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= Ahg475268
Length=1423
Score E
Sequences producing significant alignments: (Bits) Value
AT1G60620.1 | Symbols: ATRPAC43, RPAC43 | RNA polymerase I subu... 2085 0.0
AT1G60850.2 | Symbols: ATRPAC42, AAC42 | DNA-directed RNA polym... 976 0.0
> AT1G60620.1 | Symbols: ATRPAC43, RPAC43 | RNA polymerase I subunit
43 | chr1:22331106-22333524 FORWARD LENGTH=1431
Length=1431
Score = 2085 bits (1129), Expect = 0.0
Identities = 1337/1434 (93%), Gaps = 28/1434 (2%)
Strand=Plus/Plus
Query 1 AAGAACGAAATTGAAGTG-AAAGTGAAATCGTGCAA--TTCATCTTCCTCTTCTCTTATA 57
|||||||||||||||||| ||||||||||||||||| ||||||||||||||||| | ||
Sbjct 15 AAGAACGAAATTGAAGTGAAAAGTGAAATCGTGCAATTTTCATCTTCCTCTTCTCCT-TA 73
Query 58 AACCCTAATTTCGAATTCTCAGAATCGAACTTGGCTTCAGAGAAGAATGGAGACTAAAGA 117
|||||| |||||| ||||||| |||||||||||||| |||||||| |||| |||||| ||
Sbjct 74 AACCCTGATTTCGGATTCTCACAATCGAACTTGGCTGCAGAGAAGGATGGGGACTAACGA 133
Query 118 AGTAACAAGAATCGTGACTGATGAAGAAAAGCA-ATTCGCCAAGAATTTCAACATATTTG 176
||||||||| || |||||||||||||||||| | | || ||||| |||||||||||||
Sbjct 134 AGTAACAAGGATTGTGACTGATGAAGAAAAG-AGAGAAGCGAAGAACTTCAACATATTTG 192
Query 177 ATCTCCCTGACGTCCCTACCGGACTTCCTCCGCATCTTGAGCTCCAGCGAACTCGCGCTG 236
||||||||||||| ||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 193 ATCTCCCTGACGTTCCTACCGGACTTCCTCCGCATCTTGAGCTCCAGCGAACTCGCGTTG 252
Query 237 TCTGTAAGAATGATGCTCCTATTCATCCTACGAG-TGTC-CTTTACTCGGGTGCCTATGC 294
|||||||||| ||| || ||||||||||||| | | || |||| ||||||||||||| |
Sbjct 253 TCTGTAAGAAGGATTCTAATATTCATCCTACG-GCTATCACTTT-CTCGGGTGCCTATTC 310
Query 295 CTCTATGGGAGTGGACAACAGTGTAAGACTAGAAAACTTCTCTGAGGATTTCAAAGTTGA 354
|||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct 311 CTCTATGGGAGTGGACAACAGTGTGAGACTAGAAAACTTCTCTGAGGATTTCAAAGTTGA 370
Query 355 TGTGACTAGTCTCACAGAGACAGATATGGTTTTCGATATGATTAGTGTCCCTGCAGGAAT 414
||||| |||||||||||||||||||||||| ||||||||||| |||||| |||||||||
Sbjct 371 TGTGATTAGTCTCACAGAGACAGATATGGTATTCGATATGATCGGTGTCCATGCAGGAAT 430
Query 415 CGCTAATGCTTTCCGAAGAATCCTCCTAGCTGAGCTTCCTTCAATGGCTATTGAAAAAGT 474
||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 431 CGCTAATGCTTTCCGAAGAATCCTCTTAGCTGAGCTTCCTTCAATGGCTATTGAAAAAGT 490
Query 475 GTTTGTAGCAAACAACACGTCGGTTATACAAGACGAAGTTCTTGCTCACAGGTTGGGTCT 534
|| ||||||||||||||| |||||||| ||||||||||||||||||||||||||||||||
Sbjct 491 GTATGTAGCAAACAACACATCGGTTATTCAAGACGAAGTTCTTGCTCACAGGTTGGGTCT 550
Query 535 TATTCCAATTGCCGCAGATCCGAGCCTTTTTGAATATTTATCCGAAAACGATCAGCCAAA 594
|||||||||||||||||||||||| || |||||||||||||| |||||||||||||||||
Sbjct 551 TATTCCAATTGCCGCAGATCCGAGACTCTTTGAATATTTATCTGAAAACGATCAGCCAAA 610
Query 595 TGAAAAGAACACCATTGTTTTCAAACTCCATGTAAAATGTCCAAAAGGTGACCCGCGTCG 654
||||||||||||||||||||||||||||||||| ||||||| ||||||||||||||||||
Sbjct 611 TGAAAAGAACACCATTGTTTTCAAACTCCATGTGAAATGTCTAAAAGGTGACCCGCGTCG 670
Query 655 TAAAGTCTTAACAAGCGAATTGAGATGGTTACCAAATGGAAGTGAGCTTCTCAAAGAATC 714
||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||||||
Sbjct 671 TAAAGTCTTAACAAGCGAATTGAAATGGTTACCAAATGGAAGTGAGCTTATCAAAGAATC 730
Query 715 TGGAGGTTCAACCACAAAGCCAAAAACTTACACTTCATTCAGCCATAGCCAAGATTCCTT 774
||||||||||||||||| ||||||||||||||||||||||| ||||||||||||||||||
Sbjct 731 TGGAGGTTCAACCACAACGCCAAAAACTTACACTTCATTCAACCATAGCCAAGATTCCTT 790
Query 775 CCCTGAATTTGCTAAAAATCCTATCACGCCAAGCTTTCAAGATATCTTGATAGCAAAACT 834
||||||||||||| |||||||||||| ||||| ||| ||||||||||||||||||||||
Sbjct 791 CCCTGAATTTGCTGAAAATCCTATCAGGCCAACCTTAAAAGATATCTTGATAGCAAAACT 850
Query 835 CGGCCCTGGTCAGGAAATCGAGCTTGAAGCTCATGCGGTTAAGGGCATTGGTAAAACACA 894
|||||||| ||||||||||||||||| |||||||| |||||||||||||||||||||||
Sbjct 851 TGGCCCTGGCCAGGAAATCGAGCTTGAGGCTCATGCCGTTAAGGGCATTGGTAAAACACA 910
Query 895 TGCAAAGTGGTCCCCAGTTGCAACGGCTTGGTACCGAATGCTTCCTGAGGTGATTCTACT 954
|||||||||||||||||| |||||||||||||| |||||||||||||||||| |||||||
Sbjct 911 TGCAAAGTGGTCCCCAGTAGCAACGGCTTGGTATCGAATGCTTCCTGAGGTGGTTCTACT 970
Query 955 AAAGGAATTCGAGGGTAAACATGCCGAAGAACTCGTAAAAGTATGCCCCAAGAAAGTTTT 1014
|||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct 971 AAAGGAATTCGAGGGTAAACATGCCGAAGAACTCGTAAAAGTCTGCCCCAAGAAAGTTTT 1030
Query 1015 TGACATTGAAGACATGGGCCAAGGTAGGAAGAGGGCAACGGTAGCTCGGCCGCGTGATTG 1074
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 1031 TGACATTGAAGACATGGGCCAAGGTAGGAAGAGGGCAACAGTAGCTCGGCCGCGTGATTG 1090
Query 1075 TTCGTTGTGTAGAGAATGCATAAGAGAAGGAGTGGAATGGGCGAAACAAGTGGATCTGCG 1134
||||||||||||||||||||||||||| ||||||||||||| | | ||||||||||||||
Sbjct 1091 TTCGTTGTGTAGAGAATGCATAAGAGATGGAGTGGAATGGGAGGACCAAGTGGATCTGCG 1150
Query 1135 CCGTGTCAAGAACCATTATATATTTACGATTGAGTCCACCGGATCACAGCCTCCGGACGT 1194
||||||||||||||||| ||||||||| ||||||||||| ||||||||||||||||| ||
Sbjct 1151 CCGTGTCAAGAACCATTTTATATTTACAATTGAGTCCACGGGATCACAGCCTCCGGAGGT 1210
Query 1195 TCTTTTCAACGAAGCAGTGAAGATTTTAGAAGATAAATGTGAAAGAGTAATCTCTGAACT 1254
|||||||||||||||||||||||| || ||||||||||||||||||||||||||||||||
Sbjct 1211 TCTTTTCAACGAAGCAGTGAAGATATTGGAAGATAAATGTGAAAGAGTAATCTCTGAACT 1270
Query 1255 CTCCTGAAAAGAGATTTAATTGGTTTAGCTCTACCTGCTTGGTTCCGGTTTAGTTCAGTT 1314
|||||||||||||||| |||||||||||||||||| ||||||||||||||||||||||||
Sbjct 1271 CTCCTGAAAAGAGATTAAATTGGTTTAGCTCTACCGGCTTGGTTCCGGTTTAGTTCAGTT 1330
Query 1315 TTTGGGTTTTGTATCGAAGTCAATAATACAAAGAACATTGAAATTTATA----CTTAGTT 1370
|| ||||||||||||||||| |||||||||||||||||||||||||| ||| |||
Sbjct 1331 TT-GGGTTTTGTATCGAAGT---TAATACAAAGAACATTGAAATTTATATATACTTGGTT 1386
Query 1371 TTCGGCTCGGTTCAAATT-AGAATTTAAAATATCTCATGTGAACGTTGAAGAGT 1423
| |||||||||||||||| ||||| | || | ||||||||||||||||||
Sbjct 1387 T-CGGCTCGGTTCAAATTTAGAAT--A---TA-C--ATGTGAACGTTGAAGAGT 1431
> AT1G60850.2 | Symbols: ATRPAC42, AAC42 | DNA-directed RNA polymerase
family protein | chr1:22397916-22400362 REVERSE LENGTH=1380
Length=1380
Score = 976 bits (528), Expect = 0.0
Identities = 943/1139 (83%), Gaps = 46/1139 (4%)
Strand=Plus/Plus
Query 122 ACAAGAATCGTGACTGATGAAGAAAAGCAATTCGCCAAGAATTTCAACATATTTGATCTC 181
||||| || |||||| | | |||||| ||||||||||| |||||||||||| ||||||
Sbjct 85 ACAAGGATGGTGACTAAAGCAGAAAAACAATTCGCCAAAAATTTCAACATAGACGATCTC 144
Query 182 CCTGACGTCCCTACCGGACTTCCTCCGCATCT-TGAGCTCCAGCGAACTCGCGCT-GTCT 239
|||||||||||| ||||||||||||| ||||| ||| ||||| |||||| | | ||||
Sbjct 145 CCTGACGTCCCTGCCGGACTTCCTCCACATCTCAAAGC-CCAGCAAACTCGTG-TCGTCT 202
Query 240 GTAAGAATGATGCTCCTATTCATCCTACGAGTGTCC-TTTACTCGGGTGCCTATG---CC 295
||| || | |||||| |||| || |||||| || ||||||||||| |||||| |
Sbjct 203 CTAAAAACAACGCTCCTGCTCATACTGCGAGTG-CCATTTACTCGGGTACCTATGTTTCT 261
Query 296 TCTATGGGAGTGGACAACAGTGT-AAGACTAGAAAACTTCTCTGAGGATTTCAAAGTTGA 354
|||| || || |||| ||| ||| ||| |||| |||||||| ||| | |||||||||||
Sbjct 262 TCTACGGAAGAGGACGACAATGTGAAG-CTAGGAAACTTCTATGATAACTTCAAAGTTGA 320
Query 355 TGTGACTAGTCTCACAGAGACAGATATGG-TTTTCGATATGATTAGTGTCCCTGCAG-GA 412
|||| |||||||||| |||||||||||| ||| ||||||||| || | ||||| |
Sbjct 321 TGTGGTTAGTCTCACAAAGACAGATATGGAATTT-GATATGATTGGTATTGATGCAGCG- 378
Query 413 ATCGCTAATGCTTTCCGAAGAATCCTCCTAGCTGAGCTTCCTTCAATGGCTATTGAAAAA 472
| || ||||| |||||||| ||||| |||||||| |||||||||||||||||||||||
Sbjct 379 TTTGCCAATGCATTCCGAAGGATCCTTATAGCTGAGGTTCCTTCAATGGCTATTGAAAAA 438
Query 473 GTGTTTG-TAGCAAACAACACGTCGGTTA-TACAAGACGAAGTTCTTGCTCACAGGTTGG 530
||| ||| |||| ||||||| ||||||| || |||||||||||||||||||||| |||
Sbjct 439 GTG-TTGATAGCGTACAACACATCGGTTATTA-TAGACGAAGTTCTTGCTCACAGGATGG 496
Query 531 GTCTTATTCCAATTGCCGCAGATCCGAGCCTTTTTGAATATTTATCCGAAAACGATCAGC 590
||||||||||||||||||||||||| || ||||||||||||||||||||| | ||||||
Sbjct 497 GTCTTATTCCAATTGCCGCAGATCCAAGACTTTTTGAATATTTATCCGAACATGATCAGG 556
Query 591 CAAATGAAAAGAACACCATTGTTTTCAAACTCCATGTAAAATGTCC-AAAAGGT-GACCC 648
| |||||||||||||||||||| |||||||||||||| |||||||| |||| | || ||
Sbjct 557 CGAATGAAAAGAACACCATTGTATTCAAACTCCATGTGAAATGTCCGAAAA-ATAGA-CC 614
Query 649 GCGTCGTAAAGTCTTAACAAGCGAATTGAGATGGTTACCAAATGGAAGTGAGCTTCTCAA 708
|||| |||||| ||||| || || || | ||||||||||||||||||||||||||| |
Sbjct 615 ACGTCTTAAAGTTTTAACGAGTGATTTAAAATGGTTACCAAATGGAAGTGAGCTTCTGAG 674
Query 709 AGAATCTGG-AGGTTCAACCACAAAGCCAAAAACTTACACTTCATTCAGCCATAGCCAAG 767
|||||| || | | |||| |||||||||||||||||||||||||||| |||||||
Sbjct 675 AGAATC-GGAAAATAAAACCTCAAAGCCAAAAACTTACACTTCATTCAGTTGCAGCCAAG 733
Query 768 ATTCCTTCCCTGAATTTGCTAAAAATCCTATCACGCCAAGCTTTCAAGATATCTTGATAG 827
|||| || |||||||||||||| ||||||||||| ||| || | |||||||||||||
Sbjct 734 ATTCATTACCTGAATTTGCTAATAATCCTATCACTCCATGCGACCTCGATATCTTGATAG 793
Query 828 CAAAACTCGGCCCTGGTCAGGAAATCGAGCTTGAAGCTCATGCGGTTAAGGGCATTGGTA 887
||||||||| ||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 794 CAAAACTCGCCCCTGGTCAGGAAATCGAGCTCGAAGCTCATGCGGTTAAGGGCATTGGTA 853
Query 888 AAACACATGCAAAGTGGTCCCCAGTTGCAACGGCTTGGTACCGAATGCTTCCTGAGGTGA 947
||||||||||||||||||| ||||| | || |||||||| |||||| ||||||||||
Sbjct 854 AAACACATGCAAAGTGGTCTCCAGTAGGGACTGCTTGGTATAGAATGCATCCTGAGGTGG 913
Query 948 TTCTAC-TAAAGGAA-TTCGAGGGTAAACATGCCGAA-GAACTCGTAAAAGTATGCCC-C 1003
|||||| | |||| || |||| | ||| ||| ||| || || ||||| || ||||| |
Sbjct 914 TTCTACGTGG-GGAAGTT-GAGGATGAACTTGCTGAACGA-CTTGTAAACGTCTGCCCAC 970
Query 1004 AAGAAAGTTTTTGACATTGAAGACATGGGCCAAGGTAGGAAGAGGGCAACGGTAGCTCGG 1063
| ||| ||||| ||||||||||||||||| |||||| ||| |||||||| ||||| | |
Sbjct 971 A-GAATGTTTTCGACATTGAAGACATGGGAAAAGGTAAGAAAAGGGCAACAGTAGCGCAG 1029
Query 1064 CCGCGTGATTGTTCGTTGTGTAGAG-AATGCATAAGAGAAGGAGTGGAATGGGCGAAACA 1122
|| ||| | || | ||||||| || ||||| ||||||| | | || | | || | ||
Sbjct 1030 CCACGTAAGTGCACATTGTGTA-AGGAATGCGTAAGAGACG-A-TG-ATTTGGT-AGACC 1084
Query 1123 A-GTGGATCT-GCGCCGTGTCAAGAACCATTATATATTTA-CGATTGAGTCCACCGGATC 1179
| |||||||| | || |||| |||||||||| |||||||| | |||||||||||||||||
Sbjct 1085 ATGTGGATCTTG-GCAGTGTTAAGAACCATTTTATATTTAAC-ATTGAGTCCACCGGATC 1142
Query 1180 ACAGCCTCCGGACGTTCTTTTCAAC-GAAGCAGTGAAGATTTTAGAAGATAAATGTGAA 1237
|| |||||| || ||||| |||| | ||||| |||||||| || |||| ||||||||||
Sbjct 1143 ACTGCCTCCAGAGGTTCTCTTCA-CTGAAGCTGTGAAGATATTGGAAGCTAAATGTGAA 1200
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 70130161365
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