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-013628
(988 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: 35,519,323
Number of extensions: 973789
Number of successful extensions: 6362
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 6194
Number of HSP's successfully gapped: 0
Length of query: 329
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 226
Effective length of database: 15,440,896
Effective search space: 3489642496
Effective search space used: 3489642496
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)
Animal-Genome cDNA 20110601C-013628
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-013628
(988 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: 33,943,096
Number of extensions: 937183
Number of successful extensions: 5881
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 5733
Number of HSP's successfully gapped: 0
Length of query: 329
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 226
Effective length of database: 14,273,310
Effective search space: 3225768060
Effective search space used: 3225768060
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 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-013628
(988 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_001926115.2| PREDICTED: 28S ribosomal protein S22, mitoch... 77 1e-14
>ref|XP_001926115.2| PREDICTED: 28S ribosomal protein S22, mitochondrial [Sus scrofa].
Length = 323
Score = 77.4 bits (189), Expect = 1e-14
Identities = 40/57 (70%), Positives = 40/57 (70%)
Frame = +3
Query: 9 MATLKASALLRSLQTNSCGTGRVCFPVXXXXXXXXXXXXXXXXCGTGTLCRGLGSES 179
MATLKASALLRSLQTNSCGTGRVCFPV GTGTLCRGLGSES
Sbjct: 1 MATLKASALLRSLQTNSCGTGRVCFPVRARPRPRALLQPLPGASGTGTLCRGLGSES 57
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: 21,889,261
Number of extensions: 605354
Number of successful extensions: 3791
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3694
Number of HSP's successfully gapped: 1
Length of query: 329
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 230
Effective length of database: 8,879,129
Effective search space: 2042199670
Effective search space used: 2042199670
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-013628
(988 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: 29,325,819
Number of extensions: 776366
Number of successful extensions: 4211
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4093
Number of HSP's successfully gapped: 0
Length of query: 329
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 227
Effective length of database: 12,553,887
Effective search space: 2849732349
Effective search space used: 2849732349
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-013628
(988 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: 34,732,520
Number of extensions: 940080
Number of successful extensions: 5347
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 5203
Number of HSP's successfully gapped: 0
Length of query: 329
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 226
Effective length of database: 14,901,872
Effective search space: 3367823072
Effective search space used: 3367823072
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-013628
(988 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_Chr13 1673 0.0
gb|GL895393.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 1287 0.0
>Sscrofa_Chr13
|| Length = 218635234
Score = 1673 bits (844), Expect = 0.0
Identities = 847/848 (99%)
Strand = Plus / Plus
Query: 1 ggataattatggctaccctcaaagcgtctgcgttgctgcggagcctccagacaaattctt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87874662 ggataattatggctaccctcaaagcgtctgcgttgctgcggagcctccagacaaattctt 87874721
Query: 61 gcggcacggggcgggtttgtttcccggttcgcgctcggccccggccccgcgccctgctcc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87874722 gcggcacggggcgggtttgtttcccggttcgcgctcggccccggccccgcgccctgctcc 87874781
Query: 121 agcctctgcccggggcctgtgggacgggaacactatgccgtgggctcggctccgagtccg 180
||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87874782 agcctctgcccggggccagtgggacgggaacactatgccgtgggctcggctccgagtccg 87874841
Query: 181 gtaagtgacccaccagacgtccgctggggcgttctcgccggagacccagagcctgcttca 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87874842 gtaagtgacccaccagacgtccgctggggcgttctcgccggagacccagagcctgcttca 87874901
Query: 241 ggctggggagacccacgcgggcgccccggcccttcccgcagcgcgtccttagacccaggc 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87874902 ggctggggagacccacgcgggcgccccggcccttcccgcagcgcgtccttagacccaggc 87874961
Query: 301 ggctctctcctgtacccgcagagtctgtcgtcgctcgcgtttgttcgttcgctctctcac 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87874962 ggctctctcctgtacccgcagagtctgtcgtcgctcgcgtttgttcgttcgctctctcac 87875021
Query: 361 ttaagcatcagtgcctgagctccgctctgcaaagcctcgagctgggtttagggaataaag 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875022 ttaagcatcagtgcctgagctccgctctgcaaagcctcgagctgggtttagggaataaag 87875081
Query: 421 tggactaagactgacacgggttttgccctgagggaacgccagccccactggggagtggca 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875082 tggactaagactgacacgggttttgccctgagggaacgccagccccactggggagtggca 87875141
Query: 481 gtgaagcgtgactcggactgtgatacggaacgcagagcagagtggcgctcaaatggtgat 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875142 gtgaagcgtgactcggactgtgatacggaacgcagagcagagtggcgctcaaatggtgat 87875201
Query: 541 ggaagggcgaggaagggtttctagaaaatatgaccgaagctgagacctggtttaccgtgc 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875202 ggaagggcgaggaagggtttctagaaaatatgaccgaagctgagacctggtttaccgtgc 87875261
Query: 601 tagggagaaaacaagaaacattccaaacggtgaatacagcataagcgaaagtccggaaat 660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875262 tagggagaaaacaagaaacattccaaacggtgaatacagcataagcgaaagtccggaaat 87875321
Query: 661 gagactgaacaggtggtttaggaacccactttggaagtagggttgataaggatggttatg 720
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875322 gagactgaacaggtggtttaggaacccactttggaagtagggttgataaggatggttatg 87875381
Query: 721 actttgaatctaggtttaaaaaggagaaatcggtgtatcttctcaagtgtctggcttgag 780
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875382 actttgaatctaggtttaaaaaggagaaatcggtgtatcttctcaagtgtctggcttgag 87875441
Query: 781 cagttgagtggagagtagtcatacacaccaagccagagaagactaattataggacagttt 840
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 87875442 cagttgagtggagagtagtcatacacaccaagccagagaagactaattataggacagttt 87875501
Query: 841 cttagctg 848
||||||||
Sbjct: 87875502 cttagctg 87875509
Score = 165 bits (83), Expect = 6e-38
Identities = 100/103 (97%), Gaps = 2/103 (1%)
Strand = Plus / Plus
Query: 888 tagatgacgtaaggagttgtgaaaggaagccgaattaa-cgtctgttttggacccattaa 946
|||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 87875549 tagatgacgtaaggagttgtgaaaggaagccgaattaaacgtctgttttggacccattaa 87875608
Query: 947 -ttttaggtgccttagagattctagtgaaggtgtctggtatgc 988
|||||||||||||||||||||||||| |||||||||||||||
Sbjct: 87875609 attttaggtgccttagagattctagtggaggtgtctggtatgc 87875651
>gb|GL895393.1| Sus scrofa unplaced genomic scaffold chrU_scaffold3963
Length = 16971
Score = 1287 bits (649), Expect = 0.0
Identities = 649/649 (100%)
Strand = Plus / Minus
Query: 200 tccgctggggcgttctcgccggagacccagagcctgcttcaggctggggagacccacgcg 259
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2172 tccgctggggcgttctcgccggagacccagagcctgcttcaggctggggagacccacgcg 2113
Query: 260 ggcgccccggcccttcccgcagcgcgtccttagacccaggcggctctctcctgtacccgc 319
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2112 ggcgccccggcccttcccgcagcgcgtccttagacccaggcggctctctcctgtacccgc 2053
Query: 320 agagtctgtcgtcgctcgcgtttgttcgttcgctctctcacttaagcatcagtgcctgag 379
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2052 agagtctgtcgtcgctcgcgtttgttcgttcgctctctcacttaagcatcagtgcctgag 1993
Query: 380 ctccgctctgcaaagcctcgagctgggtttagggaataaagtggactaagactgacacgg 439
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1992 ctccgctctgcaaagcctcgagctgggtttagggaataaagtggactaagactgacacgg 1933
Query: 440 gttttgccctgagggaacgccagccccactggggagtggcagtgaagcgtgactcggact 499
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1932 gttttgccctgagggaacgccagccccactggggagtggcagtgaagcgtgactcggact 1873
Query: 500 gtgatacggaacgcagagcagagtggcgctcaaatggtgatggaagggcgaggaagggtt 559
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1872 gtgatacggaacgcagagcagagtggcgctcaaatggtgatggaagggcgaggaagggtt 1813
Query: 560 tctagaaaatatgaccgaagctgagacctggtttaccgtgctagggagaaaacaagaaac 619
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1812 tctagaaaatatgaccgaagctgagacctggtttaccgtgctagggagaaaacaagaaac 1753
Query: 620 attccaaacggtgaatacagcataagcgaaagtccggaaatgagactgaacaggtggttt 679
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1752 attccaaacggtgaatacagcataagcgaaagtccggaaatgagactgaacaggtggttt 1693
Query: 680 aggaacccactttggaagtagggttgataaggatggttatgactttgaatctaggtttaa 739
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1692 aggaacccactttggaagtagggttgataaggatggttatgactttgaatctaggtttaa 1633
Query: 740 aaaggagaaatcggtgtatcttctcaagtgtctggcttgagcagttgagtggagagtagt 799
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1632 aaaggagaaatcggtgtatcttctcaagtgtctggcttgagcagttgagtggagagtagt 1573
Query: 800 catacacaccaagccagagaagactaattataggacagtttcttagctg 848
|||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1572 catacacaccaagccagagaagactaattataggacagtttcttagctg 1524
Score = 295 bits (149), Expect = 2e-77
Identities = 152/153 (99%)
Strand = Plus / Minus
Query: 14 taccctcaaagcgtctgcgttgctgcggagcctccagacaaattcttgcggcacggggcg 73
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2425 taccctcaaagcgtctgcgttgctgcggagcctccagacaaattcttgcggcacggggcg 2366
Query: 74 ggtttgtttcccggttcgcgctcggccccggccccgcgccctgctccagcctctgcccgg 133
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2365 ggtttgtttcccggttcgcgctcggccccggccccgcgccctgctccagcctctgcccgg 2306
Query: 134 ggcctgtgggacgggaacactatgccgtgggct 166
|||| ||||||||||||||||||||||||||||
Sbjct: 2305 ggccagtgggacgggaacactatgccgtgggct 2273
Score = 93.7 bits (47), Expect = 2e-16
Identities = 54/55 (98%), Gaps = 1/55 (1%)
Strand = Plus / Minus
Query: 888 tagatgacgtaaggagttgtgaaaggaagccgaatt-aacgtctgttttggaccc 941
|||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 1484 tagatgacgtaaggagttgtgaaaggaagccgaattaaacgtctgttttggaccc 1430
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: 22,960,198
Number of extensions: 171
Number of successful extensions: 171
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 169
Number of HSP's successfully gapped: 5
Length of query: 988
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 967
Effective length of database: 2,808,413,156
Effective search space: 2715735521852
Effective search space used: 2715735521852
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)