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= Ahg484556
Length=892
Score E
Sequences producing significant alignments: (Bits) Value
AT3G27690.1 | Symbols: LHCB2.4, LHCB2.3, LHCB2 | photosystem II... 1282 0.0
AT2G05100.1 | Symbols: LHCB2.1, LHCB2 | photosystem II light ha... 922 0.0
AT2G05070.1 | Symbols: LHCB2.2, LHCB2 | photosystem II light ha... 881 0.0
> AT3G27690.1 | Symbols: LHCB2.4, LHCB2.3, LHCB2 | photosystem
II light harvesting complex gene 2.3 | chr3:10255947-10257011
FORWARD LENGTH=946
Length=946
Score = 1282 bits (694), Expect = 0.0
Identities = 828/894 (93%), Gaps = 4/894 (0%)
Strand=Plus/Plus
Query 1 TTTCTTTGTGTTCTTGTTTAGAAGAAGCAATGGCCACTTCAGCAATCCAATACTCTTCTT 60
||| |||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct 27 TTTTTTTGTGTTCTTGTTTAGAAGAAGCAATGGCCACTTCAGCAATCCAACACTCTTCTT 86
Query 61 TCACCGGCCAAACAG-CCCTAAAGCCATCCAACGATCTCCTCCGTAAGGTCGGAGCCTCC 119
|| | |||||||| | |||||||||||||||||||||||||||| || |||||||||||
Sbjct 87 TCGCTGGCCAAAC-GACCCTAAAGCCATCCAACGATCTCCTCCGCAAAATCGGAGCCTCC 145
Query 120 AATGGTGGCGGCCGCGTCGTCATGCGTCGTACCGTCAAGTCTACTCCTCAGAGCATCTGG 179
||||| || |||||| || |||||||||||||||||||||||||||||||||||||||||
Sbjct 146 AATGGCGGTGGCCGCATCATCATGCGTCGTACCGTCAAGTCTACTCCTCAGAGCATCTGG 205
Query 180 TACGGACCAGACCGTCCCAAATACCTAGGACCATTCTCGGAAAACACACCATCATACCTA 239
||||||||||||||||||||||||||||||||||| || |||||||||||||||||||||
Sbjct 206 TACGGACCAGACCGTCCCAAATACCTAGGACCATTTTCCGAAAACACACCATCATACCTA 265
Query 240 ACCGGAGAATACCCTGGAGACTACGGCTGGGACACGGCCGGTCTCTCAGCCGATCCAGAA 299
|||||||||||||||||||||||||| |||||||| || |||||||||||||||||||||
Sbjct 266 ACCGGAGAATACCCTGGAGACTACGGTTGGGACACCGCTGGTCTCTCAGCCGATCCAGAA 325
Query 300 ACATTCGCTAAGAACCGTGAGCTCGAGGTAATCCACAGTAGATGGGCAATGTTGGGCGCT 359
|||||||| ||||| ||||||||||| || |||||||||||||||||||||||||| |||
Sbjct 326 ACATTCGCAAAGAATCGTGAGCTCGAAGTGATCCACAGTAGATGGGCAATGTTGGGAGCT 385
Query 360 TTAGGCTGCACCTTCCCAGAGATTCTCTCCAAGAACGGAGTCAAATTCGGTGAAGCCGTG 419
||||||||||||||||| || |||||||| || |||||||||||||||||||||||||||
Sbjct 386 TTAGGCTGCACCTTCCCTGAAATTCTCTCAAAAAACGGAGTCAAATTCGGTGAAGCCGTG 445
Query 420 TGGTTCAAGGCAGGATCTCAGATCTTCTCAGAAGGAGGACTTGATTACCTAGGAAACCCT 479
|||||||||||||||||||| ||||||||||||||||| ||||| ||||| |||||||||
Sbjct 446 TGGTTCAAGGCAGGATCTCAAATCTTCTCAGAAGGAGGGCTTGACTACCTCGGAAACCCT 505
Query 480 AACTTGATCCACGCGCAAAGCATCTTAGCCATCTGGGCTTCTCAAGTTGTGCTCATGGGC 539
||||||||||||||||||||||| ||||| || ||||| | |||||||||||| |||||
Sbjct 506 AACTTGATCCACGCGCAAAGCATATTAGCTATATGGGCGTGTCAAGTTGTGCTAATGGGA 565
Query 540 TTCATTGAAGGCTACAGAATCGGAGGTGGACCACTCGGAGAAGGGCTTGATCCGCTTTAC 599
||||||||||| ||||||||||||||||| || || || ||||||||||| |||||||||
Sbjct 566 TTCATTGAAGGGTACAGAATCGGAGGTGGTCCTCTTGGGGAAGGGCTTGACCCGCTTTAC 625
Query 600 CCAGGCGGGGCGTTTGACCCGTTGAACTTAGCAGAAGATCCAGAAGCATTCTCGGAATTG 659
|| |||||||| || ||||||||||||||||| || ||||||||||| || || || |||
Sbjct 626 CCGGGCGGGGCCTTCGACCCGTTGAACTTAGCGGAGGATCCAGAAGCGTTTTCAGAGTTG 685
Query 660 AAGGTGAAGGAGCTCAAAAACGGTCGTCTTGCGATGTTCTCAATGTTTGGATTCTTTGTT 719
|| ||||||||||| ||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 686 AAAGTGAAGGAGCTTAAAAACGGTCGTCTTGCTATGTTCTCAATGTTTGGATTCTTTGTC 745
Query 720 CAAGCCATTGTTACCGGTAAAGGTCCGATAGAGAATCTGTTCGATCACATTGCAGACCCT 779
|||||||| |||||||||||||||||||| || |||||||||||||||||||||||||||
Sbjct 746 CAAGCCATAGTTACCGGTAAAGGTCCGATCGAAAATCTGTTCGATCACATTGCAGACCCT 805
Query 780 GTGGCTAACAACGCTTGGGCTTACGCCACCAACTTTGTCCCCGGAAAATAGAGTTTGATC 839
||||||||||| ||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct 806 GTGGCTAACAATGCTTGGGCTTACGCCACCAACTTCGTCCCCGGAAAATAGAGTTTGATC 865
Query 840 GGATAATTTATGTAAATTATATCTTTTAAGA-ATTTGTCAATGCACTAAAGTTA 892
||||||||||||||||||||||||||||| | |||| |||||||| ||||||||
Sbjct 866 GGATAATTTATGTAAATTATATCTTTTAA-ACATTTATCAATGCATTAAAGTTA 918
> AT2G05100.1 | Symbols: LHCB2.1, LHCB2 | photosystem II light
harvesting complex gene 2.1 | chr2:1823240-1824425 REVERSE LENGTH=1101
Length=1101
Score = 922 bits (499), Expect = 0.0
Identities = 703/802 (88%), Gaps = 11/802 (1%)
Strand=Plus/Plus
Query 29 AATGGCCACTTCAGCAATCCAATACTCTTCTTTCACCGGCCAAACAGCCCTAAAGCCATC 88
|||||| || ||||| ||||| | || || ||| |||||||||| || || ||||| ||
Sbjct 94 AATGGCAACATCAGCTATCCAGCAATCCTCCTTCGCCGGCCAAACGGCTCTCAAGCCCTC 153
Query 89 CAACGATCTCCTCCGTAAGGTCGGAGCCTCCAATGGTGGCGGCCGCGTCG-TCATGCGTC 147
|||||| |||||||| ||||| || | ||| ||||| ||||| || | ||||||||
Sbjct 154 CAACGAACTCCTCCGCAAGGTTGGTGTATCC---GGTGGTGGCCGTGT-GACCATGCGTC 209
Query 148 GTACCGTCAAGTCTACTCCTCAGAGCATCTGGTACGGACCAGACCGTCCCAAATACCTAG 207
|||||||||||||||||||||| ||||||||||||||||||||||||||||| ||| |||
Sbjct 210 GTACCGTCAAGTCTACTCCTCAAAGCATCTGGTACGGACCAGACCGTCCCAAGTACTTAG 269
Query 208 GACCATTCTCGGAAAACACACCATCATACCTAACCGGAGAATACCCTGGAGACTACGGCT 267
||||||||||||| || ||||| || |||||||||||||||||||| |||||||||||||
Sbjct 270 GACCATTCTCGGAGAATACACCGTCCTACCTAACCGGAGAATACCCCGGAGACTACGGCT 329
Query 268 GGGACACGGCCGGTCTCTCAGCCGATCCAGAAACATTCGCTAAGAACCGTGAGCTCGAGG 327
||||||| || || ||||| || || || || ||||||||||||||||||||||| || |
Sbjct 330 GGGACACCGCTGGACTCTCGGCTGACCCGGAGACATTCGCTAAGAACCGTGAGCTTGAAG 389
Query 328 TAATCCACAGTAGATGGGCAATGTTGGGCGCTTTAGGCTGCACCTTCCCAGAGATTCTCT 387
|||||||||| |||||||| |||||||| ||| | || ||||| ||||| ||||||||||
Sbjct 390 TAATCCACAGCAGATGGGCTATGTTGGGTGCTCTCGGATGCACATTCCCTGAGATTCTCT 449
Query 388 CCAAGAACGGAGTCAAATTCGGTGAAGCCGTGTGGTTCAAGGCAGGATCTCAGATCTTCT 447
|||||||||| || |||||||| ||||||||||||||||||||||| |||||||| ||||
Sbjct 450 CCAAGAACGGTGTTAAATTCGGAGAAGCCGTGTGGTTCAAGGCAGGTTCTCAGATTTTCT 509
Query 448 CAGAAGGAGGACTTGATTACCTAGGAAACCCTAACTTGATCCACGCGCAAAGCATCTTAG 507
|||||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 510 CAGAAGGAGGTCTTGATTACCTCGGAAACCCTAACTTGATCCACGCGCAAAGCATCTTAG 569
Query 508 CCATCTGGGCT-TCTCAAGTTGTGCTCATGGGCTTCATTGAAGGCTACAGAATCGGAGGT 566
||||||||||| | |||||||||||||||||| |||||||||||||||||||||||||||
Sbjct 570 CCATCTGGGCTGT-TCAAGTTGTGCTCATGGGGTTCATTGAAGGCTACAGAATCGGAGGT 628
Query 567 GGACCACTCGGAGAAGGGCTTGATCCGCTTTACCCAGGCGGGGCGTTTGACCCGTTGAAC 626
||||| ||||||||||||||||| ||||||||||| || || ||||| ||||| ||||||
Sbjct 629 GGACCTCTCGGAGAAGGGCTTGACCCGCTTTACCCCGGAGGTGCGTTCGACCCATTGAAC 688
Query 627 TTAGCAGAAGATCCAGAAGCATTCTCGGAATTGAAGGTGAAGGAGCTCAAAAACGGTCGT 686
|| || || |||||||| || ||||| || |||||||||||||||| || |||||||||
Sbjct 689 TTGGCTGAGGATCCAGAGGCTTTCTCTGAGCTGAAGGTGAAGGAGCTTAAGAACGGTCGT 748
Query 687 CTTGCGATGTTCTCAATGTTTGGATTCTTTGTTCAAGCCATTGTTACCGGTAAAGGTCCG 746
||||| |||||||| ||||||||||||||||| |||||||||||||| |||||||||||
Sbjct 749 CTTGCCATGTTCTCTATGTTTGGATTCTTTGTCCAAGCCATTGTTACTGGTAAAGGTCCC 808
Query 747 ATAGAGAATCTG-TTCGATCACATTG-CAGACCCTGTGGCTAACAACGCTTGGGCTTACG 804
|| ||||| || || ||||| ||| | || ||||||||||||||||| ||| ||||||
Sbjct 809 ATTGAGAA-CTTATTTGATCAT-TTGGCTGATCCTGTGGCTAACAACGCCTGGTCTTACG 866
Query 805 CCACCAACTTTGTCCCCGGAAA 826
| || |||||||||||||||||
Sbjct 867 CTACTAACTTTGTCCCCGGAAA 888
> AT2G05070.1 | Symbols: LHCB2.2, LHCB2 | photosystem II light
harvesting complex gene 2.2 | chr2:1799234-1800392 REVERSE LENGTH=1063
Length=1063
Score = 881 bits (477), Expect = 0.0
Identities = 697/803 (87%), Gaps = 15/803 (2%)
Strand=Plus/Plus
Query 30 ATGGCCACTTCAGCAATCCAATACTCTTCTTTCACCGGCCAAACAGCCCTAAAGCCATCC 89
|||||||| ||||| |||||| | || || ||| |||||||||| || || ||||| |||
Sbjct 64 ATGGCCACATCAGCTATCCAACAATCCTCCTTCGCCGGCCAAACGGCTCTCAAGCCCTCC 123
Query 90 AACGATCTCCTCCGTAAGGTCGGAGCCTCCAAT-GGTGGCGGCCGCGTCG-TCATGCGTC 147
| ||| ||| ||| ||||| || || | | | || || ||||| || | ||||||||
Sbjct 124 AGCGACCTCATCCAAAAGGT-GG-GCGT-C-TTGGGCGGTGGCCGTGT-GACCATGCGTC 178
Query 148 GTACCGTCAAGTCTACTCCTCAGAGCATCTGGTACGGACCAGACCGTCCCAAATACCTAG 207
||||||||||||||||||| || ||||||||||| ||||||||||||||||| ||| | |
Sbjct 179 GTACCGTCAAGTCTACTCCCCAAAGCATCTGGTATGGACCAGACCGTCCCAAGTACTTGG 238
Query 208 GACCATTCTCGGAAAACACACCATCATACCTAACCGGAGAATACCCTGGAGACTACGGCT 267
||||||||||||| |||||||| || ||| |||| ||||||||||| |||||||||||||
Sbjct 239 GACCATTCTCGGAGAACACACCGTCTTACTTAACTGGAGAATACCCCGGAGACTACGGCT 298
Query 268 GGGACACGGCCGGTCTCTCAGCCGATCCAGAAACATTCGCTAAGAACCGTGAGCTCGAGG 327
||||||| || || ||||| || || || || ||||||||||||||||||||||| || |
Sbjct 299 GGGACACCGCTGGACTCTCGGCTGACCCGGAGACATTCGCTAAGAACCGTGAGCTTGAAG 358
Query 328 TAATCCACAGTAGATGGGCAATGTTGGGCGCTTTAGGCTGCACCTTCCCAGAGATTCTCT 387
|||||||||| |||||||| |||||||| ||| | || ||||| ||||| || |||||||
Sbjct 359 TAATCCACAGCAGATGGGCTATGTTGGGTGCTCTCGGATGCACATTCCCTGAAATTCTCT 418
Query 388 CCAAGAACGGAGTCAAATTCGGTGAAGCCGTGTGGTTCAAGGCAGGATCTCAGATCTTCT 447
|||||||||| || |||||||| ||||||||||||||||||||||| |||||||| ||||
Sbjct 419 CCAAGAACGGTGTTAAATTCGGAGAAGCCGTGTGGTTCAAGGCAGGCTCTCAGATTTTCT 478
Query 448 CAGAAGGAGGACTTGATTACCTAGGAAACCCTAACTTGATCCACGCGCAAAGCATCTTAG 507
|||||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 479 CAGAAGGAGGTCTTGATTACCTCGGAAACCCTAACTTGATCCACGCGCAAAGCATCTTAG 538
Query 508 CCATCTGGGCT-TCTCAAGTTGTGCTCATGGGCTTCATTGAAGGCTACAGAATCGGAGGT 566
||||||||||| | |||||||||||||||||| |||||||||||||||||||||||||||
Sbjct 539 CCATCTGGGCTGT-TCAAGTTGTGCTCATGGGGTTCATTGAAGGCTACAGAATCGGAGGT 597
Query 567 GGACCACTCGGAGAAGGGCTTGATCCGCTTTA-CCCAGGCGGGGCGTTTGACCCGTTGAA 625
||||||||||||||||| ||||| |||||||| ||| || || ||||| ||||| |||||
Sbjct 598 GGACCACTCGGAGAAGGACTTGACCCGCTTTATCCC-GGAGGTGCGTTCGACCCATTGAA 656
Query 626 CTTAGCAGAAGATCCAGAAGCATTCTCGGAATTGAAGGTGAAGGAGCTCAAAAACGGTCG 685
||| || || |||||||| || ||||| || ||||||||||||||||||| ||||||||
Sbjct 657 CTTGGCTGAGGATCCAGAGGCTTTCTCTGAGCTGAAGGTGAAGGAGCTCAAGAACGGTCG 716
Query 686 TCTTGCGATGTTCTCAATGTTTGGATTCTTTGTTCAAGCCATTGTTACCGGTAAAGGTCC 745
|||||| |||||||| ||||||||||||||||| |||||||||||||| |||||||||||
Sbjct 717 TCTTGCCATGTTCTCTATGTTTGGATTCTTTGTCCAAGCCATTGTTACTGGTAAAGGTCC 776
Query 746 GATAGAGAATCTG-TTCGATCACATTG-CAGACCCTGTGGCTAACAACGCTTGGGCTTAC 803
|| ||||| || || ||||| ||| | || ||||||||||||||||| ||| |||||
Sbjct 777 CATTGAGAA-CTTATTTGATCAT-TTGGCTGATCCTGTGGCTAACAACGCCTGGTCTTAC 834
Query 804 GCCACCAACTTTGTCCCCGGAAA 826
|| || |||||||||||||||||
Sbjct 835 GCTACTAACTTTGTCCCCGGAAA 857
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 43553005449
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