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: halleri_transcript_ahg.fa
32,672 sequences; 38,939,717 total letters
Query= AT5G56560.1
Length=1824
Score E
Sequences producing significant alignments: (Bits) Value
Ahg357882 jgi|Araly1|357882|fgenesh1_pg.C_scaffold_8001669 544 1e-153
Ahg495746 jgi|Araly1|495746|fgenesh2_kg.8__1562__AT5G56570.1 346 4e-94
> Ahg357882 jgi|Araly1|357882|fgenesh1_pg.C_scaffold_8001669
Length=510
Score = 544 bits (294), Expect = 1e-153
Identities = 372/410 (91%), Gaps = 4/410 (1%)
Strand=Plus/Plus
Query 1417 ACTCCATATCCTGCATGCACTGTTTTCTCCTCTCTTAAATATCTAGAGCTATGTACTTGT 1476
|||||||||||||| |||||||||||||| ||||||||| |||||||||||||||| |||
Sbjct 103 ACTCCATATCCTGCTTGCACTGTTTTCTCGTCTCTTAAACATCTAGAGCTATGTACATGT 162
Query 1477 TCTGCGAGATGGGCAAATCTATTTGCTTGTATACTCAACGCCGCTCCAGAACTTCGATCT 1536
|||||| |||||||||||||| |||||||||||||||| ||||| | |||||||||||||
Sbjct 163 TCTGCGGGATGGGCAAATCTACTTGCTTGTATACTCAATGCCGCGCAAGAACTTCGATCT 222
Query 1537 CTCAAGCTTAAGTCGAAACATAAAT-TCAATTACAATGATCCGATGACCCTCTGGGAAGA 1595
|| |||||||||||||||||| | | ||| |||| ||||||||||| ||||||| ||||
Sbjct 223 CTAAAGCTTAAGTCGAAACAT-AGTGCCAAATACAGTGATCCGATGAGCCTCTGGAAAGA 281
Query 1596 ACCAGCAGTTGTTGCTAAATGTTTATCGGAGCATCTCGAGATCTTTGAATGGAGACAATA 1655
|||| |||||||| || ||||||||| | |||| || |||||||| ||||||||||||||
Sbjct 282 ACCAACAGTTGTTCCTGAATGTTTATTGAAGCACCTAGAGATCTTGGAATGGAGACAATA 341
Query 1656 TGAAGGCACAGAGCAAGAGAGGAATGTGGCAG-GCTACATTCTAGCAAACGCTACATGTC 1714
|||||||||||||||||||| ||||||||| | | |||| |||||||||||||| ||||
Sbjct 342 TGAAGGCACAGAGCAAGAGATGAATGTGGCTGAG-TACACACTAGCAAACGCTACTTGTC 400
Query 1715 TAAAGATGGCGACGTTCTCGACAAGATGCAGAAACAGAAATCATCGCATGTTAAAGAAGT 1774
|||||||||||||||||||||||||||| ||||||| |||||||||||||||||||||||
Sbjct 401 TAAAGATGGCGACGTTCTCGACAAGATGTAGAAACAAAAATCATCGCATGTTAAAGAAGT 460
Query 1775 TAAAGTCCATGGACAGAGTTTCAAAGGCATGTCGGCTTGTGTTTGACTAA 1824
||||||| |||||||||||||||||| |||||| ||||||||||||||||
Sbjct 461 TAAAGTCTATGGACAGAGTTTCAAAGACATGTCAGCTTGTGTTTGACTAA 510
Score = 126 bits (68), Expect = 5e-28
Identities = 88/98 (90%), Gaps = 0/98 (0%)
Strand=Plus/Plus
Query 1579 ATGACCCTCTGGGAAGAACCAGCAGTTGTTGCTAAATGTTTATCGGAGCATCTCGAGATC 1638
|||| |||| || || || || ||||||| |||||||||||||| ||||||||||||||
Sbjct 1 ATGAACCTCCGGAAAAAAACAAAAGTTGTTCCTAAATGTTTATCGAAGCATCTCGAGATC 60
Query 1639 TTTGAATGGAGACAATATGAAGGCACAGAGCAAGAGAG 1676
|| |||||||||||||||||||||||||||||||||||
Sbjct 61 TTGGAATGGAGACAATATGAAGGCACAGAGCAAGAGAG 98
> Ahg495746 jgi|Araly1|495746|fgenesh2_kg.8__1562__AT5G56570.1
Length=1410
Score = 346 bits (187), Expect = 4e-94
Identities = 498/639 (78%), Gaps = 58/639 (9%)
Strand=Plus/Plus
Query 2 TGGAGA-AACAGACCAG-GCTCAGTGACT-TGCCAGATGAATTGCTCTTGAAGATATTGT 58
|||||| | || | ||| ||||||||| | |||| |||||||| ||||||||||||| |
Sbjct 92 TGGAGACACCA-A-CAGAGCTCAGTGA-TATGCCTGATGAATTAATCTTGAAGATATTCT 148
Query 59 CAGC-ACTTCCTATGTTT-AAAG-TGACTTTAGCCACACGTCTCATATCAAG-ACGTTGG 114
| || ||||| | ||| |||| || |||||| |||||| ||||||| || | | ||
Sbjct 149 C-GCTTCTTCC-GTTTTTCAAAGAGGA-TTTAGCAACACGTTTCATATC-AGAATATGGG 204
Query 115 AAAGGTCCTTGGAAACTGGTGCCGGATGTCACGTTTGATGATGATGATATACCATTTAAG 174
|| |||| |||||||| || |||| |||||| ||| | ||||| || || | |
Sbjct 205 AAGGGTCATTGGAAACCGGAGCCGAATGTCA--TTT--T--TGATG--AT--CA-ATCA- 252
Query 175 AGTTTTGAAACTTTTATGAGTTTTGTTTATGGATCTTTCTTGTCTAACGATGCTCAAATT 234
| | | | |||||||||||| ||||||||||| |||| || ||||||||||||
Sbjct 253 A---TCG--A----TATGAGTTTTGTATATGGATCTTTGATGTCCAAGGATGCTCAAATT 303
Query 235 CTAGACAGATTGCATCTCAAGCTTAACCAA-AAGTATTCTGCTTCGGACATCAATTTT-T 292
||||| || ||||||||||||||||| ||| | ||||||||||| || ||||||||| |
Sbjct 304 CTAGATAGCTTGCATCTCAAGCTTAA-CAATTACTATTCTGCTTCAGATATCAATTTTCT 362
Query 293 GGGTTCAAGTCGCGGTTAACCGATCTGTGAGAGAGCTGAGAATCGACTTGTTTGGCAAAA 352
|||||| ||| |||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct 363 -AGTTCAACTCGGGGTTAATCGATCTGTGAGAGAGCTGAGAATCGACTTGTTTGGCAAAA 421
Query 353 CCCTAGAATTGCCGTGTTGTTTGTGTTCTTGTATAACACTAAAAGAATTG--ACTCTACA 410
|||||||| |||| ||||| ||| || | || | ||| |||||||||||| |||| | |
Sbjct 422 CCCTAGAACTGCCTTGTTGCTTGAGTACGTGCACAACCCTAAAAGAATTGGTACTCGATA 481
Query 411 TGATTTATGTATCAAGGT-TGTCCCG-GCTTGGTTTCGCTTGCCATCACTCAAAACGT-T 467
||||| | |||| || ||||||| | ||||||||| |||||||||||| |||| | |
Sbjct 482 --ATTTAAGCATCA-GGCCTGTCCCGCG-TTGGTTTCGTTTGCCATCACTCGAAAC-TCT 536
Query 468 GCACCTTTTGTCGGTTAAGTTCTCGAGTGACGGATT-TGTTGCAAGTATTTTAAGAATTT 526
|| |||| |||||| | | ||| | | ||| || ||||||| || |||||||||
Sbjct 537 CCAACTTTCATCGGTT--G--CAGGAG-G-CA-ATTCTGGTGCAAGTCTTATAAGAATTT 589
Query 527 GCCCTGTTCTTGAACGTTTGGTTGTAGACGGAACCAAAGGTGTCAATGTGAAGATACCCA 586
| |||||| |||||||||||||||| || || || | || | |||||| ||| ||
Sbjct 590 ACTCTGTTCATGAACGTTTGGTTGTACACCAAAACAGATATGACGATGTGACTATAATCA 649
Query 587 ATATGGATGTGCCTAATTTGAGGAGCTTATCTTTTCGAT 625
|||| ||||||||| |||||||||||||||| | ||||
Sbjct 650 ATATCAATGTGCCTACTTTGAGGAGCTTATCTAT-CGAT 687
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 68486260510
Database: halleri_transcript_ahg.fa
Posted date: Sep 25, 2014 2:02 AM
Number of letters in database: 38,939,717
Number of sequences in database: 32,672
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5