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= Ahg492273
Length=3479
Score E
Sequences producing significant alignments: (Bits) Value
AT4G25540.1 | Symbols: MSH3, ATMSH3 | homolog of DNA mismatch r... 5192 0.0
> AT4G25540.1 | Symbols: MSH3, ATMSH3 | homolog of DNA mismatch
repair protein MSH3 | chr4:13042557-13048213 REVERSE LENGTH=3487
Length=3487
Score = 5192 bits (2811), Expect = 0.0
Identities = 3280/3501 (94%), Gaps = 54/3501 (2%)
Strand=Plus/Plus
Query 1 CTAAGAAAGCGCGCGAAAATTGGCAACCCAAGTTCGCCATAGCCACGACCACGACCTTCC 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1 CTAAGAAAGCGCGCGAAAATTGGCAACCCAAGTTCGCCATAGCCACGACCACGACCTTCC 60
Query 61 ATTTCTCTTAAACGGAGGAGAGAATACGAAGAGAGCAATTATGGGCAAGCAAAAGCAGCA 120
|||||||||||||||| | |||| |||||| | |||||||||||||||||||||||||||
Sbjct 61 ATTTCTCTTAAACGGA-G-GAGATTACGAATAAAGCAATTATGGGCAAGCAAAAGCAGCA 118
Query 121 GACGATTTCTCGATTCTTCGCTCCCAAACCCAAATCCCCGACTCAGGAACCCAATCTTGT 180
|||||||||||| |||||||||||||||||||||||||||||||| ||||| |||| ||
Sbjct 119 GACGATTTCTCGTTTCTTCGCTCCCAAACCCAAATCCCCGACTCACGAACCGAATCCGGT 178
Query 181 ACCCGAATCGTCAACACCGCCACCGAAGATATCCGCCACTGTCTCCTTCTCTCCGTCTAA 240
| ||||||| |||||||||||||||||||||||||||||||| ||||||||||| || ||
Sbjct 179 AGCCGAATCATCAACACCGCCACCGAAGATATCCGCCACTGTATCCTTCTCTCCTTCCAA 238
Query 241 GCGTAAGCTTCTCTCCGACCACCTCGCCGCCGCTTCACCCAAAAAGCCTAAACTTTCTCC 300
||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 239 GCGTAAGCTTCTCTCCGACCACCTCGCCGCCGCGTCACCCAAAAAGCCTAAACTTTCTCC 298
Query 301 TCACACTCAAAACCCCA-TACCCGATCCCAATTTACACCAAAGGTTTCTCCAGAGATTTC 359
|||||||||||| |||| ||||||||||||||||||||||||| ||||||||||||||||
Sbjct 299 TCACACTCAAAA-CCCAGTACCCGATCCCAATTTACACCAAAGATTTCTCCAGAGATTTC 357
Query 360 TGGAACCCTCACCGGAGGAATCTGTTCCCGAAACATCATCATCATCCAGGAAGTACACGC 419
|||||||||| |||||||||| |||||||| || | | |||||||| ||||| ||||| |
Sbjct 358 TGGAACCCTCGCCGGAGGAATATGTTCCCG-AA-A-CGTCATCATCGAGGAAATACACAC 414
Query 420 CACTGGAACAGCAGGTGGTGGAGCTAAAGAGCAAGTACCCAGATGTGGTTTTGATGGTTG 479
|| |||||||||| |||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 415 CATTGGAACAGCAAGTGGTGGAGCTAAAGAGCAAGTACCCAGATGTGGTTTTGATGGTGG 474
Query 480 AAGTTGGTTACAGGTACAGATTCTTCGGAGAAGATGCGGAGATCGCAGCACGCGTCTTGG 539
|||||||||||||||||||||||||||||||||| |||||||||||||||||||| ||||
Sbjct 475 AAGTTGGTTACAGGTACAGATTCTTCGGAGAAGACGCGGAGATCGCAGCACGCGTGTTGG 534
Query 540 GTATATACGCTCATATGGATCACAGTTTCATGACGGCGAGTGTGCCAACATTTCGATTGA 599
|||| ||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct 535 GTATTTACGCTCATATGGATCACAATTTCATGACGGCGAGTGTGCCAACATTTCGATTGA 594
Query 600 ATTTCCATGTGAGGAGACTGGTGAATGCAGGGTACAAGATTGGTGTGGTGAAGCAGACCG 659
||||||||||||| ||||||||||||||||| |||||||||||||| ||||||||||| |
Sbjct 595 ATTTCCATGTGAGAAGACTGGTGAATGCAGGATACAAGATTGGTGTAGTGAAGCAGACTG 654
Query 660 AAACTGCAGCCATTAAGTCCCACGGTGCAAACCGGACCGGCCCTTTTTTCCGGGGACTAT 719
|||||||||||||||||||||| ||||||||||||||||||||||||||||||||||| |
Sbjct 655 AAACTGCAGCCATTAAGTCCCATGGTGCAAACCGGACCGGCCCTTTTTTCCGGGGACTGT 714
Query 720 CGGCTTTATATACCAAAGCCACGCTTGAAGCGGCTGAGGATATAAGTGGTGGTTGCGCTG 779
|||| || ||||||||||||||||||||||||||||||||||||||||||||||| | ||
Sbjct 715 CGGCGTTGTATACCAAAGCCACGCTTGAAGCGGCTGAGGATATAAGTGGTGGTTGTGGTG 774
Query 780 GTGAAGAAGGTTTTGGTGCACAGAGTAATTTCTTGGTTTGTGTTGTGGATGAGAGAGTTA 839
||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct 775 GTGAAGAAGGTTTTGGTTCACAGAGTAATTTCTTGGTTTGTGTTGTGGATGAGAGAGTTA 834
Query 840 ACACGGAG-----A--C--TGGTATTGAAATGAGTTTTGATGTTAGAGTCGGTGTTGTTG 890
| ||||| | | |||||||||||||||||||||||||||||||||||||||||
Sbjct 835 AGTCGGAGACATTAGGCTGTGGTATTGAAATGAGTTTTGATGTTAGAGTCGGTGTTGTTG 894
Query 891 GCGTTGAAATTTCAACCGGTGAAGTTGTTTATGGAGAGTTTAATGATAATTTCATGAGGA 950
||||||||||||| || |||||||||||||||| |||||| ||||||||||||||||| |
Sbjct 895 GCGTTGAAATTTCGACAGGTGAAGTTGTTTATGAAGAGTTCAATGATAATTTCATGAGAA 954
Query 951 GTGGGTTAGAGGCTGTGATTTTGAGCTTGTCACCAGCTGAGCTGTTGCTTGGCCAGCCTC 1010
|||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 955 GTGGATTAGAGGCTGTGATTTTGAGCTTGTCACCAGCTGAGCTGTTGCTTGGCCAGCCTC 1014
Query 1011 TTTCACAGA-AAACTGAGAAGTTTTTGTTGGCACATGCTGGACCGACCTCAAACATTCGA 1069
||||||| | ||||||||||||||||| |||||||||||||||| ||||||||| |||||
Sbjct 1015 TTTCACA-ACAAACTGAGAAGTTTTTGGTGGCACATGCTGGACCTACCTCAAACGTTCGA 1073
Query 1070 GTGGAACGTGCCTCACTGGATCGTTTCGGCAATGGTAATGCAGTAGATGAGGTTATTTCA 1129
||||||||||||||||||||| ||||| ||||||||||||||||||||||||||||||||
Sbjct 1074 GTGGAACGTGCCTCACTGGATTGTTTCAGCAATGGTAATGCAGTAGATGAGGTTATTTCA 1133
Query 1130 TTATGTGAAAAAATCAGTGCAAGCAACCTAGAAGATGATAAAGAAATCAAGGTGGAGGCT 1189
||||||||||||||||| ||| | ||| ||||||||||||||||||| ||| ||||||||
Sbjct 1134 TTATGTGAAAAAATCAGCGCAGGTAACTTAGAAGATGATAAAGAAATGAAGCTGGAGGCT 1193
Query 1190 GCTGAAGAAGGAATGTCTTGCTTGACAGTTCACACAATTATGAACATGCCGCATCTGACT 1249
|||||| ||||||||||||||||||||||||| ||||||||||||||||| |||||||||
Sbjct 1194 GCTGAAAAAGGAATGTCTTGCTTGACAGTTCATACAATTATGAACATGCCACATCTGACT 1253
Query 1250 GTTCAAGCCCTCGCCCTGATATTTTGCCATCTCAAACAGTTTGGATTTGAAAGGATCCTT 1309
||||||||||||||||| | |||||||||||||||||||||||||||||||||||||||
Sbjct 1254 GTTCAAGCCCTCGCCCTAACGTTTTGCCATCTCAAACAGTTTGGATTTGAAAGGATCCTT 1313
Query 1310 TACCAGGGGGCTTCATTTCGCTCTCTGTCAAGCAGCACAGAGATGACTCTCTCAGCCAAT 1369
||||| ||||| |||||||||||| ||||||| | |||||||||||||||||||||||||
Sbjct 1314 TACCAAGGGGCCTCATTTCGCTCTTTGTCAAGTAACACAGAGATGACTCTCTCAGCCAAT 1373
Query 1370 ACACTGCAACAGTTGGAGGTTGTGAGAAATAATTCAGATGGATCGGAATCTGGCTCCTTA 1429
|| |||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 1374 ACTCTGCAACAGTTGGAGGTTGTGAAAAATAATTCAGATGGATCGGAATCTGGCTCCTTA 1433
Query 1430 TTCCATAATATGAATCACACTCTTACAGTATATGGTTCCCGGCTCCTTAGACACTGGGTG 1489
|||||||||||||||||||| |||||||||||||||||| |||| |||||||||||||||
Sbjct 1434 TTCCATAATATGAATCACACACTTACAGTATATGGTTCCAGGCTTCTTAGACACTGGGTG 1493
Query 1490 ACTCATCCTCTTTGCAATAGAAATCTGATATCTGCTCGCCTTGATGCTGTTTCTGAGATT 1549
||||||||||| ||| |||||||| ||||||||||||| |||||||||||||||||||||
Sbjct 1494 ACTCATCCTCTATGCGATAGAAATTTGATATCTGCTCGGCTTGATGCTGTTTCTGAGATT 1553
Query 1550 GCTGCATGCATGGGATCTCACAGTTCATCCCAAAACAGTGA-TGAGTTGGTTGAAGACGG 1608
|||| |||||||||||||| ||||| ||||| ||| | ||||||||||||||| ||
Sbjct 1554 TCTGCTTGCATGGGATCTCATAGTTCTTCCCAGCTCAG-CAGTGAGTTGGTTGAAGAAGG 1612
Query 1609 TTCTGAGAGAACAATTGTTTCACCTGAGTTTTATCTCGTGCTCTCCTCAGTCTTGACAGC 1668
|||||||||| ||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct 1613 TTCTGAGAGAGCAATTGTATCACCTGAGTTTTATCTCGTGCTCTCCTCAGTCTTGACAGC 1672
Query 1669 TTTGTCTAGATCTTCGGATATTCAACGTGGAATAACAAGAATCTTTCATCGGACTGCTAA 1728
| |||||||||| || ||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1673 TATGTCTAGATCATCTGATATTCAACGTGGAATAACAAGAATCTTTCATCGGACTGCTAA 1732
Query 1729 AGCCACAGAGTTCATTGCAGTTATGGAAGCTATTTTACTTGCGGGGAAGCAATTTCAGCG 1788
|||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct 1733 AGCCACAGAGTTCATTGCAGTTATGGAAGCTATTTTACTTGCGGGGAAGCAAATTCAGCG 1792
Query 1789 GCTTGGTATAAAGCAAGACTGTGAAATGAGGAGTATGCAATCCGCAACTGTGC-AGTCTT 1847
|||||| ||||||||||||| ||||||||||||||||||||| |||||||||| | |||
Sbjct 1793 GCTTGGCATAAAGCAAGACTCTGAAATGAGGAGTATGCAATCTGCAACTGTGCGA-TCTA 1851
Query 1848 CTCTTTTGAAAAAATTGATATCTGTTGTTTCATCCCCTGCTGTGGTTGATAATGCCGCAA 1907
||||||||| ||||||||| |||||| |||||||||||| ||||||||| ||||||| ||
Sbjct 1852 CTCTTTTGAGAAAATTGATTTCTGTTATTTCATCCCCTGTTGTGGTTGACAATGCCGGAA 1911
Query 1908 AACTTCTCTCTGCCCTGAATAAGGAAGGGGCTGTTCGAGGAGATTTGCTCGACATACTAA 1967
|||||||||||||||| |||||||||| |||||||||||| || ||||||||||||||||
Sbjct 1912 AACTTCTCTCTGCCCTAAATAAGGAAGCGGCTGTTCGAGGTGACTTGCTCGACATACTAA 1971
Query 1968 TCACTTCCAGCGACCAATTTCCTGAGCTTGCTGAAGCTCGCCAAGCAGTTTTAGTCATCA 2027
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1972 TCACTTCCAGCGACCAATTTCCTGAGCTTGCTGAAGCTCGCCAAGCAGTTTTAGTCATCA 2031
Query 2028 AGGAAAAGCTGGATTCCTTGATATCTTCATTTCGCAAGAAGCTCGCAATTCGAAATTTGG 2087
||||||||||||||||| |||| |||||||||||||||||||||| |||||||||||||
Sbjct 2032 GGGAAAAGCTGGATTCCTCGATAGCTTCATTTCGCAAGAAGCTCGCTATTCGAAATTTGG 2091
Query 2088 AATTTCTTCAAGTGTCGGGGATCACGCATTTGATAGAGCTGCCCGTGGATGTC-AAGGTC 2146
||||||||||||||||||||||||| |||||||||||||||||||| ||| || ||||||
Sbjct 2092 AATTTCTTCAAGTGTCGGGGATCACACATTTGATAGAGCTGCCCGTTGAT-TCCAAGGTC 2150
Query 2147 CCTATGAATTGGGTGAAAGTGAATAGCACCAAAAAGACTATTCGATATCATCCCCCAGAA 2206
|||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||
Sbjct 2151 CCTATGAATTGGGTGAAAGTAAATAGCACCAAGAAGACTATTCGATATCATCCCCCAGAA 2210
Query 2207 ATAGTAGCTGGGTTGGATGAGCTAGCTCTAGCAACTGAACATCTTGCCATTGTGAACCGA 2266
||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2211 ATAGTAGCTGGCTTGGATGAGCTAGCTCTAGCAACTGAACATCTTGCCATTGTGAACCGA 2270
Query 2267 GCTTCGTGGGATAGTTTTCTCGAGAGTTTTAGTAGATACTATACAGATTTTCAGGCTGCC 2326
||||||||||||||||| ||| ||||||| ||||||||||| ||||||||| ||||||||
Sbjct 2271 GCTTCGTGGGATAGTTTCCTCAAGAGTTTCAGTAGATACTACACAGATTTTAAGGCTGCC 2330
Query 2327 GTTCAAGCTCTTGCTGCGCTGGACTGTTTACACTCCCTTGCAACTCTATCTAGAAACAAG 2386
||||||||||||||||| ||||||||||| ||||||||| ||||||||||||||||||||
Sbjct 2331 GTTCAAGCTCTTGCTGCACTGGACTGTTTGCACTCCCTTTCAACTCTATCTAGAAACAAG 2390
Query 2387 AAGTATGTATGTCCCGTGTTTGTGGATGACTGTGAACCAGTTGAGATAAACATACAGTCT 2446
|| ||||| |||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct 2391 AACTATGTCCGTCCCGAGTTTGTGGATGACTGTGAACCAGTTGAGATAAACATACAGTCT 2450
Query 2447 GGTCGTCATCCTGTATTGGAGACTTTATTACAAGATAACTTCGTCCCAAACGACACAAGT 2506
||||||||||||||| |||||||| ||||||||||||||||||||||||| ||||||| |
Sbjct 2451 GGTCGTCATCCTGTACTGGAGACTATATTACAAGATAACTTCGTCCCAAATGACACAATT 2510
Query 2507 TTGCATGCAAAAGGGGAATATTGCCAAATTATCACCGGACCTAACATGGGAGGAAAGAGC 2566
||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2511 TTGCATGCAGAAGGGGAATATTGCCAAATTATCACCGGACCTAACATGGGAGGAAAGAGC 2570
Query 2567 TGTTATATCCGTCAAGTTGCTTTAATTTCTATAATGGCTCAGGTTGGTTCCTTTGTACCA 2626
|| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 2571 TGCTATATCCGTCAAGTTGCTTTAATTTCCATAATGGCTCAGGTTGGTTCCTTTGTACCA 2630
Query 2627 GCTTCATCCGTTAAGCTGCACGTGCTTGATGGTGTTTTCACTCGGATGGGTGCTTCAGAC 2686
|| |||| || ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2631 GCGTCATTCGCCAAGCTGCACGTGCTTGATGGTGTTTTCACTCGGATGGGTGCTTCAGAC 2690
Query 2687 AGTATCCAGCATGGCCGAAGTACCTTTCTAGAAGAATTAAGTGAAGCGTCACACATAATC 2746
||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2691 AGTATCCAGCATGGCAGAAGTACCTTTCTAGAAGAATTAAGTGAAGCGTCACACATAATC 2750
Query 2747 AGAACCTGCTCTTCTCGTTCGCTAGTTATATTAGATGAACTTGGAAGAGGCACTAGCACA 2806
|||||||| |||||||||||||| |||||||||||||| |||||||||||||||||||||
Sbjct 2751 AGAACCTGTTCTTCTCGTTCGCTTGTTATATTAGATGAGCTTGGAAGAGGCACTAGCACA 2810
Query 2807 CACGACGGTGTAGCCATTGCCTATGCAACATTACAACATCTCCTATTAGAAAAGAGATGT 2866
||||||||||||||||||||||||||||||||||| ||||||||| |||||||||||||
Sbjct 2811 CACGACGGTGTAGCCATTGCCTATGCAACATTACAGCATCTCCTAGCAGAAAAGAGATGT 2870
Query 2867 TTGGTTCTTTTTGTCACGCATTACCCTGAAATAGCTGAGATCAGTAACGGATTCCGAGGT 2926
||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct 2871 TTGGTTCTTTTTGTCACGCATTACCCTGAAATAGCTGAGATCAGTAACGGATTCCCAGGT 2930
Query 2927 GCTGTTGGGACATACCATGTCTCGTATCTGACATCGCAGAAGAAGAAAAGCGGATT-TGA 2985
||||||||||||||||||||||||||||||||| ||||||| | ||| || | || |||
Sbjct 2931 TCTGTTGGGACATACCATGTCTCGTATCTGACATTGCAGAAGGATAAAGGCAG-TTATGA 2989
Query 2986 TCATGATGATGTGACCTACCTATATAAACTTGTGCGTGGTCTTTGCAGCAGGAGCTTTGG 3045
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 2990 TCATGATGATGTGACCTACCTATATAAGCTTGTGCGTGGTCTTTGCAGCAGGAGCTTTGG 3049
Query 3046 TTTTAAGGTTGCTCAGCTTGCCCAGATACCTCCATCATGTATACGTCGAGCCATTTCAAT 3105
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3050 TTTTAAGGTTGCTCAGCTTGCCCAGATACCTCCATCATGTATACGTCGAGCCATTTCAAT 3109
Query 3106 GGGTGCAAAATTGGAAGCTGAGGTAGGTGCAAGAGAGAGAAATACACGCATGGGAGAAGC 3165
|| |||||||||||||||||||||| |||||||||||||||||||||||||||||||| |
Sbjct 3110 GGCTGCAAAATTGGAAGCTGAGGTACGTGCAAGAGAGAGAAATACACGCATGGGAGAACC 3169
Query 3166 AGAAGGACATGAAGAACATGGTGCCCCTGGAGATTGGACAGGCGCAGAAGAATCAATTTC 3225
||||||||||||||||| | | ||| || | | | ||||||||| |||||
Sbjct 3170 AGAAGGACATGAAGAAC------C----G-AGA--GG-C-G-C--AGAAGAATCTATTTC 3211
Query 3226 GGCTCTAGGTGACTTGTTTGCTGACCTGAAATTTGCCCTCTCTGAAGAGGACCCTTGGAA 3285
||||||||||||||||||||| |||||||||||||| |||||||||||||||||||||||
Sbjct 3212 GGCTCTAGGTGACTTGTTTGCAGACCTGAAATTTGCTCTCTCTGAAGAGGACCCTTGGAA 3271
Query 3286 AGCATTCGAGTTTTTAAATCATGCTTGGAAGATTGC-GGCAAAATCAAACTAAAACCAAC 3344
|||||||||||||||||| ||||||||||||||||| |||||||||| ||||||||||||
Sbjct 3272 AGCATTCGAGTTTTTAAAGCATGCTTGGAAGATTGCTGGCAAAATCAGACTAAAACCAAC 3331
Query 3345 TTGATCATTTTGATTTAATCTTAACATTATAGCAACTGCAAGGTTTTGA--A---GTTAG 3399
||| |||||||||||||||||||||||||||||||||||||||| |||| | |||||
Sbjct 3332 TTGTTCATTTTGATTTAATCTTAACATTATAGCAACTGCAAGGTCTTGATCATCTGTTAG 3391
Query 3400 TTGCGTAGC-AACTTATGTGTGTATTAGTATAACAAGAAAACAGAATTAGAGAGACGGAT 3458
||||||| | ||||||||||| |||||||||||||||||| ||||||||||||| ||||
Sbjct 3392 TTGCGTA-CTAACTTATGTGT--ATTAGTATAACAAGAAAAGAGAATTAGAGAGATGGAT 3448
Query 3459 TCTAATCCGGTGTTGTAGTAC 3479
||||||||||||||| |||||
Sbjct 3449 TCTAATCCGGTGTTGCAGTAC 3469
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 173176287236
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