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= Ahg475174
Length=1136
Score E
Sequences producing significant alignments: (Bits) Value
AT1G61520.1 | Symbols: LHCA3 | photosystem I light harvesting c... 1810 0.0
> AT1G61520.1 | Symbols: LHCA3 | photosystem I light harvesting
complex gene 3 | chr1:22700010-22701383 FORWARD LENGTH=1198
Length=1198
Score = 1810 bits (980), Expect = 0.0
Identities = 1094/1147 (95%), Gaps = 16/1147 (1%)
Strand=Plus/Plus
Query 1 AAAACCAGTTGTGCTATTTGAAAACCACAAGTA-TTGG-ACCTTTGTTTCTTCTACCCTA 58
||||||||||| ||||||||||| ||||||||| |||| |||||||||||||||||||||
Sbjct 1 AAAACCAGTTGGGCTATTTGAAAGCCACAAGTACTTGGAACCTTTGTTTCTTCTACCCTA 60
Query 59 ACATAGCTCC-TGCAGACCATAACTAAA-CA--ATCATCATAATCTCTTGGTGACAGAAG 114
||||||| || |||| |||||||| ||| || |||||||| ||||||||||||||||||
Sbjct 61 ACATAGC-CCTTGCAAACCATAACCAAACCATCATCATCATCATCTCTTGGTGACAGAAG 119
Query 115 AGAAGAGTTGAGGAACAGAGAAAATGGCAGCACAAGCACTTGTGTCTTCTTCACTTACCT 174
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 120 AAAAGAGTTGAGGAACAGAGAAAATGGCAGCACAAGCACTTGTGTCTTCTTCACTTACCT 179
Query 175 CCTCTGTTCAGACAGCTAGACAGATATTTGGCTCAAAACCAGTTGCTTCTGCGTCACAGA 234
|||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||
Sbjct 180 CCTCTGTTCAGACAGCTAGACAGATATTTGGCTCAAAACCAGTTGCGTCTGCCTCACAGA 239
Query 235 GGAAGAGTTCCTTTGTTGTTAAGGCTACAGCAACTCCACCTGTCAAGCAAGGAGCAAACA 294
||||||||||||||||||||| ||| | |||||||||||||||||||||||||| ||||
Sbjct 240 AGAAGAGTTCCTTTGTTGTTAAAGCTGCTGCAACTCCACCTGTCAAGCAAGGAGCCAACA 299
Query 295 GACCATTGTGGTTTGCATCATCGCAGAGTCTCTCTTACTTGGATGGCAGCTTACCTGGTG 354
|||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct 300 GACCATTGTGGTTTGCTTCATCGCAGAGTCTCTCTTACTTGGATGGCAGCTTACCTGGTG 359
Query 355 ACTATGGATTTGACCCACTTGGTCTTTCAGACCCAGAAGGTACTGGAGGGTTCATTGAGC 414
|||||||||| ||||| |||||||||||||||||||||||||||||||| ||||||||||
Sbjct 360 ACTATGGATTCGACCCTCTTGGTCTTTCAGACCCAGAAGGTACTGGAGGATTCATTGAGC 419
Query 415 CGAGATGGCTAGCATACGGAGAGATCTTCAACGGACGGTTCGCCATGTTGGGTGCAGTTG 474
| |||||||||||||||||||||||| |||||||||||||||||||||||||||||| ||
Sbjct 420 CAAGATGGCTAGCATACGGAGAGATCATCAACGGACGGTTCGCCATGTTGGGTGCAGCTG 479
Query 475 GAGCTATTGCTCCTGAGATTCTAGGAAAGGCTGGTCTGATTCCACCAGAGACTGCTCTTC 534
|||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||
Sbjct 480 GAGCTATTGCTCCTGAGATTTTAGGAAAGGCTGGTCTGATTCCAGCAGAGACTGCTCTTC 539
Query 535 CTTGGTTCCAAACCGGTGTGATTCCACCAGCAGGGACATACACTTACTGGGCAGACAATT 594
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 540 CTTGGTTCCAAACCGGTGTGATTCCACCAGCAGGGACATACACTTACTGGGCAGACAATT 599
Query 595 ACACACTCTTTGTTTTCGAGATGGCTCTGATGGGATTCGCTGAGCATCGGAGGTTACAGG 654
|||||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 600 ACACACTCTTTGTTCTCGAGATGGCTCTGATGGGATTCGCTGAGCACCGGAGGTTACAGG 659
Query 655 ACTGGTACAACCCAGGATCTATGGGAAAGCAGTACTTCTTGGGGTTAGAAAAGGGTTTGG 714
|||||||||||||||||||||||||||| |||||||||||||||||||| ||||||||||
Sbjct 660 ACTGGTACAACCCAGGATCTATGGGAAAACAGTACTTCTTGGGGTTAGAGAAGGGTTTGG 719
Query 715 CTGGTTCAGGTGACCCAGCTTACCCTGGTGGACCTTTCTTCAACCCTCTAGGGTTTGGGA 774
| ||||||||| |||| |||||||| ||||||||||||||||||||||| ||||||||||
Sbjct 720 CCGGTTCAGGTAACCCGGCTTACCCCGGTGGACCTTTCTTCAACCCTCTTGGGTTTGGGA 779
Query 775 AAGATGAGAAGTC-CTTGAAGGAGTTGAAACTCAAGGAGGTCAAGAACGGTAGACTGGCT 833
||||||||||||| || |||||||||||||||||||||||||||||||||||||||||||
Sbjct 780 AAGATGAGAAGTCACT-GAAGGAGTTGAAACTCAAGGAGGTCAAGAACGGTAGACTGGCT 838
Query 834 ATGCTCGCCATCCTCGGTTACTTTATCCAGGGACTAGTGACCGGTGTGGGACCTT-TCCA 892
||||||||||||||||||||||||||||| ||||||||||||||||||||||||| || |
Sbjct 839 ATGCTCGCCATCCTCGGTTACTTTATCCAAGGACTAGTGACCGGTGTGGGACCTTATC-A 897
Query 893 GAACCTGCTTGATCACTTGGCTGATCCCATCAACAACAACGTCTTGACCAGCCTCAAGTT 952
|||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 898 GAACCTGCTTGATCACTTGGCTGATCCCGTCAACAACAACGTCTTGACCAGCCTCAAGTT 957
Query 953 CCACTGAGGTGATCATCATC-CTATGTGTTTT-ATGTCTCTTGTATCGTACAAATCTTTC 1010
|||||||||||||||||||| | ||||||||| |||||||||||||||||||| | ||||
Sbjct 958 CCACTGAGGTGATCATCATCTC-ATGTGTTTTTATGTCTCTTGTATCGTACAA-TATTTC 1015
Query 1011 TATCTTTCGCTACCATTGGCTTCTTCGTATTGTAACAGCCTGTGTAAACATATTCGTGTT 1070
|||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct 1016 CATCTTTCGCTACCATTGGCTTCTTCGTATTGTAACACCCTGTGTAAACATATTCGTGTT 1075
Query 1071 TTGTAAGAAATGACAATGTCAATGGCCAAACGAAAAA-CTTTTAGGATTAACAGTTGGTA 1129
||||||||||||||||||||||||||||||||||||| |||||||||||||||||||| |
Sbjct 1076 TTGTAAGAAATGACAATGTCAATGGCCAAACGAAAAAACTTTTAGGATTAACAGTTGGCA 1135
Query 1130 TTTGCAA 1136
|||||||
Sbjct 1136 TTTGCAA 1142
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 55722604950
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