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= Ahg471477
Length=1302
Score E
Sequences producing significant alignments: (Bits) Value
AT1G13220.2 | Symbols: LINC2 | nuclear matrix constituent prote... 1773 0.0
> AT1G13220.2 | Symbols: LINC2 | nuclear matrix constituent protein-related
| chr1:4515699-4520284 FORWARD LENGTH=3600
Length=3600
Score = 1773 bits (960), Expect = 0.0
Identities = 1057/1105 (96%), Gaps = 2/1105 (0%)
Strand=Plus/Plus
Query 75 ATGACGCCGAGAAGCGAGAAGCATAAAATCGGCGGTGTTACTAACCCTAGAAACGCTGAT 134
||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct 1 ATGACGCCGAGAAGCGAGACGCATAAAATCGGCGGTGTTACTAACCCTAGAAACGCTGAT 60
Query 135 AGAAAGGGAAAGGCGGTTGCTTTTAGCGATGACCTAGTGATATCGACTCTCCCACCGCCT 194
||||| ||||||||||||||||| || ||||||||||| ||| ||||||| || ||||||
Sbjct 61 AGAAAAGGAAAGGCGGTTGCTTTCAGTGATGACCTAGTAATACCGACTCTTCCTCCGCCT 120
Query 195 CCGATTGGAACACTGACCGGAGAAGGCGTTTCTCGAGGTTACACTGATGATATGGATATG 254
||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||||
Sbjct 121 CCGATTGGAACACTGACCGGACAAGGCGTTTCTCGAGGTCACACTGATGATATGGATATG 180
Query 255 GGTGATTGGAGAAGGTTTAGGGAAGTGGGTTTGTTGAATGAGGCTTCAATGGAGAAGAAA 314
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 181 GGTGATTGGAGAAGGTTTAGGGAAGTGGGTTTGTTGAATGAGGCTTCAATGGAGAAGAAA 240
Query 315 GATCAAGAAGCTCTTCTTGAAAAGATCTCCACACTTGAAAAAGAGTTATATGGCTATCAG 374
||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 241 GATCAAGAAGCTCTTCTTGAAAAGATCTCTACACTTGAAAAAGAGTTATATGGCTATCAG 300
Query 375 CACAATATGGGGCTTCTTCTCATGGACAACAAAGAGTTGGTTTCAAAGCACGATCAACTA 434
|||||||||||||||||||| ||||| |||||||||||||||||||||||||| ||||||
Sbjct 301 CACAATATGGGGCTTCTTCTTATGGAGAACAAAGAGTTGGTTTCAAAGCACGAACAACTA 360
Query 435 AATCAGGCATTGCAAGAAGCTCAAGAAATCCTTAAAAGGGAACAGTCGTCACATCTGTAT 494
||||||||||| ||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 361 AATCAGGCATTCCAAGAAGCTCAAGAAATCCTTAAAAGGGAACAGTCATCACATCTGTAT 420
Query 495 GCGTTGACGACTGTCGAACAACGTGAAGAAAACTTGAGAAAAGCTTTGGGTCTGGAAAAG 554
|| |||||||| || ||||||||||||||||||||||| ||||| |||||||||||||||
Sbjct 421 GCATTGACGACGGTTGAACAACGTGAAGAAAACTTGAGGAAAGCCTTGGGTCTGGAAAAG 480
Query 555 CAATGTGTGCAAGAGCTTGAGAAGGCTCTTCGTGAAATTCAAGAGGAGAATAGCAAGATG 614
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 481 CAATGTGTGCAAGAGCTTGAGAAGGCTCTTCGTGAAATTCAAGAGGAGAATAGCAAGATA 540
Query 615 AGGCTGACTTCTGAAGCTAAATTAGTTGAAGCTAATGCTTTGGTTGCTAGTGTTAACGGG 674
||||||| |||||||||||||||||||||||| |||||| ||||||||||||| ||||||
Sbjct 541 AGGCTGAGTTCTGAAGCTAAATTAGTTGAAGCAAATGCTCTGGTTGCTAGTGTAAACGGG 600
Query 675 AGATCTTCAGACGTGGAAAACAAGATTTACTCTGCCGAAAGCAAGCTCGCAGAGGCAACT 734
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 601 AGATCTTCAGACGTGGAAAACAAGATTTACTCTGCCGAAAGCAAGCTCGCAGAGGCAACT 660
Query 735 AGAAAGAGCTCCGAGCTGAAAATGAGATTGAAGGAAGTGGAGACTCGTGAAAGTGTCCTG 794
||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 661 AGAAAGAGCTCCGAGCTGAAATTGAGATTGAAGGAAGTGGAGACTCGTGAAAGTGTCCTG 720
Query 795 AAACAAGAGCGGCTTTCATTTGCTAAAGAGCGAGAATCATATGAAGGGACTTTCCACAAG 854
||||||| |||||||||||| |||||||||||||||||||||||||||||||||| |||
Sbjct 721 CAACAAGAACGGCTTTCATTTACTAAAGAGCGAGAATCATATGAAGGGACTTTCCAAAAG 780
Query 855 CAAAGAGAGTACCTTAATGAATGGGAGAAAAAGCTTCAAGAAAAGGAAGAAATA-ATGAC 913
|||||||||||||||||||||||||||||||||||||||| |||||||||| | || ||
Sbjct 781 CAAAGAGAGTACCTTAATGAATGGGAGAAAAAGCTTCAAGGAAAGGAAGAA-TCCATAAC 839
Query 914 TGAGCagaagagaagcctgaatcaaagagaggaaaaggttaatgaaaaagaaaagaaact 973
|||||||||||||| |||||||||||||||||||||||||||||||| ||||||||| ||
Sbjct 840 TGAGCAGAAGAGAAACCTGAATCAAAGAGAGGAAAAGGTTAATGAAATAGAAAAGAAGCT 899
Query 974 gaagctgaaagaaaaagaacttgaagaatgggatagaaagGTTGATTTGTCTATGTCGAA 1033
||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 900 GAAGCTGAAAGAAAAAGAACTTGAAGAATGGAATAGAAAGGTTGATTTGTCTATGTCGAA 959
Query 1034 GTGTAAGGAAACTGAAGAGGACATAACGAAACGATTGGAAGAATTGACTACAAAAGAGAA 1093
|| ||| |||||||||||||||||||| ||||| ||||||||||||||||||||||||||
Sbjct 960 GTCTAAAGAAACTGAAGAGGACATAACTAAACGTTTGGAAGAATTGACTACAAAAGAGAA 1019
Query 1094 AGAAGCTCACACACTCCAGAGCACGCTAGTGTCAAAGGAGAATGAGTTACGAGCCTTTGA 1153
|||||||||||||||||||| ||||||| || |||||||||||||||||||||| |||||
Sbjct 1020 AGAAGCTCACACACTCCAGATCACGCTATTGGCAAAGGAGAATGAGTTACGAGCATTTGA 1079
Query 1154 AGAGAAGCTCATTGCTAGAGAAGGG 1178
|||||||||||||||||||||||||
Sbjct 1080 AGAGAAGCTCATTGCTAGAGAAGGG 1104
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 64055895420
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