291
>ref|NP_056050.1| cleavage stimulation factor subunit 2 tau variant [Homo sapiens].
Length = 616
Score = 60.1 bits (144), Expect = 3e-09
Identities = 30/84 (35%), Positives = 46/84 (54%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G+V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGSVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|NP_001316.1| cleavage stimulation factor subunit 2 [Homo sapiens].
Length = 577
Score = 59.3 bits (142), Expect = 6e-09
Identities = 30/84 (35%), Positives = 45/84 (53%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG++P E Q++ FS+ G V RL ++TG KGYGF E++ ++ A A +
Sbjct: 18 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 77
Query: 396 NNYLFGERLLKCHIIPPEKVHEEL 467
N F R L+ EK EEL
Sbjct: 78 NGREFSGRALRVDNAASEKNKEEL 101
>ref|NP_057108.2| RNA-binding motif protein, X-linked 2 [Homo sapiens].
Length = 322
Score = 56.6 bits (135), Expect = 4e-08
Identities = 48/179 (26%), Positives = 80/179 (44%), Gaps = 16/179 (8%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
I++G LP L E I FSQ+G + + L R KKTG SKG+ F+ +E + +A +
Sbjct: 38 IFLGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTILAVDNF 97
Query: 396 NNYLFGERLLKCHIIP---PEKVHEEL------FREWHMPFKRPSFPAVKRYNQKRTLRQ 548
N R ++ + K EE+ +E + PS P++ ++ +
Sbjct: 98 NGIKIKGRTIRVDHVSNYRAPKDSEEIDDVTRQLQEKGCGARTPS-PSLSESSEDEKPTK 156
Query: 549 KLRMEERFKKKEKSLRKRLAKKGIDYNFPS-------LVLHKDEEKPSFTGPRNSRKHQ 704
K + +++ KKK+K K A + + PS V KD+ P +NS + Q
Sbjct: 157 KHKKDKKEKKKKKK-EKEKADREVQAEQPSSSSPRRKTVKEKDDTGPKKHSSKNSERAQ 214
>ref|NP_055829.2| RNA-binding protein 34 isoform 1 [Homo sapiens].
Length = 430
Score = 56.6 bits (135), Expect = 4e-08
Identities = 27/83 (32%), Positives = 47/83 (56%)
Frame = +3
Query: 216 IYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAAETM 395
++VG+LP + E+ I +F G++ +R+ R K TG KG+G+V FE+ D +A +
Sbjct: 289 VFVGNLPYKVEESAIEKHFLDCGSIMAVRIVRDKMTGIGKGFGYVLFENTDSVHLALKLN 348
Query: 396 NNYLFGERLLKCHIIPPEKVHEE 464
N+ L G +L + EK ++
Sbjct: 349 NSELMGRKLRVMRSVNKEKFKQQ 371
>ref|NP_001229529.1| RNA-binding protein 39 isoform d [Homo sapiens].
Length = 502
Score = 55.5 bits (132), Expect = 8e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 221 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 280
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 281 CAKKALEQLNGFELAGRPMK 300
>ref|NP_001229528.1| RNA-binding protein 39 isoform c [Homo sapiens].
Length = 508
Score = 55.5 bits (132), Expect = 8e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 221 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 280
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 281 CAKKALEQLNGFELAGRPMK 300
>ref|NP_004893.1| RNA-binding protein 39 isoform b [Homo sapiens].
Length = 524
Score = 55.5 bits (132), Expect = 8e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 243 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 302
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 303 CAKKALEQLNGFELAGRPMK 322
>ref|NP_909122.1| RNA-binding protein 39 isoform a [Homo sapiens].
Length = 530
Score = 55.5 bits (132), Expect = 8e-08
Identities = 27/80 (33%), Positives = 42/80 (52%)
Frame = +3
Query: 189 EKQKLTPGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESED 368
+K P +YVG L ++ E +R F FG + ++L +TG SKGYGF+ F +
Sbjct: 243 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 302
Query: 369 VARIAAETMNNYLFGERLLK 428
A+ A E +N + R +K
Sbjct: 303 CAKKALEQLNGFELAGRPMK 322
>ref|NP_001070820.1| probable RNA-binding protein 23 isoform 3 [Homo sapiens].
Length = 405
Score = 53.9 bits (128), Expect = 2e-07
Identities = 26/74 (35%), Positives = 39/74 (52%)
Frame = +3
Query: 207 PGVIYVGHLPPSLYETQIRAYFSQFGTVTRLRLSRSKKTGNSKGYGFVEFESEDVARIAA 386
P +YVG L ++ E +R F FG + + L + TG SKGYGF+ F + AR A
Sbjct: 228 PMRLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRAL 287
Query: 387 ETMNNYLFGERLLK 428
E +N + R ++
Sbjct: 288 EQLNGFELAGRPMR 301
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 36,355,049
Number of extensions: 870622
Number of successful extensions: 3281
Number of sequences better than 1.0e-05: 52
Number of HSP's gapped: 3228
Number of HSP's successfully gapped: 55
Length of query: 342
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 239
Effective length of database: 14,901,872
Effective search space: 3561547408
Effective search space used: 3561547408
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-012952
(1027 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|JH118483.1| Sus scrofa unplaced genomic scaffold ChrUScaf590 432 e-118
Sscrofa_Chr15 432 e-118
>gb|JH118483.1| Sus scrofa unplaced genomic scaffold ChrUScaf590
Length = 24079
Score = 432 bits (218), Expect = e-118
Identities = 251/258 (97%), Gaps = 3/258 (1%)
Strand = Plus / Plus
Query: 773 ccagggccccacaccagtgtgtacaccaacatttttggagaaacgaaagtcagaagtggc 832
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10894 ccagggccccacaccagtgtgtacaccaacatttttggagaaacgaaagtcagaagtggc 10953
Query: 833 taaaatgaatgatgatgataaagatcacgaaattgttttccagcagcccgtatctggtgc 892
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 10954 taaaatgaatgatgatgataaagatcacgaaattgttttcaagcagcccgtatctggtgc 11013
Query: 893 aaaagaagaaacacaggagactcagatacctacaagttcaaggaaaaa-agaag-aaaaa 950
|||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||
Sbjct: 11014 aaaagaagaaacacaggagactcagatacctacaagttcaaggaaaaagagaagaaaaaa 11073
Query: 951 caatcagtgattcggaatgtattgtgtatag-tctgaaaaatgtgaatttatgatgaaag 1009
||||||||||||| ||||||||||||||||| |||||||||||||| ||||||||| |||
Sbjct: 11074 caatcagtgattctgaatgtattgtgtatagttctgaaaaatgtgattttatgatggaag 11133
Query: 1010 ctgacttctttgtattta 1027
||||||||||||||||||
Sbjct: 11134 ctgacttctttgtattta 11151
Score = 278 bits (140), Expect = 6e-72
Identities = 140/140 (100%)
Strand = Plus / Plus
Query: 181 agcaaccagagaaacaaaaacttactcctggagtaatctatgtgggccacttacctccat 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5589 agcaaccagagaaacaaaaacttactcctggagtaatctatgtgggccacttacctccat 5648
Query: 241 cgctatatgaaacccagatccgagcatatttctcccagtttggcactgttacaagattga 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5649 cgctatatgaaacccagatccgagcatatttctcccagtttggcactgttacaagattga 5708
Query: 301 gactgtccaggagtaaaaag 320
||||||||||||||||||||
Sbjct: 5709 gactgtccaggagtaaaaag 5728
Score = 149 bits (75), Expect = 4e-33
Identities = 75/75 (100%)
Strand = Plus / Plus
Query: 703 aggctttacggaagaagaagaagaaagaggccttggccgctcttaacacccctgagaaga 762
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10151 aggctttacggaagaagaagaagaaagaggccttggccgctcttaacacccctgagaaga 10210
Query: 763 cagtggatagccagg 777
|||||||||||||||
Sbjct: 10211 cagtggatagccagg 10225
Score = 143 bits (72), Expect = 2e-31
Identities = 72/72 (100%)
Strand = Plus / Plus
Query: 2 cttccgctttggaaccctacaggactcgcatttccgggagctccgcgtggatttggttag 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3947 cttccgctttggaaccctacaggactcgcatttccgggagctccgcgtggatttggttag 4006
Query: 62 cccggtagcagg 73
||||||||||||
Sbjct: 4007 cccggtagcagg 4018
Score = 129 bits (65), Expect = 3e-27
Identities = 65/65 (100%)
Strand = Plus / Plus
Query: 641 ggtcttacataaagatgaggaaaagccttcattcactggtcctcgaaattccagaaagca 700
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9967 ggtcttacataaagatgaggaaaagccttcattcactggtcctcgaaattccagaaagca 10026
Query: 701 ccagg 705
|||||
Sbjct: 10027 ccagg 10031
>Sscrofa_Chr15
|| Length = 157681621
Score = 432 bits (218), Expect = e-118
Identities = 251/258 (97%), Gaps = 3/258 (1%)
Strand = Plus / Plus
Query: 773 ccagggccccacaccagtgtgtacaccaacatttttggagaaacgaaagtcagaagtggc 832
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34691609 ccagggccccacaccagtgtgtacaccaacatttttggagaaacgaaagtcagaagtggc 34691668
Query: 833 taaaatgaatgatgatgataaagatcacgaaattgttttccagcagcccgtatctggtgc 892
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 34691669 taaaatgaatgatgatgataaagatcacgaaattgttttcaagcagcccgtatctggtgc 34691728
Query: 893 aaaagaagaaacacaggagactcagatacctacaagttcaaggaaaaa-agaag-aaaaa 950
|||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||
Sbjct: 34691729 aaaagaagaaacacaggagactcagatacctacaagttcaaggaaaaagagaagaaaaaa 34691788
Query: 951 caatcagtgattcggaatgtattgtgtatag-tctgaaaaatgtgaatttatgatgaaag 1009
||||||||||||| ||||||||||||||||| |||||||||||||| ||||||||| |||
Sbjct: 34691789 caatcagtgattctgaatgtattgtgtatagttctgaaaaatgtgattttatgatggaag 34691848
Query: 1010 ctgacttctttgtattta 1027
||||||||||||||||||
Sbjct: 34691849 ctgacttctttgtattta 34691866
Score = 424 bits (214), Expect = e-116
Identities = 214/214 (100%)
Strand = Plus / Plus
Query: 430 gtcatatcataccacctgaaaaagtacatgaagaactttttagagagtggcacatgccat 489
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34688385 gtcatatcataccacctgaaaaagtacatgaagaactttttagagagtggcacatgccat 34688444
Query: 490 ttaaaaggccgtcgttcccggcagtgaaacgctataatcagaagcggacgcttcgacaaa 549
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34688445 ttaaaaggccgtcgttcccggcagtgaaacgctataatcagaagcggacgcttcgacaaa 34688504
Query: 550 agctgcggatggaggagagatttaaaaagaaggaaaaatctctcaggaagagattagcta 609
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34688505 agctgcggatggaggagagatttaaaaagaaggaaaaatctctcaggaagagattagcta 34688564
Query: 610 aaaagggaattgattataattttccttcattggt 643
||||||||||||||||||||||||||||||||||
Sbjct: 34688565 aaaagggaattgattataattttccttcattggt 34688598
Score = 359 bits (181), Expect = 2e-96
Identities = 181/181 (100%)
Strand = Plus / Plus
Query: 2 cttccgctttggaaccctacaggactcgcatttccgggagctccgcgtggatttggttag 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34678355 cttccgctttggaaccctacaggactcgcatttccgggagctccgcgtggatttggttag 34678414
Query: 62 cccggtagcaggcttaatggcggctctcgctgcccaggttgggccgctcttgtccctgaa 121
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34678415 cccggtagcaggcttaatggcggctctcgctgcccaggttgggccgctcttgtccctgaa 34678474
Query: 122 tccgcaagaagatgctaagttccagaagaaggtagcgctggctcgccgtcgcgcaaccaa 181
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34678475 tccgcaagaagatgctaagttccagaagaaggtagcgctggctcgccgtcgcgcaaccaa 34678534
Query: 182 g 182
|
Sbjct: 34678535 g 34678535
Score = 278 bits (140), Expect = 6e-72
Identities = 140/140 (100%)
Strand = Plus / Plus
Query: 181 agcaaccagagaaacaaaaacttactcctggagtaatctatgtgggccacttacctccat 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34680030 agcaaccagagaaacaaaaacttactcctggagtaatctatgtgggccacttacctccat 34680089
Query: 241 cgctatatgaaacccagatccgagcatatttctcccagtttggcactgttacaagattga 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34680090 cgctatatgaaacccagatccgagcatatttctcccagtttggcactgttacaagattga 34680149
Query: 301 gactgtccaggagtaaaaag 320
||||||||||||||||||||
Sbjct: 34680150 gactgtccaggagtaaaaag 34680169
Score = 224 bits (113), Expect = 7e-56
Identities = 113/113 (100%)
Strand = Plus / Plus
Query: 319 agactggaaatagcaaaggctatggctttgtggagtttgaatctgaagatgttgccagaa 378
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34687277 agactggaaatagcaaaggctatggctttgtggagtttgaatctgaagatgttgccagaa 34687336
Query: 379 tagctgctgaaacaatgaacaactacctttttggagaaagactcttgaagtgt 431
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34687337 tagctgctgaaacaatgaacaactacctttttggagaaagactcttgaagtgt 34687389
Score = 149 bits (75), Expect = 4e-33
Identities = 75/75 (100%)
Strand = Plus / Plus
Query: 703 aggctttacggaagaagaagaagaaagaggccttggccgctcttaacacccctgagaaga 762
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34690866 aggctttacggaagaagaagaagaaagaggccttggccgctcttaacacccctgagaaga 34690925
Query: 763 cagtggatagccagg 777
|||||||||||||||
Sbjct: 34690926 cagtggatagccagg 34690940
Score = 129 bits (65), Expect = 3e-27
Identities = 65/65 (100%)
Strand = Plus / Plus
Query: 641 ggtcttacataaagatgaggaaaagccttcattcactggtcctcgaaattccagaaagca 700
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 34690682 ggtcttacataaagatgaggaaaagccttcattcactggtcctcgaaattccagaaagca 34690741
Query: 701 ccagg 705
|||||
Sbjct: 34690742 ccagg 34690746
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 37,061,148
Number of extensions: 1073
Number of successful extensions: 1073
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1069
Number of HSP's successfully gapped: 12
Length of query: 1027
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1006
Effective length of database: 2,808,413,156
Effective search space: 2825263634936
Effective search space used: 2825263634936
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)