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= Ahg492316
Length=1093
Score E
Sequences producing significant alignments: (Bits) Value
AT4G25180.1 | Symbols: | RNA polymerase III RPC4 | chr4:129115... 1378 0.0
> AT4G25180.1 | Symbols: | RNA polymerase III RPC4 | chr4:12911550-12914014
REVERSE LENGTH=1239
Length=1239
Score = 1378 bits (746), Expect = 0.0
Identities = 977/1085 (90%), Gaps = 30/1085 (3%)
Strand=Plus/Plus
Query 28 AAGTCGAAGCGGAGGTTCCAGCCAAGA-CCTCCGAAGCCTTCTCTCCG---GCCGATTGC 83
||||| |||||||||||||| |||| | ||||||| |||||||| ||| ||||| ||
Sbjct 126 AAGTCTAAGCGGAGGTTCCAACCAA-ATCCTCCGAGGCCTTCTCGCCGTCTTCCGATCGC 184
Query 84 TCCAACATCAAACACCGAAGCTGAGGCTGAGGAGGAAGAGAATAAAAAAGCAGCTCGACA 143
|||||| ||||||||||||||||| | ||||| |||||||||| ||||||| |||| ||
Sbjct 185 TCCAACCTCAAACACCGAAGCTGA-G--GAGGATGAAGAGAATATAAAAGCATCTCGCCA 241
Query 144 ATTAGCCAAACGTATCGGCACTGGCCAGAGGAGACCCAAAACCGAAACGAAAGCTTCTTC 203
||| | || ||||||| | | || | ||||||||||||||||||||||||||||||||
Sbjct 242 ATTTGACAGACGTATC-G-TC-GG-C--AGGAGACCCAAAACCGAAACGAAAGCTTCTTC 295
Query 204 TCCTGAAGTTGCATTCCAACCAAGCTTGTCGTCACTTGCAATAAGGTCGTTTAGTGTTCC 263
|||||||||||||||||||||||||||||| |||||||||||||||| ||| |||||||
Sbjct 296 TCCTGAAGTTGCATTCCAACCAAGCTTGTCACCACTTGCAATAAGGTCCTTTGGTGTTCC 355
Query 264 TAAAGAAGATGACAAGCCTAGTTCTGATG-TATATCCCTCTTCTTCTGCTGGTATTCTTC 322
|||||||||||||||||| | |||||||| || |||| |||||| ||||| |||||||||
Sbjct 356 TAAAGAAGATGACAAGCCCAATTCTGATGTTA-ATCCGTCTTCTCCTGCTAGTATTCTTC 414
Query 323 ATCCTGTTTCGTCTATTACT--T-CCCAAGAAGATGAAGAGGAGGTTCATAATTTGGTTA 379
| ||||||||||| ||||| | |||||||||||| ||| |||||||||||||| ||||
Sbjct 415 CTGCTGTTTCGTCTGTTACTGCTGCCCAAGAAGATGGAGAAGAGGTTCATAATTTTGTTA 474
Query 380 CAAGACCTGGTGAAGACTACGTTGAACCTTGGGATTATAGAAACTCATACTATCCTACCG 439
||||| |||| || |||||||||||||||||||||||||||||||| ||||||||||| |
Sbjct 475 CAAGAACTGGGGATGACTACGTTGAACCTTGGGATTATAGAAACTCCTACTATCCTACTG 534
Query 440 TTCTTCCTTTGAGAAAGCCTAACTCTGGTGACCCAGAACTTCTTGACCAGGAGGAATTTG 499
||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 535 TTCTTCCTTTGAGAAAGCCTAACTCTGGTGATATAGAACTTCTTGACCAGGAGGAATTTG 594
Query 500 GGGAAGTGGCTAAACACCGTGATTATGAGGAGAACACCATCAACTCAGCAGAAGAACTCG 559
|||| ||||||||| ||||||||||||| ||||||||||||||||| |||||||||||||
Sbjct 595 GGGAGGTGGCTAAAAACCGTGATTATGATGAGAACACCATCAACTCCGCAGAAGAACTCG 654
Query 560 GTCTGACATCGGTGCAACACTGCAAAAAACAGATGTTTTTCTTTAAGATCCCGGACTGTC 619
|||||||||||||||||||| ||||||||||||||||| ||||||||||||| |||||||
Sbjct 655 GTCTGACATCGGTGCAACACAGCAAAAAACAGATGTTTATCTTTAAGATCCCAGACTGTC 714
Query 620 TCCCTGTAATGAAGCAATCGACAGGAGCAACCACCAAGAGATCAGTACGGGAGTATAGTT 679
|||||||| |||||||| ||||||||||||||||||||||||| ||||||||||||||||
Sbjct 715 TCCCTGTAGTGAAGCAAACGACAGGAGCAACCACCAAGAGATCGGTACGGGAGTATAGTT 774
Query 680 CAGGGAGAAGCAACCCTTTTGAAGGTTTACCAGAGGGATTCATGGGCAAAATGCTGGTTT 739
|||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 775 CAGGGATAAGCAACCCTTTTGAAGGTTTACCAGAGGGATTCATGGGCAAAATGCTGGTTT 834
Query 740 ACAAGAGCGGTGCTGTCAAGTTGAAACTTGGAGATGTCCTCTTTGATGTTTTACCAGGTC 799
|||||||||||||||||||||||||| ||||||||| |||||||||||| | |||||||
Sbjct 835 ACAAGAGCGGTGCTGTCAAGTTGAAAGTTGGAGATGCCCTCTTTGATGTCTCGCCAGGTC 894
Query 800 CAAATGCAAAATTCCATAATGACGTGGCAGCAATCGACACCAAAGGGAGGAACTGCTGTC 859
|| | ||||| ||| |||||| |||| |||||| |||| |||||||||||||||| |||
Sbjct 895 CAGGTACAAAAATCCCTAATGATGTGGTAGCAATAGACATCAAAGGGAGGAACTGCAGTC 954
Query 860 GCATTGGTTCTTCAGCCAAGTTTGTGACTGTTACTCCCGATGTTGAGGCTCTTTTGAACT 919
|||||||||||||||| |||||||| ||||||||||||||||||||| |||||||||||
Sbjct 955 GCATTGGTTCTTCAGCGAAGTTTGTTACTGTTACTCCCGATGTTGAGTCTCTTTTGAACC 1014
Query 920 CTGCTTCAGACATGGAAACACACAAGTGAAGGTTGTTCTGGATATAGCCGGTCTTGTTCA 979
|||||||||||||||||||||| |||||||||||| |||||| |||||||||| ||||||
Sbjct 1015 CTGCTTCAGACATGGAAACACAGAAGTGAAGGTTGCTCTGGAAATAGCCGGTCCTGTTCA 1074
Query 980 TACAAGGATGTGAAAA-GCGTAGTATTGACCACTTAGATTCTGTAACTACAACCTAATCT 1038
|||||||||||||||| |||||||||||||||||||||||||||| |||||| |||||||
Sbjct 1075 TACAAGGATGTGAAAAAGCGTAGTATTGACCACTTAGATTCTGTATCTACAAACTAATCT 1134
Query 1039 TCAGCCATGATCGTAAAAA--CTCTTCTTG--T--T-G-T--CTTCTTCTGTAGTAAGAG 1088
||| | ||||||||||||| ||||||||| | | | | |||||| |||| ||||||
Sbjct 1135 TCAACTATGATCGTAAAAAAACTCTTCTTGCCTCCTTGGTGTCTTCTTTTGTAATAAGAG 1194
Query 1089 ATTCA 1093
|||||
Sbjct 1195 ATTCA 1199
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 53563981515
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