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= Ahg938102
Length=1204
Score E
Sequences producing significant alignments: (Bits) Value
AT3G52260.3 | Symbols: | Pseudouridine synthase family protein... 1123 0.0
> AT3G52260.3 | Symbols: | Pseudouridine synthase family protein
| chr3:19383419-19386553 REVERSE LENGTH=1397
Length=1397
Score = 1123 bits (608), Expect = 0.0
Identities = 691/730 (95%), Gaps = 9/730 (1%)
Strand=Plus/Plus
Query 177 CTAGGGTGGATTCAACGAATCCAAAACGGACA-G---ATACAAATTGACGGTGAAGTTGT 232
||| |||||||||||||||||||||||||||| | |||||||||||||||||||||||
Sbjct 348 CTA-GGTGGATTCAACGAATCCAAAACGGACAGGTTTATACAAATTGACGGTGAAGTTGT 406
Query 233 CAAAGATCCCAACACACTTCTTAGGAGTGGTTCCAAGTTAGTTTACCA-TAGGCTTCCTT 291
|||||||||||||||||||||||||||||||| || |||||||| || |||||||||||
Sbjct 407 AAAAGATCCCAACACACTTCTTAGGAGTGGTTCGAAATTAGTTTA-CAGTAGGCTTCCTT 465
Query 292 GGAAGGAACCTGACACGCCATACTCGCTACAAGTTTTGTATGAAGATGATGATTTGATCG 351
|||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 466 GGAAGGAACCTGACACGCCATACTCGCTTGAAGTTTTGTATGAAGATGATGATTTGATCG 525
Query 352 CTTTAAACAAGCCTTCTGGACTTCAAGTATTGCCCGGAGGACTTTTCCAGCAACGGACTG 411
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 526 CTTTAAACAAGCCTTCTGGACTTCAAGTATTGCCCGGAGGACTTTTCCAGCAACGGACTG 585
Query 412 TGTTGACGCAGCTGCAGTGGTGTTTCCGTAAAAATGATTCTTACA-CTGGATCGCATGAA 470
||||||||||||||||||||||||| |||||||||| ||||||| | ||||||| ||||
Sbjct 586 TGTTGACGCAGCTGCAGTGGTGTTTTGGTAAAAATGACTCTTACATC-GGATCGCGTGAA 644
Query 471 TCACCACACCCTGTCCCTGTACATCGACTGGGTAGAGGAACTTCAGGTATACTTCTCTGT 530
|||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 645 TCACCACATCCTGTCCCTGTACATCGACTGGGTAGAGGAACTTCAGGTATACTTCTCTGT 704
Query 531 GCGAAGACAAAGCTTGCAAAAACTAAACTTGCAGCGTATTTTGCTGAGGGAACATCTCTT 590
|| ||||| ||||| |||||||| ||||||||||||||||||||||||||||||||||||
Sbjct 705 GCAAAGACCAAGCTGGCAAAAACGAAACTTGCAGCGTATTTTGCTGAGGGAACATCTCTT 764
Query 591 GTCGGGTCCGGCAACCTGGATCAAGAGTGTGGAAAAGGAAGAAAACTATCAAAGATATAT 650
||||| |||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct 765 GTCGGCTCCGGCAACCTGGATCAAGAGTGTGGAACAGGAAGAAAACTATCAAAGATATAT 824
Query 651 CGAGCACTAGCAGATGGTATAGTTGAAGAAAACGAGGTAGTAATCAAACAGCCTTTAGGA 710
|||||||||||||||||||||||||||||| ||||||||||||||||||||||| |||||
Sbjct 825 CGAGCACTAGCAGATGGTATAGTTGAAGAAGACGAGGTAGTAATCAAACAGCCTATAGGA 884
Query 711 GTGGTTCGGTATCCTGGGGTAGCAAAAGGATTATATGTTGCTTCTCCGGAAGGCAAACCT 770
|||||||| ||||||||||| ||| |||||||||||||||||||||||||||| ||||||
Sbjct 885 GTGGTTCGATATCCTGGGGTCGCACAAGGATTATATGTTGCTTCTCCGGAAGGGAAACCT 944
Query 771 GCTTTCAGCAAAGTAGCTGTTCTGGAGAGGGACAAGCAAAAGAATTGCACGCTGGTTAAG 830
|||||||| |||||| ||||||||||||||||| | |||| |||||| |||| ||||||
Sbjct 945 GCTTTCAGTAAAGTATTTGTTCTGGAGAGGGACAGGGAAAAAAATTGCTCGCTTGTTAAG 1004
Query 831 GTAGAGATACAATCTGGAAGACCACATCAAATCCGGATTCATCTTGCATACATGGGACAT 890
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1005 GTAGAGATACAATCTGGAAGACCACATCAAATCCGGATTCATCTTGCATACATGGGACAT 1064
Query 891 CCCTTGGTAG 900
||||||||||
Sbjct 1065 CCCTTGGTAG 1074
Score = 425 bits (230), Expect = 4e-118
Identities = 259/273 (95%), Gaps = 2/273 (1%)
Strand=Plus/Plus
Query 919 GGGACCCTCTTTATGTAGCAGGCGGCCAACCAAAGTGCTTTGATCCCGATCTTGTAGATG 978
||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct 1126 GGGACCCTCTTTATGTAGCGGGCGGCCAACCAAAGTGCTTTGATCCCGATCTTGTAGATG 1185
Query 979 ATGCTGTAGCCTTTGCCGAAGATGGAGGTTACAGAAGGCCAAATCAGGCTGTTCCTGGGG 1038
|||| | |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1186 ATGCCGCAGCCTTTGCCGAAGATGGAGGTTACAGAAGGCCAAATCAGGCTGTTCCTGGGG 1245
Query 1039 ACTGTGGATATCATCTGCATGCTCATCAAGTAGAGCTACCAAACCTGTTGAACACTCATA 1098
| ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 1246 ATTGTGGATATCATCTGCATGCTCATCAAGTAGAGCTACCAAACCTGCTGAACACTCATA 1305
Query 1099 AGGTAGTAAAAATTGTAGCACCTCTACCACCAATCCTCCAAACAAGTTGTGAGGCAG-AA 1157
|||||||||||||||||||||| || |||||||| ||||||||||| |||||| | | ||
Sbjct 1306 AGGTAGTAAAAATTGTAGCACCGCTGCCACCAATTCTCCAAACAAGATGTGAGAC-GTAA 1364
Query 1158 GAAAAGGGTTAATCCTCCTGCAAGTGAAGTTGC 1190
||||| |||| ||||||||||||||||||||||
Sbjct 1365 GAAAAAGGTTTATCCTCCTGCAAGTGAAGTTGC 1397
Score = 248 bits (134), Expect = 9e-65
Identities = 146/152 (96%), Gaps = 0/152 (0%)
Strand=Plus/Plus
Query 32 GTCGCCGCCGCCGCAACGTATCGGCTTGCCATGGCCGGAGCTCAACGATGGTTTGGCATA 91
|||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||
Sbjct 116 GTCGCCGCCGCCGCAACGTATCGGCTTGCCATGGCCTGAGCTTAACGATGGTTTGGCATA 175
Query 92 CAAGGATGTCATCTCTTCTTCTGAGTCAGAGTTAACGACGGTGTCCGATTTCTACTTCAC 151
|||||||| ||||||||||||||| |||||||||||||||||||| || |||||||||||
Sbjct 176 CAAGGATGCCATCTCTTCTTCTGAATCAGAGTTAACGACGGTGTCAGAATTCTACTTCAC 235
Query 152 CAAATACAAGAGTTCAGCTCCATTGCTAGGGT 183
||||||||||||||||||||||||||||||||
Sbjct 236 CAAATACAAGAGTTCAGCTCCATTGCTAGGGT 267
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 59136242010
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