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-003578
(1218 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
***** No hits found ******
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: 49,711,514
Number of extensions: 1431890
Number of successful extensions: 4355
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4350
Number of HSP's successfully gapped: 0
Length of query: 406
Length of database: 17,681,374
Length adjustment: 105
Effective length of query: 301
Effective length of database: 14,207,134
Effective search space: 4276347334
Effective search space used: 4276347334
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 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-003578
(1218 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
***** No hits found ******
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: 51,742,836
Number of extensions: 1466578
Number of successful extensions: 4507
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4505
Number of HSP's successfully gapped: 0
Length of query: 406
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 301
Effective length of database: 15,374,224
Effective search space: 4627641424
Effective search space used: 4627641424
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 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-003578
(1218 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
***** No hits found ******
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: 50,803,737
Number of extensions: 1442274
Number of successful extensions: 4205
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4201
Number of HSP's successfully gapped: 0
Length of query: 406
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 301
Effective length of database: 14,835,944
Effective search space: 4465619144
Effective search space used: 4465619144
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 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-003578
(1218 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
***** No hits found ******
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: 43,050,203
Number of extensions: 1207869
Number of successful extensions: 3672
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3666
Number of HSP's successfully gapped: 0
Length of query: 406
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 302
Effective length of database: 12,493,815
Effective search space: 3773132130
Effective search space used: 3773132130
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-003578
(1218 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|XP_003121773.2| PREDICTED: hypothetical protein LOC100511731... 204 8e-53
>ref|XP_003121773.2| PREDICTED: hypothetical protein LOC100511731 [Sus scrofa].
Length = 106
Score = 204 bits (519), Expect = 8e-53
Identities = 94/97 (96%), Positives = 96/97 (98%)
Frame = +3
Query: 399 KGEGQGLKPSQARGLAHTACRTRERGRHHLTGTEGALGPEKTFAHCKSNESLKHPGPPWS 578
+GEGQGLKPSQARGLAHTACRTRERGRHHLT TEGALGPEKTFA+CKSNESLKHPGPPWS
Sbjct: 10 QGEGQGLKPSQARGLAHTACRTRERGRHHLTDTEGALGPEKTFAYCKSNESLKHPGPPWS 69
Query: 579 SRGELRRRDEILGSEMGSRSRPLESSPRMPYQDLCHW 689
SRGELRRRDEILGSEMGSRSRPLESSPRMPYQDLCHW
Sbjct: 70 SRGELRRRDEILGSEMGSRSRPLESSPRMPYQDLCHW 106
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: 32,021,343
Number of extensions: 923804
Number of successful extensions: 2948
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2943
Number of HSP's successfully gapped: 1
Length of query: 406
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 305
Effective length of database: 8,829,335
Effective search space: 2692947175
Effective search space used: 2692947175
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-003578
(1218 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Sscrofa_Chr01 1312 0.0
>Sscrofa_Chr01
|| Length = 315321322
Score = 1312 bits (662), Expect = 0.0
Identities = 665/666 (99%)
Strand = Plus / Minus
Query: 540 agtaatgaaagcctgaagcatccagggcccccctggagcagcagaggggagctcagacgc 599
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179918219 agtaatgaaagcctgaagcatccagggcccccctggagcagcagaggggagctcagacgc 179918160
Query: 600 cgcgatgagattctgggaagtgaaatgggctcaagatctcgaccactagagagctctcca 659
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179918159 cgcgatgagattctgggaagtgaaatgggctcaagatctcgaccactagagagctctcca 179918100
Query: 660 aggatgccctaccaggacctttgtcactggtgaactgtttcctccccaagattctttcca 719
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179918099 aggatgccctaccaggacctttgtcactggtgaactgtttcctccccaagattctttcca 179918040
Query: 720 gctgagctaagagatttctggagcctctcgccatggtcagaacatctcttgaatgaccag 779
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179918039 gctgagctaagagatttctggagcctctcgccatggtcagaacatctcttgaatgaccag 179917980
Query: 780 gaaatggggcttcctgtttaaatctctcgggcagagacaaggcagatgagcctgcctaag 839
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179917979 gaaatggggcttcctgtttaaatctctcgggcagagacaaggcagatgagcctgcctaag 179917920
Query: 840 tctttagaaagagctgtagggaaggccagagatggctcatcatgccaagatgtccactgt 899
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179917919 tctttagaaagagctgtagggaaggccagagatggctcatcatgccaagatgtccactgt 179917860
Query: 900 ggccgcacccagtgtgccagaggtctatggcagcgataggggttacctgggaatctaggg 959
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179917859 ggccgcacccagtgtgccagaggtctatggcagcgataggggttacctgggaatctaggg 179917800
Query: 960 ttggtattcggtgtgagtcttggtgaaagtgcccaggggaaaagttcccatgaagacagt 1019
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 179917799 ttggtattcggtgtgagtcttggtgaaagtgcccaggggaaaagttcccctgaagacagt 179917740
Query: 1020 gagtctaacagtggccaagtggcaccttcctgctgcctggcacacctgtaaaggtgagcc 1079
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179917739 gagtctaacagtggccaagtggcaccttcctgctgcctggcacacctgtaaaggtgagcc 179917680
Query: 1080 agggtcacagacaggagctggaggatgtcagtcacaaacaaatcaaaatagtgaaacaga 1139
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179917679 agggtcacagacaggagctggaggatgtcagtcacaaacaaatcaaaatagtgaaacaga 179917620
Query: 1140 aaacaaggggctgatgctgcacagttaaaacatatatatgttatagatcttgatagaact 1199
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179917619 aaacaaggggctgatgctgcacagttaaaacatatatatgttatagatcttgatagaact 179917560
Query: 1200 ggaaag 1205
||||||
Sbjct: 179917559 ggaaag 179917554
Score = 999 bits (504), Expect = 0.0
Identities = 529/538 (98%), Gaps = 1/538 (0%)
Strand = Plus / Minus
Query: 1 gcttccaaatattggtcaagagctctaagtaggatgagccaaggatacagttaatgtaat 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921824 gcttccaaatattggtcaagagctctaagtaggatgagccaaggatacagttaatgtaat 179921765
Query: 61 aggttcacacgatcaggtgacnnnnnnngggtctagaaatctgaggaggtgacgatgtac 120
||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 179921764 aggttcacacgatcaggtgactttttt-gggtctagaaatctgaggaggtgacgatgtac 179921706
Query: 121 tgaacggcagtcttcctgcgaggaaagagttaaaaacacatccagatcagggtttctgag 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921705 tgaacggcagtcttcctgcgaggaaagagttaaaaacacatccagatcagggtttctgag 179921646
Query: 181 ggacaaggtgttcagcagggctgagggcctccctttctgccggctgctcccccacgcagc 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921645 ggacaaggtgttcagcagggctgagggcctccctttctgccggctgctcccccacgcagc 179921586
Query: 241 aggggtgatgcggaccttccggtcctgctgagtgtgcttgaccaaaggtgacgatgacta 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921585 aggggtgatgcggaccttccggtcctgctgagtgtgcttgaccaaaggtgacgatgacta 179921526
Query: 301 agggctaaggccgtgccctccctccctccaaatcgatcctttaatgtgacttatcagaaa 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921525 agggctaaggccgtgccctccctccctccaaatcgatcctttaatgtgacttatcagaaa 179921466
Query: 361 gagaaagaactgtttactttcaaaccctggatcccataaagggagaggggcaaggcctaa 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921465 gagaaagaactgtttactttcaaaccctggatcccataaagggagaggggcaaggcctaa 179921406
Query: 421 aaccctcacaagctcgaggcttggcccacacagcctgcagaactagggagcgcggaagac 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 179921405 aaccctcacaagctcgaggcttggcccacacagcctgcagaactagggagcgcggaagac 179921346
Query: 481 accatctcacgggcacagaaggggccctgggcccagagaagaccttcgcacactgcaa 538
|||||||||||| ||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 179921345 accatctcacggacacagaaggggccctgggcccagagaagaccttcgcatactgcaa 179921288
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: 36,762,710
Number of extensions: 321
Number of successful extensions: 321
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 3
Length of query: 1218
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1197
Effective length of database: 2,808,413,156
Effective search space: 3361670547732
Effective search space used: 3361670547732
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)