BLASTN 2.2.26+
Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.
Database: TAIR10_cdna_20110103_representative_gene_model_updated
33,602 sequences; 51,074,197 total letters
Query= Ahg904586
Length=1629
Score E
Sequences producing significant alignments: (Bits) Value
AT3G16380.1 | Symbols: PAB6 | poly(A) binding protein 6 | chr3:... 2012 0.0
> AT3G16380.1 | Symbols: PAB6 | poly(A) binding protein 6 | chr3:5558676-5560993
REVERSE LENGTH=1614
Length=1614
Score = 2012 bits (1089), Expect = 0.0
Identities = 1458/1633 (89%), Gaps = 37/1633 (2%)
Strand=Plus/Plus
Query 1 ATGGCGCTCGTGAAATCGGAAACGCAGGCGCTAGAAAACCACCAGCATTCTTCAATGTTC 60
||||||||||||||| |||||||||||||| ||| |||||||||||||||||||| |||
Sbjct 1 ATGGCGCTCGTGAAAACGGAAACGCAGGCGTTAGGAAACCACCAGCATTCTTCAAGGTTT 60
Query 61 GCTTCGCTTTACGTCGGTGATCTTAGTCCAGACGTGACGGAGCAAGATCTCATCCA-CAG 119
| |||||||||||||||||||||||| ||||||||||||||| |||||||||| | ||
Sbjct 61 GGTTCGCTTTACGTCGGTGATCTTAGCCCAGACGTGACGGAGAAAGATCTCATTGATAAG 120
Query 120 ATTCTCCTTGACTGTTCCGGTACTCTCCGTTCATCTTTGCCGTAACTCTGTCACCGGAAA 179
||||| |||| |||||||||| | |||||||||||||||||||||||||||||||||||
Sbjct 121 -TTCTCTTTGAATGTTCCGGTAGTGTCCGTTCATCTTTGCCGTAACTCTGTCACCGGAAA 179
Query 180 ATCCTTGTGTTACGCTTACATCAACTTTGATTCACCTTTCAGCGCATCGAATGCGATGGC 239
|||| |||||||||||||||||||||| |||||||||||||||||||||||||| ||| |
Sbjct 180 ATCCATGTGTTACGCTTACATCAACTTCGATTCACCTTTCAGCGCATCGAATGCTATGAC 239
Query 240 TCGCTTAAACCACACTGATTTGAAGGGAAAGGCTATGCGAATAATGTGGTCTCAGAGGGA 299
|||||||||||| | |||||||||||||||||||||||||||||||||||||||||||||
Sbjct 240 TCGCTTAAACCATAGTGATTTGAAGGGAAAGGCTATGCGAATAATGTGGTCTCAGAGGGA 299
Query 300 TCTTTCGTACCGTCGTCGTACT-G----GG-TTTGGAAATCTATACGTCAAGAATCTAGA 353
|||| ||||||||||||||||| | || |||| |||||||||||| |||||||| ||
Sbjct 300 TCTTGCGTACCGTCGTCGTACTCGTACTGGTTTTGCAAATCTATACGTAAAGAATCTGGA 359
Query 354 CATCTCGATTACTAGCAGTGGCTTAGAGCGAATGTTTAACCCCTTTGGTGT-CATACTTT 412
| |||||||||||||||| ||||||||||||||||| |||||||||| | ||||||||
Sbjct 360 TAGCTCGATTACTAGCAGTTGCTTAGAGCGAATGTTTTGCCCCTTTGGT-TCCATACTTT 418
Query 413 CTTGCAAAGTCGTTGAAGAGAATGGACAAAGCAAAGGTTTTGGCTTTGTTCAGTTTGAGA 472
||||||||||||||||||||||||| ||||| |||||||||||||||||||||||||| |
Sbjct 419 CTTGCAAAGTCGTTGAAGAGAATGGCCAAAGTAAAGGTTTTGGCTTTGTTCAGTTTGATA 478
Query 473 CAGAGCAATCTGCTGTAACTGCTCGCTCTGCTCTTCATGGCTCTATGGTTGATGGCAAGA 532
||||||||||||||||| ||||||| |||||||| || |||||||||||| |||||||||
Sbjct 479 CAGAGCAATCTGCTGTATCTGCTCGTTCTGCTCTCCACGGCTCTATGGTTTATGGCAAGA 538
Query 533 AACTGTTTGTAGCCAAGTTTATCAACAAGAATGAAAGAGTTGCTATGGCAGGGAATAAAG 592
|||||||||| |||||||| ||||||||| ||||||||| ||||||||||| ||| ||
Sbjct 539 AACTGTTTGTTGCCAAGTTCATCAACAAGGATGAAAGAGCAGCTATGGCAGGAAATCAA- 597
Query 593 GATTC-ACAAACGTTTATGTGAAGAATCTTATCGAAAATATTACTGAGGACAT-TCTACA 650
|| || ||||||||||||||||||||||| ||||||| | |||| || || | ||||||
Sbjct 598 GACTCTACAAACGTTTATGTGAAGAATCTGATCGAAACTGTTACAGATGA-TTGTCTACA 656
Query 651 TAGACTGTTTTCTCAGTATGGAACAGTCTCTAGTGTTGTGGTTATGAGGGATGGAATGGG 710
|| |||||||||||| |||||||| ||||||||||||||||||||||||||||| |||||
Sbjct 657 TACACTGTTTTCTCAATATGGAACTGTCTCTAGTGTTGTGGTTATGAGGGATGGTATGGG 716
Query 711 AAGATCTAGAGGTTTCGGATTTGTCAACTTCTGCCATCCAGAAAATGCTAAGAAGGCTGT 770
|||||||||||||||||||||||| ||||||||| ||||||||||||||||||| ||| |
Sbjct 717 AAGATCTAGAGGTTTCGGATTTGTTAACTTCTGCAATCCAGAAAATGCTAAGAAAGCTAT 776
Query 771 GGACTCTCTCCATGGACGACAAGTTGGGTCGAAGACTTTGTTTGTTGGAAAAGCACTCAA 830
||| |||||| ||||| |||| |||| ||||||| ||||||||||| || ||||||||
Sbjct 777 GGAATCTCTCTGTGGACTACAACTTGGATCGAAGAAATTGTTTGTTGGTAAGGCACTCAA 836
Query 831 GAGAGATGAAAGGAGGGAGATGCTGAAACATAAATACAGGGACAACTTTATTGCCAAGTC 890
|| ||||||||||||||||||||||||||| |||| ||| |||||||||||||| ||| |
Sbjct 837 GAAAGATGAAAGGAGGGAGATGCTGAAACAGAAATTCAGTGACAACTTTATTGCAAAGCC 896
Query 891 TAACATGAGGTGGTCCAATCTGTACGTGAAGAACCTGAGTGAATCAATGAATGATACAAC 950
||||||||| |||||||||||||||||||||||| ||||||||||||||||||| ||||
Sbjct 897 TAACATGAGATGGTCCAATCTGTACGTGAAGAACTTGAGTGAATCAATGAATGAAACAAG 956
Query 951 ACTGCGAGAAATATTTGGAAGGTACGGGCAAATAGTCTCAGCTAAGGTGATGCGTCATGA 1010
|||||||||||| |||||| | || ||||||||||| |||||||| |||||| |||||||
Sbjct 957 ACTGCGAGAAATCTTTGGATGCTATGGGCAAATAGTTTCAGCTAAAGTGATGTGTCATGA 1016
Query 1011 GAATGGCAGAAGTAAAGGATTCGGCTTTGTGTGCTTCTCTAACCGTGAAGAGTCCAAACA 1070
||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct 1017 GAATGGCAGAAGTAAAGGATTCGGCTTTGTGTGCTTCTCTAACTGTGAAGAGTCCAAACA 1076
Query 1071 GGCTAAAAGATATCTCAATGGGTT-TTCAGTTGATGGTAAGTTATTAGTTGTTCGAGTTG 1129
|||||||||||||||||||||||| || ||||||||| ||| | |||||||||||||||
Sbjct 1077 GGCTAAAAGATATCTCAATGGGTTCTT-AGTTGATGGAAAGCCAATAGTTGTTCGAGTTG 1135
Query 1130 CCGAGCGCAAAGAGGATCGACTCAAGAGGTTGCAGCAATATTTTCATGCACAACCACGCC 1189
| |||||||||||||||||| ||||||||||||||||||||||||| ||||| |||||||
Sbjct 1136 CAGAGCGCAAAGAGGATCGAATCAAGAGGTTGCAGCAATATTTTCAGGCACAGCCACGCC 1195
Query 1190 ATTACACGCAAGCTCCT-CTTGTCCCTTCACCTGCTCAACCAGTCCTCTCATATGTG-CC 1247
| ||||||||||||||| || | ||||||||| ||||| |||||||||||||||||| ||
Sbjct 1196 AGTACACGCAAGCTCCTTCT-GCCCCTTCACCAGCTCAGCCAGTCCTCTCATATGTGTCC 1254
Query 1248 TAGCTCATATGGTTACTTGCAGCCATTCCATGTCGGGGCATCTTATTACTATATGGGCAC 1307
||||||||||||| ||| ||||||||||| |||||| |||||||||||||||||||||
Sbjct 1255 -AGCTCATATGGTTGCTTTCAGCCATTCCAGGTCGGGACATCTTATTACTATATGGGCAA 1313
Query 1308 TCAGTTACCACAAATGTCTGGCCACCAAAACATCACCAACGATGTTCCAGCTGGGAAAG- 1366
|||| | ||||||||||| || |||||||||||||||| | | ||||||||||||||||
Sbjct 1314 TCAGGTGCCACAAATGTCCGGTCACCAAAACATCACCACCTACGTTCCAGCTGGGAAAGT 1373
Query 1367 GTCCTCTCAAGGAGAAAAGATCATTGCACCTGGTCTACAAACACCCGGCTTATCCCGTTG 1426
| ||||||||||||| ||||||| |||| |||||||||||||| ||||||||||||||||
Sbjct 1374 G-CCTCTCAAGGAGAGAAGATCAATGCATCTGGTCTACAAACATCCGGCTTATCCCGTTG 1432
Query 1427 CCAAGAGTGAAGCTAAACAAA-AGCTGGTCTTTAAGGGTGAGGGTAACCGAACTTTAGAG 1485
||||||| | |||||||| | | ||||| ||||||||||||| |||| ||| |||||||
Sbjct 1433 CCAAGAGGGGTGCTAAACAGACA-CTGGTTTTTAAGGGTGAGGTTAACAGAAATTTAGAG 1491
Query 1486 GCTGCAACATGCTCAAAAGCAACAACATCTGATGAGGTCCTTAATGAAGAA-GCAAGCTC 1544
|||||||||||||| ||||||||||||||||| ||| || ||| |||||| | ||| |
Sbjct 1492 GCTGCAACATGCTCCAAAGCAACAACATCTGAGGAGAACCGTAAAGAAGAACG-AAGATT 1550
Query 1545 AACTTTGAT-AGCGATGTTGTCGTTGTCACCAAAAGAT-AAGGCAGAGAAATCAGGAAAA 1602
|||||| | || || || | ||||||| ||| | |||| |||| |||||||||||
Sbjct 1551 GACTTTG-TCAG-GAAA--GT--T-GTCACCAGAAG-TGAAGGTAGAGGAATCAGGAAAA 1602
Query 1603 CAAATTGCAATGA 1615
||| |||||||||
Sbjct 1603 CAA-TTGCAATGA 1614
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 80471473635
Database: TAIR10_cdna_20110103_representative_gene_model_updated
Posted date: Sep 25, 2014 6:13 PM
Number of letters in database: 51,074,197
Number of sequences in database: 33,602
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5