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= Ahg929374
Length=1264
Score E
Sequences producing significant alignments: (Bits) Value
AT3G16380.1 | Symbols: PAB6 | poly(A) binding protein 6 | chr3:... 1297 0.0
> AT3G16380.1 | Symbols: PAB6 | poly(A) binding protein 6 | chr3:5558676-5560993
REVERSE LENGTH=1614
Length=1614
Score = 1297 bits (702), Expect = 0.0
Identities = 1009/1150 (88%), Gaps = 49/1150 (4%)
Strand=Plus/Plus
Query 101 CTGGTGTATCTGCTCGGTCTGCTCTCCATGGCTCTATGGTTGATGGCAAGAAACTGTTTG 160
||| |||||||||||| ||||||||||| |||||||||||| ||||||||||||||||||
Sbjct 488 CTGCTGTATCTGCTCGTTCTGCTCTCCACGGCTCTATGGTTTATGGCAAGAAACTGTTTG 547
Query 161 TAGCCAAGTTCATCAACAAGGATGAAAGAGCAGCTATGTCATGG-AATCAAGAATTC-AC 218
| |||||||||||||||||||||||||||||||||||| || || ||||||| | || ||
Sbjct 548 TTGCCAAGTTCATCAACAAGGATGAAAGAGCAGCTATGGCA-GGAAATCAAG-ACTCTAC 605
Query 219 AAACGTTTATGTGGAGAATCTGATCGAAAATGTTACAGAGGATAT-TCTACATAGATTGT 277
||||||||||||| ||||||||||||||| ||||||||| ||| | |||||||| | |||
Sbjct 606 AAACGTTTATGTGAAGAATCTGATCGAAACTGTTACAGATGAT-TGTCTACATACACTGT 664
Query 278 TCTCTCAATATGGAA-TAGTCTCTAGTGTTGTGGTTATGAGGGATGGTATGGGAAGATCT 336
| ||||||||||||| | ||||||||||||||||||||||||||||||||||||||||||
Sbjct 665 TTTCTCAATATGGAACT-GTCTCTAGTGTTGTGGTTATGAGGGATGGTATGGGAAGATCT 723
Query 337 AGAGGTTTAGGATTTGTCAACTTCTGCCATCTAGAAAATGCTAAGAAAGCTGTGGAATTT 396
|||||||| |||||||| ||||||||| ||| ||||||||||||||||||| |||||| |
Sbjct 724 AGAGGTTTCGGATTTGTTAACTTCTGCAATCCAGAAAATGCTAAGAAAGCTATGGAATCT 783
Query 397 CTCTGCGGACGACAACTTGGATCGAAGACTTTGTTTGTTGGTAAGGCACTCAGGAAAGAT 456
||||| |||| ||||||||||||||||| |||||||||||||||||||||| |||||||
Sbjct 784 CTCTGTGGACTACAACTTGGATCGAAGAAATTGTTTGTTGGTAAGGCACTCAAGAAAGAT 843
Query 457 GAAAGGATGGAGATGCTGAAACA-ACATTTCAGGGACAACTCTATTGCCAAGCCTAACAT 515
||||||| ||||||||||||||| | ||| ||| ||||||| |||||| |||||||||||
Sbjct 844 GAAAGGAGGGAGATGCTGAAACAGAAATT-CAGTGACAACTTTATTGCAAAGCCTAACAT 902
Query 516 GGGGTGGTCCAATATGTACGTGAAGAACCTGAGTGAATCAATGAATGATACAAGACTGCG 575
| | ||||||||| |||||||||||||| ||||||||||||||||||| |||||||||||
Sbjct 903 GAGATGGTCCAATCTGTACGTGAAGAACTTGAGTGAATCAATGAATGAAACAAGACTGCG 962
Query 576 AGAAATATTTGGAAGGTATGGGCAAATAGTCTCAGCTAAAGTGATGCGTCATGAGAATGG 635
|||||| |||||| | |||||||||||||| ||||||||||||||| |||||||||||||
Sbjct 963 AGAAATCTTTGGATGCTATGGGCAAATAGTTTCAGCTAAAGTGATGTGTCATGAGAATGG 1022
Query 636 CAGAAGTAAAGGGTTCGGCTTTGTGTGCTTCTCGAACCGTGAAGAATCCAAACAGGCTAA 695
|||||||||||| |||||||||||||||||||| ||| ||||||| ||||||||||||||
Sbjct 1023 CAGAAGTAAAGGATTCGGCTTTGTGTGCTTCTCTAACTGTGAAGAGTCCAAACAGGCTAA 1082
Query 696 AAGATATCTCAATG--TT----G---ATGGAAAGCCATTAGTTGTTCGAGTTACCGAGCG 746
|||||||||||||| || | ||||||||||| |||||||||||||| | |||||
Sbjct 1083 AAGATATCTCAATGGGTTCTTAGTTGATGGAAAGCCAATAGTTGTTCGAGTTGCAGAGCG 1142
Query 747 CAAAGAGGATAC-ACTCAAGAGGCTGCACCAATACTTTCATGG-ACAACCACGCCATTAC 804
|||||||||| | | |||||||| |||| ||||| ||||| || ||| |||||||| |||
Sbjct 1143 CAAAGAGGAT-CGAATCAAGAGGTTGCAGCAATATTTTCA-GGCACAGCCACGCCAGTAC 1200
Query 805 ACGCAAGCTCCA-CTTGTCCCTTCACCAACTCAGCCAGTCCTCTCATATGTGCCCAGCTC 863
||||||||||| || | |||||||||| ||||||||||||||||||||||| |||||||
Sbjct 1201 ACGCAAGCTCCTTCT-GCCCCTTCACCAGCTCAGCCAGTCCTCTCATATGTGTCCAGCTC 1259
Query 864 ATATGGTTACTTGCAGCCATTCCATGTCGGGACATCGTATTACTATATGGGCACTCAGTT 923
|||||||| ||| ||||||||||| ||||||||||| |||||||||||||||| |||| |
Sbjct 1260 ATATGGTTGCTTTCAGCCATTCCAGGTCGGGACATCTTATTACTATATGGGCAATCAGGT 1319
Query 924 ACCACAAATGTCTGGCCACCAAAACATCACCACCTATGTTGCAGCAGGGAAAGCT-CCTC 982
||||||||||| || |||||||||||||||||||| ||| |||| ||||||| | ||||
Sbjct 1320 GCCACAAATGTCCGGTCACCAAAACATCACCACCTACGTTCCAGCTGGGAAAG-TGCCTC 1378
Query 983 TCAAGGAGA-ACAGATCATTGCACCTGGTCTACAAACACCCGGCTTATCCCGTTGCCAAG 1041
||||||||| | |||||| |||| |||||||||||||| |||||||||||||||||||||
Sbjct 1379 TCAAGGAGAGA-AGATCAATGCATCTGGTCTACAAACATCCGGCTTATCCCGTTGCCAAG 1437
Query 1042 AGTGGTG-TAAACAGAAACTGGTCATTAAGGGTGAAAAATAACCGAACTTCAGAGGCTGC 1100
|| |||| |||||||| |||||| |||||||||| |||| ||| || |||||||||
Sbjct 1438 AGGGGTGCTAAACAGACACTGGTTTTTAAGGGTGAGGT-TAACAGAAATTTAGAGGCTGC 1496
Query 1101 AACATGCTCAAAAGCAACAACATCTG-GTGAGGTCCTTAA-GAAAGAATC-AAGATCGAC 1157
||||||||| |||||||||||||||| | ||| || ||| ||| ||| | ||||| |||
Sbjct 1497 AACATGCTCCAAAGCAACAACATCTGAG-GAGAACCGTAAAGAA-GAA-CGAAGATTGAC 1553
Query 1158 TTTGAT-AGGAATGTCGTCGTTGTCACCAAAAGTGAAAGCAGAGAAATCATCAGGAAAAG 1216
|||| | ||||| || | || ||||| ||||||| | |||| ||||| ||||||
Sbjct 1554 TTTG-TCAGGAAAGT--T-GT---CACCAGAAGTGAAGGTAGAGGAATCA---GGAAAAC 1603
Query 1217 AAATTGCAAT 1226
|| |||||||
Sbjct 1604 AA-TTGCAAT 1612
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 62148274710
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