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= Ahg485905
Length=1022
Score E
Sequences producing significant alignments: (Bits) Value
AT3G54890.1 | Symbols: LHCA1 | photosystem I light harvesting c... 1591 0.0
> AT3G54890.1 | Symbols: LHCA1 | photosystem I light harvesting
complex gene 1 | chr3:20339504-20341103 REVERSE LENGTH=1109
Length=1109
Score = 1591 bits (861), Expect = 0.0
Identities = 991/1049 (94%), Gaps = 28/1049 (3%)
Strand=Plus/Plus
Query 1 ACACGTGGCCCAATGAAAAAGCCACGCAGGCTCTGTATAGCCAATTGCAATCTGATTTTA 60
|||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct 1 ACACGTGGCCCAATGAAAAAGCCACGCAGGCTCTGTATAGCCAATTGCAATCTGGTTTTA 60
Query 61 GATTCTCATCTCACAAATCTTACTTATACGATCAGTCTCCCACATTCACACTTCCACC-A 119
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 61 GATTCTCATCTCACAAATCTTACTTATACGATCAGTCTCCCACATTCACACTTCCACCAA 120
Query 120 A-A---------CAC--C--TCT-C----GT--C---CACAACGACAGATAGAGAGAAAC 155
| | ||| | ||| | || | |||||||||||||||||||||||
Sbjct 121 ACACCTCTCGTCCACATCTTTCTCCTTTGGTGGCAAACACAACGACAGATAGAGAGAAAC 180
Query 156 GATGGCGTCGAACTCGCTTATGAGCTGCGGCATCGCCGCCGTTTACCCTTCGCTTCTCTC 215
||||||||||||||||||||||||||| ||||| |||||||| |||||||||||||||||
Sbjct 181 GATGGCGTCGAACTCGCTTATGAGCTGTGGCATAGCCGCCGTGTACCCTTCGCTTCTCTC 240
Query 216 TTCTTCCAAGTCTAAATTCGTTTCCGCCGGAGTTCCTCTCCCTAACGCCGGGAATGTTGG 275
||||||||||||||||||||| |||||||||||||| ||||| |||||||||||||||||
Sbjct 241 TTCTTCCAAGTCTAAATTCGTATCCGCCGGAGTTCCACTCCCAAACGCCGGGAATGTTGG 300
Query 276 CCGTATCAGAATGGCTGCTCACTGGATGCCCGGGGAGCCACGACCAGCTTACCTCGACGG 335
||||||||||||||||||||||||||||| || |||||||||||||||||||| |||||
Sbjct 301 TCGTATCAGAATGGCTGCTCACTGGATGCCTGGCGAGCCACGACCAGCTTACCTTGACGG 360
Query 336 TTCTGCTCCTGGTGACTTTGGATTTGACCCACTTGGACTTGGAGAAGTTCCAGAGAACCT 395
||||||||||||||||||||| ||||||||||||||||||||||||||||||| ||||||
Sbjct 361 TTCTGCTCCTGGTGACTTTGGGTTTGACCCACTTGGACTTGGAGAAGTTCCAGCGAACCT 420
Query 396 TGAGAGATACAAAGAGTCAGAGCTCATCCACTGTAGATGGGCTATGCTCGCTGTTCCTGG 455
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 421 TGAGAGATACAAAGAGTCAGAGCTCATCCACTGTAGATGGGCTATGCTCGCTGTTCCTGG 480
Query 456 GATTTTGGTACCAGAAGCATTAGGATATGGAAACTGGGTGAAGGCTCAGGAATGGGCAGC 515
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 481 GATTTTGGTACCAGAAGCATTAGGATATGGAAACTGGGTTAAGGCTCAGGAATGGGCAGC 540
Query 516 AGTACCAGGGGGTCAAGCAACTTACTTGGGGAACCCGGTCCCGTGGGGTACTTTGCCCAC 575
| |||||||||||||||| ||||||||||| ||||| |||||||||||||||||||||||
Sbjct 541 ACTACCAGGGGGTCAAGCCACTTACTTGGGAAACCCAGTCCCGTGGGGTACTTTGCCCAC 600
Query 576 AATCTTGGCCATTGAGTTCTTAGCCATTGCATTTGTTGAGCACCAGAGAAGTATGGAGAA 635
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 601 AATCTTGGCCATTGAGTTCTTAGCCATTGCATTTGTTGAGCACCAGAGAAGTATGGAGAA 660
Query 636 AGACCCCGAGAAGAAGAAGTACCCTGGAGGCGCATTTGACCCTCTTGGATACTCAAAGGA 695
|||||| ||||||||||||||||| ||||||||||||||||||||||||||||| |||||
Sbjct 661 AGACCCTGAGAAGAAGAAGTACCCGGGAGGCGCATTTGACCCTCTTGGATACTCGAAGGA 720
Query 696 CCCCAAGAAGCTTGAGGAATTGAAAGTTAAGGAGATCAAGAACGGGCGGCTTGCACTGTT 755
|||||||||||| ||||||||||||||||| ||||||||||||||||||||||| |||||
Sbjct 721 CCCCAAGAAGCTCGAGGAATTGAAAGTTAAAGAGATCAAGAACGGGCGGCTTGCGCTGTT 780
Query 756 GGCGTTTGTAGGATTCTGTGTTCAACAGTCGGCTTACCCGGGGACAGGACCATTGGAGAA 815
||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 781 GGCGTTTGTAGGATTCTGTGTGCAACAGTCGGCTTACCCGGGGACAGGACCATTGGAGAA 840
Query 816 CCTGGCAACTCACTTGGCGGATCCATGGCACAACAACATTGGCGATATTGTTATCCCTTT 875
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 841 CTTGGCAACTCACTTGGCGGATCCATGGCACAACAACATTGGCGATATTGTTATCCCTTT 900
Query 876 CAACTAATGAATGTAAAAATAGAAATATGT--ACCTTATGAGCTTTATGTGTATCAAAAA 933
|||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 901 CAACTAATGAATGTAAAAATAGAAATATGTGTACCTTATGAGCTTTATGTGTATCAAAAA 960
Query 934 CACTGTGTAATGAAAGACAGATTTGTGAAAACCTGTATTTTGTCTTGGTGATCGATTTGC 993
||||||||||||||||||||||||||||| |||||| ||||||||||||||||| | ||
Sbjct 961 CACTGTGTAATGAAAGACAGATTTGTGAATTCCTGTAATTTGTCTTGGTGATCGAAT-GC 1019
Query 994 TCGTGTGAGCTTGAATTCTAAGTGATGAA 1022
|||||||||||||||||||||||||||||
Sbjct 1020 TCGTGTGAGCTTGAATTCTAAGTGATGAA 1048
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 50083444559
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