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= Ahg938082
Length=609
Score E
Sequences producing significant alignments: (Bits) Value
AT3G52090.2 | Symbols: NRPB11 | DNA-directed RNA polymerase, RB... 462 1e-129
> AT3G52090.2 | Symbols: NRPB11 | DNA-directed RNA polymerase,
RBP11-like | chr3:19317849-19319123 REVERSE LENGTH=786
Length=786
Score = 462 bits (250), Expect = 1e-129
Identities = 299/322 (93%), Gaps = 6/322 (2%)
Strand=Plus/Plus
Query 291 ATTCACACAACAAGCCAGTCTTCCCCAATGCAAGCATACAACCAGGCCATCAATGATTTG 350
|||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct 438 ATTCACACAACAAGCCAGTCTTCCCCAATGCAAGCATACAACCAGGCCATCAATGACTTG 497
Query 351 GACAAGGAGCTCGATTATTTGAAGAACCAGTTTGAGGCAGAGGTGGCCAAGTTTTCAAAT 410
|||||||||||||| || |||||||||||||||||||||||||||||||||||||| |||
Sbjct 498 GACAAGGAGCTCGACTACTTGAAGAACCAGTTTGAGGCAGAGGTGGCCAAGTTTTCGAAT 557
Query 411 CAGTTTTAAGGAA---GGAGTCCTCCATCAGCACATCGGGAAAAACGTTTTACATTGTCT 467
||||||||||||| ||||| |||||||||||||||||| |||||||||||||||||||
Sbjct 558 CAGTTTTAAGGAACTTGGAGTTCTCCATCAGCACATCGGGGAAAACGTTTTACATTGTCT 617
Query 468 TTCGCTAAGCACCAACCACAGGGCTTATAATGAGCTTGTGAAATTTTCCCCAGTTATGCT 527
|| |||||||||||| || || || |||||||||||| ||||||||||| |||||||||
Sbjct 618 TTTGCTAAGCACCAATCA-AGA-CTAATAATGAGCTTGGGAAATTTTCCCTAGTTATGCT 675
Query 528 TTGTATAAATCAGAAACAAATCGCCCTGTAACTTGTTTTCACTCTTATGTTTCAACACCA 587
|||||||||||| |||||||||| |||||||||| |||| ||||| ||||||||||||||
Sbjct 676 TTGTATAAATCAAAAACAAATCGGCCTGTAACTTCTTTTAACTCT-ATGTTTCAACACCA 734
Query 588 TTTGAGGATGCTATGAAGTAAT 609
||| ||||||||||||||||||
Sbjct 735 TTTCAGGATGCTATGAAGTAAT 756
Score = 453 bits (245), Expect = 9e-127
Identities = 276/291 (95%), Gaps = 2/291 (1%)
Strand=Plus/Plus
Query 1 ACTGAAGAGCCCCTTGAGTGTCT-TCTGCGGCGAAAAAGAGAGCGAAGCTTGAAATCTCC 59
|||||||| | ||||| ||||| ||||||||||||||||||||||||||||||||||||
Sbjct 58 ACTGAAGA-ACTCTTGACTGTCTCTCTGCGGCGAAAAAGAGAGCGAAGCTTGAAATCTCC 116
Query 60 GATTAAGCCATGAATGCTCCAGACCGATACGAGCGATTCGTCGTCCCTGAAGGAACCAAG 119
|||||||||||||||||||| || ||||| ||||||||||||||||||||||| ||||||
Sbjct 117 GATTAAGCCATGAATGCTCCCGAACGATATGAGCGATTCGTCGTCCCTGAAGGCACCAAG 176
Query 120 AAGGTTTCTTATGATAGGGATACGAAGATCATCAATGCTGCTTCCTTCACGATTGAGAGA 179
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 177 AAGGTTTCTTATGATAGGGATACGAAGATCATCAATGCTGCTTCCTTCACGGTTGAGAGA 236
Query 180 GAAGACCATACGATTGGAAACATTGTTCGCATGCAACTTCACCGTGACGAGAATGTCTTG 239
|||||||||||||||||||||||||| |||||||||||||| || |||||||||||||||
Sbjct 237 GAAGACCATACGATTGGAAACATTGTCCGCATGCAACTTCATCGCGACGAGAATGTCTTG 296
Query 240 TTTGCTGGATATCAACTTCCTCATCCTCTCAAGTACAAAATCATAGTGAGG 290
||||||||||| ||||||||||||||||| |||||||||||||||||||||
Sbjct 297 TTTGCTGGATACCAACTTCCTCATCCTCTTAAGTACAAAATCATAGTGAGG 347
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 29336741848
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