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= AT4G00960.1
Length=1119
Score E
Sequences producing significant alignments: (Bits) Value
Ahg897054 jgi|Araly1|897054|Al_scaffold_0005_1020 237 1e-61
Ahg943653 jgi|Araly1|943653|scaffold_604197.1 196 2e-49
Ahg943226 jgi|Araly1|943226|scaffold_603770.1 89.8 4e-17
Ahg474473 jgi|Araly1|474473|fgenesh2_kg.1__4427__AT1G53440.1 63.9 2e-09
> Ahg897054 jgi|Araly1|897054|Al_scaffold_0005_1020
Length=948
Score = 237 bits (128), Expect = 1e-61
Identities = 161/176 (91%), Gaps = 6/176 (3%)
Strand=Plus/Plus
Query 223 CTTGATTCCGGGGAAGAGATAGCTGTGAAAAGATTGTCAATGAAATCAGGACAAGGAGAC 282
|||||||| ||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct 765 CTTGATTCTGGGGAAGAG--AGCTGTGAAAAGATTGTCAATGAAATCAGGACAAGGAGAC 822
Query 283 AATGAGTTCGTAAACGAAGTCTCATTGGTTGCGAAACTTCAACATCGTAATCTTGTTAGG 342
||||||||||||||||||||||| | ||||| |||||||||||||| ||||||||| |||
Sbjct 823 AATGAGTTCGTAAACGAAGTCTCGTGGGTTGAGAAACTTCAACATCATAATCTTGTGAGG 882
Query 343 CTTTTAGGTTTCTGTTTTAA-AGG-AGAAGAACGACTTC-TCATCTATGAGTTCTT 395
||||||||||| | || || ||| |||||||||||||| ||||||||||||||||
Sbjct 883 CTTTTAGGTTTTTACTT-AAGAGGGAGAAGAACGACTTCATCATCTATGAGTTCTT 937
> Ahg943653 jgi|Araly1|943653|scaffold_604197.1
Length=251
Score = 196 bits (106), Expect = 2e-49
Identities = 182/217 (84%), Gaps = 12/217 (6%)
Strand=Plus/Plus
Query 903 TGGTTTGTTGTGTGTTCAGGAGAATCCAGGGAGTAGACCAACAATGGCTTCTATTGTTAG 962
||||||| | ||||| ||||||||| ||| |||||||||||||||||||||| ||||| |
Sbjct 23 TGGTTTG-T-TGTGTCCAGGAGAATGCAGAGAGTAGACCAACAATGGCTTCTGTTGTT-G 79
Query 963 -AATGCTCAATGCAAATTCTTTCACTTTACCGAGACCCTTGCAACCCGCTTTTTACTCAG 1021
|||||||||||||||| || |||||||||||||||||| ||||||||||||||| | |
Sbjct 80 TAATGCTCAATGCAAATGCTATCACTTTACCGAGACCCTCACAACCCGCTTTTTACACGG 139
Query 1022 GAGTTGTAGACTCATCGT-CAAGAGACAACAATCATACAAGAAACCCGCGTATTGCGTCT 1080
||| || ||| |||| | ||||| ||||||||| | | ||| | ||||||||||
Sbjct 140 GAGATGGAGAATCAT-TTCCAAGATACAACAATC--A-GATAAA---TCATATTGCGTCT 192
Query 1081 TTGAATGATGTTACAATTACGGAGTTAGATCCTCGTT 1117
|||||||||||||||||||| ||||| || ||||||
Sbjct 193 TTGAATGATGTTACAATTACTGAGTTCTATGCTCGTT 229
> Ahg943226 jgi|Araly1|943226|scaffold_603770.1
Length=1930
Score = 89.8 bits (48), Expect = 4e-17
Identities = 99/123 (80%), Gaps = 6/123 (5%)
Strand=Plus/Plus
Query 464 TTGCTCGAGGTCTTCTCTATCTCCATGAAGATTCTCATTTCAAAATTATTCATAGAGA-T 522
||||| |||||||||||||||||||||||||||||| | || |||||||||||||| |
Sbjct 1306 TTGCTAAAGGTCTTCTCTATCTCCATGAAGATTCTCAGATGAAGATTATTCATAGAGACT 1365
Query 523 ATGAAAGCTAGCAATGTTCTATTGGACG-ATGCA-ATGAATCCGAAAATCGCAGATTTTG 580
|||| || ||||| | || || |||| | | | ||||| || ||| | |||||||| |
Sbjct 1366 -TGAAGGCAAGCAACATACTTTTAGACGCA-G-AGATGAACCCTAAAGTTGCAGATTTCG 1422
Query 581 GGA 583
|||
Sbjct 1423 GGA 1425
> Ahg474473 jgi|Araly1|474473|fgenesh2_kg.1__4427__AT1G53440.1
Length=3114
Score = 63.9 bits (34), Expect = 2e-09
Identities = 41/44 (93%), Gaps = 2/44 (5%)
Strand=Plus/Plus
Query 638 TTGCAGGAAC-TTACGGTTACATGGCTCCTGAGTATGCAATGAG 680
|||||||||| || |||||||||||||||||||||||||||||
Sbjct 2492 TTGCAGGAACAATA-GGTTACATGGCTCCTGAGTATGCAATGAG 2534
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 41706471198
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