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= Ahg915639
Length=1977
Score E
Sequences producing significant alignments: (Bits) Value
AT3G23890.1 | Symbols: TOPII, ATTOPII | topoisomerase II | chr3... 763 0.0
> AT3G23890.1 | Symbols: TOPII, ATTOPII | topoisomerase II | chr3:8624750-8631327
FORWARD LENGTH=4824
Length=4824
Score = 763 bits (413), Expect = 0.0
Identities = 665/784 (85%), Gaps = 27/784 (3%)
Strand=Plus/Plus
Query 107 GTCCTGATTCTTATATAGGATCGATTGAGAAACATACCCAAACGCTTTGGGTTTATGAGA 166
|||||||| | || || ||||| || |||||||| |||||||| ||||||||||||||||
Sbjct 321 GTCCTGATACATACATCGGATCTATCGAGAAACACACCCAAACACTTTGGGTTTATGAGA 380
Query 167 AGGAAGAGATGGTTTGTCGTTCTGTTACTTATGTTCCTGGATTGTATAAGATCTTTGATG 226
| || ||||||||| ||| ||||||| ||||| |||||||||||||||||||||||||
Sbjct 381 AAGATGAGATGGTTCAACGTCCTGTTACCTATGTACCTGGATTGTATAAGATCTTTGATG 440
Query 227 AGATCCTTGTGAATGCTGCTGATAATAAACGGAGAGATCCGTCTATGGATTCTG-TCAAA 285
|||| || || || || |||||||| |||| ||||||| || |||||||| | || ||
Sbjct 441 AGATTCTCGTAAACGCCGCTGATAACAAACAGAGAGATGCGAAGATGGATTCCGTTC-AA 499
Query 286 GTTGTGATCGATGTTGAGAAGAATCAGATTAGTGTGTGTAACAGT-G-G-T-GA-----T 336
|||||||| ||||||||| |||||| ||||||||| ||||||||| | | | || |
Sbjct 500 GTTGTGATTGATGTTGAGCAGAATCTGATTAGTGTTTGTAACAGTGGAGCTGGAGTTCCT 559
Query 337 G--GAG-TTCCTCTTGAAGAAGGTGTTTTTGTGCCTGAGAttttttttGGTCATTGGTTG 393
| ||| ||| || |||||||| ||| ||| || ||||| | |||||||||| ||||
Sbjct 560 GTAGAGATTCATCAGGAAGAAGGAATTTATGTACCGGAGATGATATTTGGTCATTTGTTG 619
Query 394 A-G-G-AGGAATTACGATAATAATGTTAAGAAGACTACTGGTAGAAGAAACGGATTTGGT 450
| | | || || |||||| ||||||| |||||||| |||||| |||||||||||| ||||
Sbjct 620 ACGAGTAGTAACTACGATGATAATGTGAAGAAGACCACTGGTGGAAGAAACGGATATGGT 679
Query 451 GCTACGCTTACAAACATCTTCTCTACTGAATTCATTATAGAGATTGCAGATGGGAAGAGA 510
|||| |||||| || |||||||||||||||||||| || |||| |||||||||||||||
Sbjct 680 GCTAAGCTTACTAATATCTTCTCTACTGAATTCATCATCGAGACTGCAGATGGGAAGAG- 738
Query 511 TCACTCAAGAAGTATAAGCAGGTCTTTGAAAACAATATGGGGAACATGTCTAAACTATTT 570
||||||||||||||||||||||||||| ||||| |||||||| | ||| ||| ||
Sbjct 739 --ACTCAAGAAGTATAAGCAGGTCTTTGAGAACAACATGGGGAAGAAATCTGAACCGGTT 796
Query 571 ATAACCAAGTGCAATAAGGGTGAGAATTGGACGAAGGTTACATTCAAGCCTGATTTGAAG 630
||||||||||| |||||| ||||||| |||||||||||||||||||| || |||||||||
Sbjct 797 ATAACCAAGTGTAATAAGAGTGAGAACTGGACGAAGGTTACATTCAAACCAGATTTGAAG 856
Query 631 AAGTTTAACATGACTGAATT-GGAGAACGATGTGGTTGCTCTAATGAGTAAGCGAGTGTT 689
|||||||||||||||||||| | || ||||||||||||||||||||||||||||||||||
Sbjct 857 AAGTTTAACATGACTGAATTAGAAG-ACGATGTGGTTGCTCTAATGAGTAAGCGAGTGTT 915
Query 690 TGATATTGCTGGCTGTTTGGG-ACAGACTGTCAAAGTTGACCTGAATGGAAAACAAGTAC 748
|||||||||||| |||||||| | || ||||||||||||| |||||||| |||||| |||
Sbjct 916 TGATATTGCTGGATGTTTGGGGA-AGTCTGTCAAAGTTGAGCTGAATGGGAAACAAATAC 974
Query 749 CAATTAAGTCATTCAGTGATTATGTTGATCTCTACTTAAGTGCCGCCAGTAAATCAAGGA 808
|| | |||||||||| |||||||||||| || ||| ||||||| || | |||||| ||||
Sbjct 975 CAGTGAAGTCATTCACTGATTATGTTGACCTATACCTAAGTGCAGCTAATAAATCGAGGA 1034
Query 809 CTGAG---CCTCTCCCAAGGATGAATGAGAAAGTTAATGATAGATGGGAAGTTTGTGTTA 865
| ||| |||||||||||| ||| |||||||||||||||||||||||| |||||||| |
Sbjct 1035 CGGAGGATCCTCTCCCAAGGTTGACTGAGAAAGTTAATGATAGATGGGAGGTTTGTGTGA 1094
Query 866 GCTT 869
||||
Sbjct 1095 GCTT 1098
Score = 320 bits (173), Expect = 3e-86
Identities = 261/304 (86%), Gaps = 4/304 (1%)
Strand=Plus/Plus
Query 865 AGCTTTGTCAACTCCATTGCGACAATTAAGGGTGGTACGCATGTTGATTATGTGACCAGC 924
||||||||||||||||| || ||||| ||||||||||| |||||||| |||||||| ||
Sbjct 1124 AGCTTTGTCAACTCCATAGCAACAATCAAGGGTGGTACACATGTTGACTATGTGACGAGT 1183
Query 925 CAGGTCACAGAGTACATTGTGGGTATTGTGAACAAAAAGAAGAAATACCCTAATGTCAAG 984
||| | ||| | | ||||||| | ||||||||||||||| ||| || | ||||| |||
Sbjct 1184 CAGATTACAAACCATATTGTGGCTGCTGTGAACAAAAAGAATAAAAACGCAAATGTTAAG 1243
Query 985 ACTCATAATGTGAAGAACCATCTGTGGGTCTTTGTCAATGC-TCTGATTGACAATCCTGC 1043
| ||||||||||| |||||||||||||||||||||||||| | ||||||||||||||||
Sbjct 1244 GCCCATAATGTGAAAAACCATCTGTGGGTCTTTGTCAATGCAT-TGATTGACAATCCTGC 1302
Query 1044 GTTTGATTCTCAAACAAAAGAAACACTGACTCTTCCAGAGAGAAGTTTCGGGTCGAAATG 1103
|||||||||||||||||||||||||||||||||| | |||| ||||| |||||||||||
Sbjct 1303 TTTTGATTCTCAAACAAAAGAAACACTGACTCTTCGACAGAGCAGTTTTGGGTCGAAATG 1362
Query 1104 TCAACTTTCAGAAAATATCCTTCAGAAAGT-GGCCAAATCTGGCGTGGTGGAAAACTTGC 1162
| ||||||||||| || | || ||||||| || ||||||||||| ||||| || ||||
Sbjct 1363 TGAACTTTCAGAAGATTTTCTGAAGAAAGTTGGA-AAATCTGGCGTAGTGGAGAATTTGC 1421
Query 1163 TTTC 1166
||||
Sbjct 1422 TTTC 1425
Score = 220 bits (119), Expect = 3e-56
Identities = 151/165 (92%), Gaps = 7/165 (4%)
Strand=Plus/Plus
Query 1727 TGGTAGTGTCCCCGGAGAAGAAAGTGAGGAAGCTGAGATCGTCTCCGTTTAACAAGAAGA 1786
|||| ||||||||||||||||||||||||||| ||||||| |||||||| ||||||||||
Sbjct 4321 TGGT-GTGTCCCCGGAGAAGAAAGTGAGGAAGATGAGATCATCTCCGTTCAACAAGAAGA 4379
Query 1787 GTAGTTCAGTGATGAGCAGGTTGGCT-A-A-TAAGGAAGAGGAGAGCAGCGAGAATGCAG 1843
|||||||||||||||||||||||||| | | |||||||||||||||||||||||||| |
Sbjct 4380 GTAGTTCAGTGATGAGCAGGTTGGCTGATAATAAGGAAGAGGAGAGCAGCGAGAATGTGG 4439
Query 1844 CTGGAAACTCATCGTCAGAGAAATCTGGAG-A--TGTTTTTGCGA 1885
|||||||||||||||| ||||||||||||| | ||||| |||||
Sbjct 4440 CTGGAAACTCATCGTCTGAGAAATCTGGAGGAGATGTTTCTGCGA 4484
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 97941263295
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