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= Ahg489877
Length=1193
Score E
Sequences producing significant alignments: (Bits) Value
AT4G10340.1 | Symbols: LHCB5 | light harvesting complex of phot... 1892 0.0
> AT4G10340.1 | Symbols: LHCB5 | light harvesting complex of photosystem
II 5 | chr4:6408016-6409677 FORWARD LENGTH=1208
Length=1208
Score = 1892 bits (1024), Expect = 0.0
Identities = 1148/1205 (95%), Gaps = 20/1205 (2%)
Strand=Plus/Plus
Query 1 ACATCAGCATCAACAACCAATCAGAGAACAGAATCATATTTCACATTTTCAATTCAGACC 60
||||||||||| |||||||||||||| |||||||||||||||||||||||||| ||||||
Sbjct 1 ACATCAGCATCCACAACCAATCAGAGGACAGAATCATATTTCACATTTTCAATCCAGACC 60
Query 61 AATCAAAATCGTAAACGAATCCTACTCTCCACCTTATAGTAGCAGTTTCGTCTCTTCCTC 120
|||||||||| | |||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 61 AATCAAAATCCTGAACGAATCCTACTCTCCACCTTATAGGAGCAGTTTCGTCTCTTCCTC 120
Query 121 CTCCTTTCACTTAGCTCTTCCTAGTGTTAAACCAGACTAAAGCTTGAAAGTTGAAACTTT 180
|| ||||||||||||||||||||||||||||||||| |||||| ||||||||||
Sbjct 121 CTTCTTTCACTTAGCTCTTCCTAGTGTTAAACCAGAGTAAAGC-------TTGAAACTTT 173
Query 181 GGGCTAAAAGAATGGCGTCTTTGGGTGTGTCGGAAATGCTTGGTACTCCTCTTAACTTCA 240
|| |||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct 174 GGACTAAAAGAATGGCGTCTTTGGGTGTGTCGGAAATGCTTGGTACTCCCCTTAACTTCA 233
Query 241 GGGCAGTTTCAAGATCGTCTGCTCCGTTGGCATCAAGCCCGGCCACGTTCAAGACTGTTG 300
|||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct 234 GGGCAGTTTCAAGATCGTCTGCTCCGTTGGCATCAAGCCCATCCACGTTCAAGACTGTTG 293
Query 301 CTCTGTTCTCTAAGAAAAAGCCAGCTCCTGCTAAGTCCAAGGCTGTCTCCGAGACTAGCG 360
|||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct 294 CTCTCTTCTCTAAGAAAAAGCCAGCTCCTGCTAAGTCCAAGGCTGTCTCTGAGACTAGCG 353
Query 361 ACGAGCTCGCTAAGTGGTATGGTCCTGACAGGAGAATTTTCTTGCCTGATGGTCTTTTGG 420
| |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 354 ATGAGCTCGCCAAGTGGTATGGTCCTGACAGGAGAATTTTCTTGCCTGATGGTCTTTTGG 413
Query 421 ACAGATCAGAGATTCCAGAGTACTTAAACGGTGAAGTTGCTGGAGATTATGGTTATGACC 480
| ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 414 ATAGATCAGAGATCCCAGAGTACTTAAACGGTGAAGTTGCTGGAGATTATGGTTATGACC 473
Query 481 CATTTGGTCTTGGAAAGAAGCCTGAGAACTTTGCTAAATACCAAGCCTTTGAATTGATCC 540
|||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 474 CATTTGGTCTTGGAAAGAAGCCTGAGAACTTTGCTAAATACCAAGCTTTTGAATTGATCC 533
Query 541 ATGCGAGATGGGCTATGTTAGGAGCAGCTGGTTTCATCATCCCTGAAGCTTTAAACAAAT 600
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct 534 ATGCGAGATGGGCTATGTTAGGAGCAGCTGGTTTCATCATTCCTGAAGCTTTAAACAAAT 593
Query 601 ACGGCGCTAAGTGTGGCCCCGAAGCTGTTTGGTTTAAGACTGGTGCTTTGCTTCTTGATG 660
| |||||||| |||||||| |||||||| |||||||||||||||||||||||||||||||
Sbjct 594 ATGGCGCTAACTGTGGCCCTGAAGCTGTCTGGTTTAAGACTGGTGCTTTGCTTCTTGATG 653
Query 661 GAAACACATTGAACTACTTTGGCAAGAACATCCCAATCAACCTTGTTCTCGCCGTAGTTG 720
|||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct 654 GAAACACATTGAACTACTTTGGCAAGAACATCCCTATCAACCTTGTTCTCGCCGTAGTTG 713
Query 721 CTGAGGTTGTTCTCCTCGGTGGAGCCGAGTACTACAGAATCACCAACGAATTGGATTTTG 780
|||||||||||||||||||||||||||||||||||||||||||||||| ||||||||| |
Sbjct 714 CTGAGGTTGTTCTCCTCGGTGGAGCCGAGTACTACAGAATCACCAACGGATTGGATTTCG 773
Query 781 AGGACAAGCTACACCCAGGAGGTCCATTTGATCCTCTAGGACTCGCTAAGGACCCTGATC 840
|||||||||||||||||||||||||||||||||||||||| || |||||||||||||| |
Sbjct 774 AGGACAAGCTACACCCAGGAGGTCCATTTGATCCTCTAGGCCTTGCTAAGGACCCTGAGC 833
Query 841 AAGGAGCTCTTCTCAAGGTCAAAGAGATCAAGAACGGGAGATTAGCCATGTTTGCGATGC 900
|||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct 834 AAGGAGCTCTTCTCAAAGTCAAAGAGATCAAGAACGGGAGATTAGCCATGTTTGCGATGC 893
Query 901 TCGGTTTCTTCATCCAAGCTTATGTTACCGGAGAAGGTCCTGTTGAGAACCTTGCGAAGC 960
|||||||||| |||||||| ||||||||||||||||||||||||||||||||||| ||||
Sbjct 894 TCGGTTTCTTTATCCAAGCGTATGTTACCGGAGAAGGTCCTGTTGAGAACCTTGCAAAGC 953
Query 961 ATCTCAGTGATCCTTTTGGAAACAACTTGCTTACCGTCATCGCTGGAACTGCTGAGAGAG 1020
|||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct 954 ATCTCAGTGATCCTTTTGGAAACAACTTGCTTACCGTCATCGCTGGAACTGCCGAGAGAG 1013
Query 1021 CTCCCACTCTCTAAGCCATTTCTACTTTTT--AAGAGCTTCCAAAATGTACACTTTGTTC 1078
|||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 1014 CTCCCACTCTCTAAGCCATTTCTACTTTTTTTAAGAGCTTCCAAAATGTACACTTTGTTC 1073
Query 1079 GATTGGAACTCCTTTTGACAATGTTAAAAAA-CTTCCATCTGAATCTTCTTGA-ATATTT 1136
||||||||||||||||||||||||||||||| ||||||||||||||||||||| ||||||
Sbjct 1074 GATTGGAACTCCTTTTGACAATGTTAAAAAAACTTCCATCTGAATCTTCTTGATATATTT 1133
Query 1137 CAA-T-------GGTGCTTTATCAATGCTTCTAAAGATATACATAGTCACCCATTGGTTT 1188
||| | |||||||||||| ||||||||| |||||||||||||||||||||||||
Sbjct 1134 CAAATTTTCAATGGTGCTTTATCA-TGCTTCTAAGGATATACATAGTCACCCATTGGTTT 1192
Query 1189 TATAT 1193
||||
Sbjct 1193 AATAT 1197
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 58584036015
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