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= Ahg478197
Length=972
Score E
Sequences producing significant alignments: (Bits) Value
AT3G08940.2 | Symbols: LHCB4.2 | light harvesting complex photo... 1472 0.0
> AT3G08940.2 | Symbols: LHCB4.2 | light harvesting complex photosystem
II | chr3:2717675-2718883 FORWARD LENGTH=1124
Length=1124
Score = 1472 bits (797), Expect = 0.0
Identities = 880/920 (96%), Gaps = 6/920 (1%)
Strand=Plus/Plus
Query 1 TACAAACCGCAAACGCGAC---A-TAACTAACGACGCCGGAGATGGCTGCCACTTCAACC 56
||||||||||||||||||| | ||||||||||||||||||||||| ||||||||||||
Sbjct 1 TACAAACCGCAAACGCGACAGAACTAACTAACGACGCCGGAGATGGCCGCCACTTCAACC 60
Query 57 GCCGCTTCTGCTTCTTCAATCATGGGTACCCGGGTGGTTTCCGACATTAGCTCCGGTTCA 116
|||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct 61 GCCGCTGCTGCTTCTTCAATCATGGGTACCCGGGTGGTTTCCGACATTAGCTCCAATTCA 120
Query 117 ACCCGGTTCACAGCCCGGTTCGGATTCGGAACTAAGAAAGCCGCTCCTAAAAAGGCTAAG 176
| |||||||||||||||||||||||||||||| |||||||| |||| ||||||||||||
Sbjct 121 AGCCGGTTCACAGCCCGGTTCGGATTCGGAACCAAGAAAGCATCTCCCAAAAAGGCTAAG 180
Query 177 ACGGTTATCTCAGACCGGCCTTTATGGTTCCCAGGCGCAAAATC-CCCAGAGTATCTCGA 235
||||||||||||||||||||| |||||||||||||||||||||| ||| || ||||||||
Sbjct 181 ACGGTTATCTCAGACCGGCCTCTATGGTTCCCAGGCGCAAAATCACCC-GAATATCTCGA 239
Query 236 CGGTTCACTGGTCGGGGACTACGGGTTCGATCCTTTTGGTTTAGGTAAACCGGCGGAGTA 295
||||||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 240 CGGTTCACTTGTCGGGGACTACGGGTTCGATCCTTTTGGTTTAGGCAAACCGGCGGAGTA 299
Query 296 TCTCCAATTCGATTTGGACTCCTTGGACCAGAACCTCGCCAAGAACTTAGCCGGAGACGT 355
|||||||||||||||||| ||||||||||||||| | |||||||||||| |||||| ||
Sbjct 300 TCTCCAATTCGATTTGGATTCCTTGGACCAGAACTTAGCCAAGAACTTATACGGAGAAGT 359
Query 356 GATCGGGACCCGTACCGAGGCGGTGGATCCCAAATCGACGCCGTTTCAGCCATACAGTGA 415
||||||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||
Sbjct 360 GATCGGGACTCGTACCGAGGCGGTGGACCCCAAATCGACGCCGTTTCAGCCATATAGTGA 419
Query 416 AGTCTTCGGGCTACAGAGATTCAGAGAATGTGAGCTGATTCACGGTCGGTGGGCAATGCT 475
||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct 420 AGTCTTCGGGCTACAAAGATTCAGAGAATGTGAGCTGATTCACGGTCGGTGGGCAATGCT 479
Query 476 CGCCACTCTCGGCGCTATCACCGTAGAATGGCTCACCGGTGTTACTTGGCAAGACGCCGG 535
||||||||| |||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct 480 CGCCACTCTTGGCGCTATCACCGTCGAATGGCTCACCGGTGTTACTTGGCAAGACGCCGG 539
Query 536 CAAGGTAGAGCTAGTGGATGGATCGTCTTACTTAGGACAGCCATTGCCGTTCTCTATCTC 595
|||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct 540 CAAGGTAGAGCTAGTGGATGGATCATCTTACTTAGGACAGCCATTGCCGTTCTCTATCTC 599
Query 596 GACATTGATATGGATCGAAGTGTTAGTGGTCGGCTACATTGAGTTCCAACGAAACGCTGA 655
|||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 600 GACATTGATATGGATCGAAGTGTTAGTGATCGGCTACATTGAGTTCCAACGAAACGCTGA 659
Query 656 GCTGGACTCAGAGAAGCGTTTGTATCCAGGAGGCAAGTTCTTTGACCCGTTAGGACTAGC 715
|||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 660 ACTGGACTCGGAGAAGCGTTTGTATCCAGGAGGCAAGTTCTTTGACCCGTTAGGACTAGC 719
Query 716 ATCTGACCCGGAGAAGAAGGCTCAGCTTCAGCTAGCTGAGATCAAACATGCTCGTTTAGC 775
|||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 720 GTCTGACCCGGTGAAGAAGGCTCAGCTTCAGCTAGCTGAGATCAAACATGCTCGTTTAGC 779
Query 776 CATGGTTGGATTCTTGGGTTTTGCTGTTCAGGCGGCTGCAACCGGTAAAGGACCCCTCAA 835
|||||||||||||||||||||||| ||||||||||||||||||||||||||||| |||||
Sbjct 780 CATGGTTGGATTCTTGGGTTTTGCGGTTCAGGCGGCTGCAACCGGTAAAGGACCGCTCAA 839
Query 836 CAACTGGGCGACTCACCTTAGTGACCCACTTCACACCACCATTATCGATACCTTCTCTTC 895
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 840 CAACTGGGCGACTCACCTTAGTGACCCACTTCACACCACCATTATCGATACCTTCTCTTC 899
Query 896 CTCTTGATGTGGTGGCTTTT 915
||| ||||||||||||||||
Sbjct 900 CTCCTGATGTGGTGGCTTTT 919
Score = 91.6 bits (49), Expect = 1e-17
Identities = 55/58 (95%), Gaps = 0/58 (0%)
Strand=Plus/Plus
Query 915 TGTAATGATGTAATGTCGCTATTTTAAAGAAAATTTGGCACCTTTTGTATAAACAGAA 972
||||||||||||| |||| ||||||||||||||||||||||||||||||||||| |||
Sbjct 975 TGTAATGATGTAACGTCGTTATTTTAAAGAAAATTTGGCACCTTTTGTATAAACGGAA 1032
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 47571737209
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