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