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= Ahg318462
Length=345
Score E
Sequences producing significant alignments: (Bits) Value
AT3G16980.1 | Symbols: NRPB9A, NRPD9A, NRPE9A | RNA polymerases... 536 5e-152
AT4G16265.1 | Symbols: NRPB9B, NRPD9B, NRPE9B | RNA polymerases... 405 1e-112
> AT3G16980.1 | Symbols: NRPB9A, NRPD9A, NRPE9A | RNA polymerases
M/15 Kd subunit | chr3:5794436-5795827 FORWARD LENGTH=563
Length=563
Score = 536 bits (290), Expect = 5e-152
Identities = 326/344 (95%), Gaps = 0/344 (0%)
Strand=Plus/Plus
Query 1 ATGAGTACTATGAAATTTTGCCGTGAATGTAACAACATTCTGTATCCTAAGGAGGACAAG 60
||||||||||||||||||||||| |||||||| ||||||||||||||||||||||||||
Sbjct 91 ATGAGTACTATGAAATTTTGCCGCGAATGTAATAACATTCTGTATCCTAAGGAGGACAAA 150
Query 61 GAGCAGAAGATCCTCCTCTACGCTTGCCGTAATTGTGATCACCAGGAAGTAGCTGATAAC 120
|| ||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||
Sbjct 151 GAACAGAAGATCCTCCTCTATGCTTGCCGTAATTGTGATCACCAGGAGGTAGCTGATAAC 210
Query 121 AGCTGTGTGTACAGAAACGAGGTTCATCACTCTGTAAGTGAGCGAACTCAAATCCTATCT 180
|||||||||||||||||||||||||||||||||||||||||||||||||| ||| || |
Sbjct 211 AGCTGTGTGTACAGAAACGAGGTTCATCACTCTGTAAGTGAGCGAACTCAGATCTTAACA 270
Query 181 GACGTCGCTTCTGACCCAACTCTTCCCCGAACCAAGGCTGTGCGTTGCGCTAAGTGTCAG 240
||||| ||||||||||| |||||||||||||||||||||||||||||| |||||||||||
Sbjct 271 GACGTGGCTTCTGACCCTACTCTTCCCCGAACCAAGGCTGTGCGTTGCTCTAAGTGTCAG 330
Query 241 CATAGCGAGGCCGTCTTCTTCCAGGCTACGGCTAGAGGCGAAGAAGGAATGACACTGTTC 300
||||| |||||||| ||||||||||||||||||||||| |||||||||||||||||||||
Sbjct 331 CATAGGGAGGCCGTTTTCTTCCAGGCTACGGCTAGAGGTGAAGAAGGAATGACACTGTTC 390
Query 301 TTTGTCTGCTGCAACCCGAATAGTGGTCATCGCTGGAGAGAATA 344
|||||||| |||||||||||| ||||||||||||||||||||||
Sbjct 391 TTTGTCTGTTGCAACCCGAATTGTGGTCATCGCTGGAGAGAATA 434
> AT4G16265.1 | Symbols: NRPB9B, NRPD9B, NRPE9B | RNA polymerases
M/15 Kd subunit | chr4:9202352-9204078 REVERSE LENGTH=625
Length=625
Score = 405 bits (219), Expect = 1e-112
Identities = 306/348 (88%), Gaps = 6/348 (2%)
Strand=Plus/Plus
Query 1 ATGAGTACTATGAAATTTTGCCGTGAATGTAACAACATTCTGTATCCTAAGGAGGACAAG 60
|||||||||||||||||||| || |||||||| |||||||| ||||| ||||| ||||||
Sbjct 104 ATGAGTACTATGAAATTTTGTCGCGAATGTAATAACATTCTATATCCCAAGGAAGACAAG 163
Query 61 GAGC-AGAAGATCCTCCTCTACGCTTGCCGTAATTGTGATCACCAGGAAGTAGCTGATAA 119
|||| | | ||||||||||| || ||||||||||||||||||||||||| ||| |||||
Sbjct 164 GAGCAATCA-ATCCTCCTCTATGCGTGCCGTAATTGTGATCACCAGGAAGCAGCAGATAA 222
Query 120 CAGCTGTGTGTACAGAAACGAGGTTCATCACTCTGTAAGTGAGCGAACTCAAATCCTATC 179
|| ||||| |||||||||||||||||||||||||||||||| | |||||| ||||||||
Sbjct 223 CAATTGTGTTTACAGAAACGAGGTTCATCACTCTGTAAGTGAACAAACTCAGATCCTATC 282
Query 180 TGACGTCGCTTCTGACCCAACTCTTCCCCGAACCAAGGCTGTGCGTTGCGCTAAGTGTCA 239
|||||| ||||| |||||||||||||| || |||||||||||||| ||||| ||||||||
Sbjct 283 TGACGTTGCTTCCGACCCAACTCTTCCACGTACCAAGGCTGTGCGATGCGCCAAGTGTCA 342
Query 240 GCATAGCGAGGCCGTCTTCTTCCAGGCTACGGCTAGAGGCGAAGAAGGAATGACACTGTT 299
|| | || || |||||||||||||| |||||||||||||||||||||||||| |||||
Sbjct 343 ACACGGTGAAGCTGTCTTCTTCCAGGCCACGGCTAGAGGCGAAGAAGGAATGACTCTGTT 402
Query 300 CTTT-GTCTGCTGCAACCCGAA-TAGTGGTCATCGCTGGAGAGAATAG 345
||| || |||||||||||||| | || |||| || ||||||||||||
Sbjct 403 -TTTCGTTTGCTGCAACCCGAACT-GTAGTCACCGTTGGAGAGAATAG 448
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 16135947429
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