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= Ahg483204
Length=673
Score E
Sequences producing significant alignments: (Bits) Value
AT2G41340.1 | Symbols: RPB5D | RNA polymerase II fifth largest ... 965 0.0
> AT2G41340.1 | Symbols: RPB5D | RNA polymerase II fifth largest
subunit, D | chr2:17229008-17230482 FORWARD LENGTH=715
Length=715
Score = 965 bits (522), Expect = 0.0
Identities = 617/663 (93%), Gaps = 6/663 (1%)
Strand=Plus/Plus
Query 7 GAGAGAGACGATGGTGGGGAAAGGGAAGGAGATAGCGGTTGTACAGTCCATTGA-TAAAC 65
|||||||||||||| |||||||||||| ||||||| ||||| ||| |||||| | ||||
Sbjct 9 GAGAGAGACGATGGAGGGGAAAGGGAAAGAGATAGTGGTTGGACATTCCATT-AGTAAAT 67
Query 66 CAAGTGTGGAATGTCACAAATATTACCTGGCACGTCGAACAACCATGGAGATGCTCCGAG 125
||||||| || ||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct 68 CAAGTGTAGAGTGTCACAAATATTACCTGGCACGTCGAACCACCATGGAGATGCTCCGAG 127
Query 126 ACAGAGGATACGATGTCTCCGACGAAGATGTTAACTTCTCCCTCGAGCAATTCCGAGCGC 185
||||||||||||||||||||||||||||| ||||| |||||||| ||||||| |||||||
Sbjct 128 ACAGAGGATACGATGTCTCCGACGAAGATATTAACCTCTCCCTCCAGCAATTTCGAGCGC 187
Query 186 TCTACGGCGAAC-GCCTTGACGTAGATCGACTTCGTATCTCTGCCAAGCATCGCTTTGAT 244
|||| || |||| || ||||||||||| |||||||||||| ||||| ||||||||||||
Sbjct 188 TCTATGGGGAACATCC-TGACGTAGATCTACTTCGTATCTCAGCCAAACATCGCTTTGAT 246
Query 245 TCTTCGAAAAAGATTAT-GGTTGTGTTTTGTGGAACTGGTATGGTTAAAGTCAATGCCAT 303
||||||||||||| | | ||| |||||||||||||||||||| |||||||||||||| ||
Sbjct 247 TCTTCGAAAAAGA-TCTCGGTAGTGTTTTGTGGAACTGGTATAGTTAAAGTCAATGCGAT 305
Query 304 GCGCGCCATTGCAGCAGATGTACTGAACCGAGAAAGTATAACCGGACTGATACTGGTTTT 363
||||| ||||||||||||||| || | |||||||| ||||||||||||||||||||||||
Sbjct 306 GCGCGTCATTGCAGCAGATGTGCTTAGCCGAGAAAATATAACCGGACTGATACTGGTTTT 365
Query 364 GCAAAGCCATATAACAAATCAAGCTCTTAAAGCCGTTGAACTTTTCTCGTTTAAGGTCGA 423
|||||| |||||||| || ||||||||||||||||||||||||||||| |||||||||||
Sbjct 366 GCAAAGTCATATAACGAACCAAGCTCTTAAAGCCGTTGAACTTTTCTCCTTTAAGGTCGA 425
Query 424 GTTATTCGAGATAACCGATTTGCTGGTTAACGTAACCAAACATGTCTTGAGGCCAAAACA 483
|||||||||||| ||||||||| |||||||||||| ||||||||||||||||||||||||
Sbjct 426 GTTATTCGAGATTACCGATTTGTTGGTTAACGTAAGCAAACATGTCTTGAGGCCAAAACA 485
Query 484 TCAGGTTCTGAATGATAAGGAGAAGGAATCACTTCTCAAGAAATACAGTATCGAGGAGAA 543
|||||||||||| ||||| ||||||||||||||||||||||| | |||||| ||||||||
Sbjct 486 TCAGGTTCTGAACGATAAAGAGAAGGAATCACTTCTCAAGAAGTTCAGTATTGAGGAGAA 545
Query 544 ACAACTTCCTCGGTTATCGAGCAAAGACCCGATTGTGCGATACTATGGACTAGAGACAGG 603
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 546 ACAACTTCCTCGGTTATCGAGCAAAGACCCGATTGTGCGATACTATGGACTAGAGACAGG 605
Query 604 GCAAGTCATGAAGGTCACATACAAAGACGAGCTCAGTGAGTCGCATGTTACATACCGATG 663
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 606 GCAAGTCATGAAGGTCACATACAAAGACGAGCTCAGTGAGTCGCATGTTACATACCGATG 665
Query 664 CGT 666
|||
Sbjct 666 CGT 668
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 32551727256
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