Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020830.1 Corchorus olitorius cultivar O-4 contig20863, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4792
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Found at i:1274 original size:23 final size:21
Alignment explanation
Indices: 1230--1271 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1220 GTTCGATTAG
1230 TATATAATTTGTAACCAAAAA
1 TATATAATTTGTAACCAAAAA
1251 TATATAATTTGTAACCAAAAA
1 TATATAATTTGTAACCAAAAA
1272 AATTGAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
TATATAATTTGTAACCAAAAA
Found at i:1384 original size:180 final size:179
Alignment explanation
Indices: 1067--1399 Score: 451
Period size: 180 Copynumber: 1.9 Consensus size: 179
1057 AATACTCAGA
* * *
1067 AAAAATATATAATTTGATGCCAAAAAAATTGAAGCACTTTTCACGCTTCTAATATTGTTTTTCCA
1 AAAAATATATAATTTGATACCAAAAAAATTGAAGCACTTTTCACGCTTCTAATATCGTTTTACCA
* *
1132 TATTTTTCGAATTTTTTTCTAATTATAACTTAACAAGATTCAGATGCTCGTAAAAACAAATCCGT
66 TATTTTTCGAATTTATATCTAATTATAACTTAACAAGATTCAGATGCTCGTAAAAACAAATCCGT
*
1197 AAATCCATTGTGGCTAAGATTTGGTTCGATTAGTATATAATTTGTAACC
131 AAATCCATTGTGCCTAAGATTTGGTTCGATTAGTATATAATTTGTAACC
*** *
1246 AAAAATATATAATTTG-TAACCAAAAAAATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTACC
1 AAAAATATATAATTTGAT-ACCAAAAAAATTGAAGCACTTTTCACGCTTCTAATATCGTTTTACC
* *
1310 A-ATTTTATCCTAATTTATATCTAATTAT-A-TTGAAACAAGATTTAGATGC-CTGTAAAAACAA
65 ATATTTT-T-CGAATTTATATCTAATTATAACTT--AACAAGATTCAGATGCTC-GTAAAAACAA
* *
1371 ATCCTTAAATCCATTGTGCCTGAGATTTG
125 ATCCGTAAATCCATTGTGCCTAAGATTTG
1400 TTTTGATGAA
Statistics
Matches: 134, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
178 8 0.06
179 59 0.44
180 67 0.50
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (179 bp):
AAAAATATATAATTTGATACCAAAAAAATTGAAGCACTTTTCACGCTTCTAATATCGTTTTACCA
TATTTTTCGAATTTATATCTAATTATAACTTAACAAGATTCAGATGCTCGTAAAAACAAATCCGT
AAATCCATTGTGCCTAAGATTTGGTTCGATTAGTATATAATTTGTAACC
Found at i:1690 original size:323 final size:322
Alignment explanation
Indices: 1246--3153 Score: 2716
Period size: 323 Copynumber: 5.9 Consensus size: 322
1236 ATTTGTAACC
* *
1246 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTACCA
1 AAAAATATATAATTTATAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACCA
* * * **
1311 ATTTTATCCTAATTTATATCTAATTATATTGAAACAAGATTTAGATGCCT-GTAAAAACAAATCC
66 TTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATCCAGATG-CTAGTAAAAACAAATCC
* * * * * * **
1375 TTAAATCCATTGTGCCTGAGATTTGTTTTGATGAATATGGATATTTCAGGGAGTGTTTATGCCAA
130 TTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAA
* ** * * *
1440 AAATTATG-AAAACCCAGTTGGGTCCCCGAAACGCGTTTTTAGCCTAAAACCGTGATGGTAAGTA
195 AAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTA
* *
1504 CACGATTTTCGGCTAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGA
260 CACGA-TTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
* *
1568 AAAAATATATAATTTATAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATAGTTTTACC
1 AAAAATATATAATTTATAACCAAAAAAATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTTACC
* *
1633 AATTTTTTCCTAATTTATATCTAATTATCTCGAAACTAA-ATCCAGATGCTAGTAAAAACAAATC
65 ATTTTTTTCCTAATTTATATCTAATTATATCGAAAC-AAGATCCAGATGCTAGTAAAAACAAATC
*
1697 CTTAAATTCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAA
129 CTTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAA
1762 AAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGT
194 AAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGT
*
1827 ACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTTCTAAATTTTTTGGCACAATACTCAGA
259 ACACGATTTCGGCTAAAAACTGACCCGAAAA-TTTTTTTCTAAATTTTTTGCCACAATACTCAGA
* * * *
1892 AAAAATATATAATTTGAT-GCCAAAAAAATTGAAGCGTTTTTCACGTTTCTAATATCGTTTTTCC
1 AAAAATATATAATTT-ATAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACC
* * *
1956 ATTTTTTTTCAAATTTATATCTAATTAT-TACGAAACAAGA-CTCAGATGCTCGTAAAAACAAAT
65 ATTTTTTTCCTAATTTATATCTAATTATAT-CGAAACAAGATC-CAGATGCTAGTAAAAACAAAT
* * * * * ** * * * **
2019 TCGTAAATCCATTGCGACTGAGATTGGGTTCGATTAATATAGATATTTCAAGGAGTCTTTCTGCC
128 CCTTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAA
* * * *
2084 AGAAATCATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAG-CAAAAACCGTGATGGTAAG
193 AAAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAG
*
2148 TACATGATTTCGGCTAAAAACTG-CCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAG
258 TACACGATTTCGGCTAAAAACTGACC-CGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAG
2212 A
322 A
* *
2213 AAAAATATATAATTTGTAACC-AAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTACC
1 AAAAATATATAATTTATAACCAAAAAAATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTTACC
*
2277 ATTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCTAGTAAAAACAAATCC
65 ATTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATCCAGATGCTAGTAAAAACAAATCC
2342 TTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAA
130 TTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAA
* *
2407 AAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGTCAAAAACCGTGATGTTAAGTA
195 AAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTA
* *
2472 CATGATTTCGTCTAAAAACTG-CCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
260 CACGATTTCGGCTAAAAACTGACC-CGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
* * * *
2535 AAAAATATATAATTTGATGACCAAAAAAATTGAAGAGTTTTTCACGTTTCTAATATCGTTTTTCC
1 AAAAATATATAATTT-ATAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACC
* * *
2600 ATTTTTTTTCAAATTTATATCTAATTAT-TACGAAACAAGA-CTCAGATGCTCGTAAAAACAAAT
65 ATTTTTTTCCTAATTTATATCTAATTATAT-CGAAACAAGATC-CAGATGCTAGTAAAAACAAAT
* * * ** * *
2663 TCGTAAATCCATTGTGACTGAGA-TTGGATTCGATTAATATAGATATTTCAAGGAGTCTTT-TAG
128 CCTTAAATCCATTGTGGCTGAGATTTGG-TTCGAAGAATATAGATATTTCAGGGAGTGTTTGT-G
** * * * * *
2726 CCAGAAATCATGGAAAACTCAGCCGGGGCCCCGAAATGCGTTTTTAG-CAAAAACCGTGATGGTA
191 AAAAAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTA
*
2790 AGTACACAATTTCGGCTAAAAACTGACCCGAAATTATTTTTTTCCTAAATTTTTTGCCA-AATAC
256 AGTACACGATTTCGGCTAAAAACTGACCCGAAA--ATTTTTTT-CTAAATTTTTTGCCACAATAC
2854 TCAGA
318 TCAGA
* *
2859 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATCGTTTTACCA
1 AAAAATATATAATTTATAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACCA
* * *
2924 TTTTTTTCCTAATTTATATCTAATTATATCAAAACAAGATTCAGATGCTTGTAAAAACAAATCCT
66 TTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATCCAGATGCTAGTAAAAACAAATCCT
* *
2989 TAAATCCATTGTGGCTGAGATTTTGTTCGAAGAATATAGATATTTGAGGGAGTGTTTGTGAAAAA
131 TAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAA
3054 AATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTAC
196 AATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTAC
*
3119 ACGATTTCGGCTACAAACTGACCCG-AAATTTTTTT
261 ACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTT
3154 GGATCGATGA
Statistics
Matches: 1415, Mismatches: 141, Indels: 61
0.88 0.09 0.04
Matches are distributed among these distances:
320 14 0.01
321 234 0.17
322 235 0.17
323 700 0.49
324 215 0.15
325 17 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (322 bp):
AAAAATATATAATTTATAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACCA
TTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATCCAGATGCTAGTAAAAACAAATCCT
TAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAA
AATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTAC
ACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
Found at i:2481 original size:644 final size:644
Alignment explanation
Indices: 1246--3153 Score: 3120
Period size: 644 Copynumber: 3.0 Consensus size: 644
1236 ATTTGTAACC
* * * * *
1246 AAAAATATATAATTTG-TAACCAAAAAAATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTACC
1 AAAAATATATAATTTGAT-GCCAAAAAAATTGAAGAGTTTTTCACGTTTCTAATATCGTTTTTCC
* * * * * * *
1310 AATTTTATCCTAATTTATATCTAATTA-TATTGAAACAAGATTTAGATGC-CTGTAAAAACAAAT
65 ATTTTTTTTCAAATTTATATCTAATTATTA-CGAAACAAGACTCAGATGCTC-GTAAAAACAAAT
* * * * * * * * * *
1373 CCTTAAATCCATTGTGCCTGAGATTTGTTTTGATGAATATGGATATTTCAGGGAGTGTTTATGCC
128 TCGTAAATCCATTGTGACTGAGATTGGATTCGATTAATATAGATATTTCAAGGAGTCTTT-TGCC
* * * ** * *
1438 AAAAATTAT-GAAAACCCAGTTGGGTCCCCGAAACGCGTTTTTAGCCTAAAACCGTGATGGTAAG
192 AGAAATCATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAG-CAAAAACCGTGATGGTAAG
* *
1502 TACACGATTTTCGGCTAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAG
256 TACACGA-TTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAG
* *
1567 AAAAAATATATAATTTATAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATAGTTTTAC
320 AAAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTAC
* * *
1632 CAATTTTTTCCTAATTTATATCTAATTATCTCGAAACTAA-ATCCAGATGCTAGTAAAAACAAAT
385 CATTTTTTTCCTAATTTATATCTAATTATATCGAAAC-AAGATTCAGATGCTAGTAAAAACAAAT
*
1696 CCTTAAATTCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAA
449 CCTTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAA
1761 AAAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAG
514 AAAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAG
*
1826 TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTTCTAAATTTTTTGGCACAATACTCAG
579 TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTTCTAAATTTTTTGCCACAATACTCAG
1891 A
644 A
*
1892 AAAAATATATAATTTGATGCCAAAAAAATTGAAGCGTTTTTCACGTTTCTAATATCGTTTTTCCA
1 AAAAATATATAATTTGATGCCAAAAAAATTGAAGAGTTTTTCACGTTTCTAATATCGTTTTTCCA
1957 TTTTTTTTCAAATTTATATCTAATTATTACGAAACAAGACTCAGATGCTCGTAAAAACAAATTCG
66 TTTTTTTTCAAATTTATATCTAATTATTACGAAACAAGACTCAGATGCTCGTAAAAACAAATTCG
* *
2022 TAAATCCATTGCGACTGAGATTGGGTTCGATTAATATAGATATTTCAAGGAGTCTTTCTGCCAGA
131 TAAATCCATTGTGACTGAGATTGGATTCGATTAATATAGATATTTCAAGGAGTCTTT-TGCCAGA
2087 AATCATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTACA
195 AATCATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTACA
*
2152 TGATTTCGGCTAAAAACTG-CCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAA
260 CGATTTCGGCTAAAAACTGACC-CGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAA
2216 AATATATAATTTGTAACC-AAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTACCATT
324 AATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTACCATT
2280 TTTTTCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCTAGTAAAAACAAATCCTTA
389 TTTTTCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCTAGTAAAAACAAATCCTTA
2345 AATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAAAA
454 AATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAAAA
* * *
2410 TTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGTCAAAAACCGTGATGTTAAGTACAT
519 TTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACAC
*
2475 GATTTCGTCTAAAAACTG-CCACGAAAA-TTTTTTTCTAAATTTTTTGCCACAATACTCAGA
584 GATTTCGGCTAAAAACTGACC-CGAAAATTTTTTTTCTAAATTTTTTGCCACAATACTCAGA
2535 AAAAATATATAATTTGATGACCAAAAAAATTGAAGAGTTTTTCACGTTTCTAATATCGTTTTTCC
1 AAAAATATATAATTTGATG-CCAAAAAAATTGAAGAGTTTTTCACGTTTCTAATATCGTTTTTCC
2600 ATTTTTTTTCAAATTTATATCTAATTATTACGAAACAAGACTCAGATGCTCGTAAAAACAAATTC
65 ATTTTTTTTCAAATTTATATCTAATTATTACGAAACAAGACTCAGATGCTCGTAAAAACAAATTC
2665 GTAAATCCATTGTGACTGAGATTGGATTCGATTAATATAGATATTTCAAGGAGTCTTTTAGCCAG
130 GTAAATCCATTGTGACTGAGATTGGATTCGATTAATATAGATATTTCAAGGAGTCTTTT-GCCAG
*
2730 AAATCATGGAAAACTCAGCCGGGGCCCCGAAATGCGTTTTTAGCAAAAACCGTGATGGTAAGTAC
194 AAATCATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTAC
*
2795 ACAATTTCGGCTAAAAACTGACCCGAAATTATTTTTTTCCTAAATTTTTTGCCA-AATACTCAGA
259 ACGATTTCGGCTAAAAACTGACCCGAAA--ATTTTTTT-CTAAATTTTTTGCCACAATACTCAGA
2859 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGG-TTTTTTACGCTTCTAATATCGTTTTACC
321 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTACC
* *
2923 ATTTTTTTCCTAATTTATATCTAATTATATCAAAACAAGATTCAGATGCTTGTAAAAACAAATCC
386 ATTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCTAGTAAAAACAAATCC
* *
2988 TTAAATCCATTGTGGCTGAGATTTTGTTCGAAGAATATAGATATTTGAGGGAGTGTTTGTGAAAA
451 TTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAA
3053 AAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTA
516 AAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTA
*
3118 CACGATTTCGGCTACAAACTGACCCG-AAATTTTTTT
581 CACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTT
3154 GGATCGATGA
Statistics
Matches: 1186, Mismatches: 60, Indels: 32
0.93 0.05 0.03
Matches are distributed among these distances:
643 56 0.05
644 512 0.43
645 78 0.07
646 474 0.40
647 66 0.06
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (644 bp):
AAAAATATATAATTTGATGCCAAAAAAATTGAAGAGTTTTTCACGTTTCTAATATCGTTTTTCCA
TTTTTTTTCAAATTTATATCTAATTATTACGAAACAAGACTCAGATGCTCGTAAAAACAAATTCG
TAAATCCATTGTGACTGAGATTGGATTCGATTAATATAGATATTTCAAGGAGTCTTTTGCCAGAA
ATCATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTACAC
GATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAAAA
TATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTACCATTTT
TTTCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCTAGTAAAAACAAATCCTTAAA
TCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAAAATT
ATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGA
TTTCGGCTAAAAACTGACCCGAAAATTTTTTTTCTAAATTTTTTGCCACAATACTCAGA
Found at i:3150 original size:967 final size:967
Alignment explanation
Indices: 1246--3153 Score: 2804
Period size: 967 Copynumber: 2.0 Consensus size: 967
1236 ATTTGTAACC
*
1246 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTACCA
1 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACCA
* *
1311 ATTTTATCCTAATTTATATCTAATTATATTGAAACAAGATTTAGATGCCTGTAAAAACAAATCCT
66 ATTTTATCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCCTGTAAAAACAAATCCT
* * * * **
1376 TAAATCCATTGTGCCTGAGATTTGTTTTGATGAATATGGATATTTCAGGGAGTGTTTATGCCAAA
131 TAAATCCATTGTGCCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTATGAAAAA
** * * *
1441 AATTATGAAAACCCAGTTGGGTCCCCGAAACGCGTTTTTAGCCTAAAACCGTGATGGTAAGTACA
196 AATTATGAAAACCCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACA
* *
1506 CGATTTTCGGCTAAAAACTGACCCGGAAATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAA
261 CGATTTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAA
* *
1571 AATATATAATTTATAACCAAAAAAATTGAAGGGTTTTTTTACGCTTCTAATATAGTTTTACCAAT
326 AATATATAATTTATAACCAAAAAAATTGAAGAGTTTTTTCACGCTTCTAATATAGTTTTACCAAT
* *
1636 TTTTTCCTAATTTATATCTAATTATCTCGAAACTAAATCCAGATGCTAGTAAAAACAAATCCTTA
391 TTTTTCCAAATTTATATCTAATTATCTCGAAACTAAATCCAGATGCTAGTAAAAACAAATCCGTA
* * * *
1701 AATTCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAAAA
456 AATCCATTGTGACTGAGATTTGGTTCGAAGAATATAGATATTTCAAGGAGTCTTTGTGAAAAAAA
*
1766 TTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACAC
521 TCATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACAC
* * *
1831 GATTTCGGCTAAAAACTGACCCGAAAATTTTTTTTCTAAATTTTTTGGCACAATACTCAGAAAAA
586 AATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCCTAAATTTTTTGCCACAATACTCAGAAAAA
* * *
1896 ATATATAATTTGATGCCAAAAAAATTGAAGCGTTTTTCACGTTTCTAATATCGTTTTTCCATTTT
651 ATATATAATTTGATACCAAAAAAATTGAAGCGTTTTTCACGCTTCTAATATCGTTTTACCATTTT
* * *
1961 TTTTCAAATTTATATCTAATTATTACGAAACAAGACTCAGATGCTCGTAAAAACAAATTCGTAAA
716 TTTCCAAATTTATATCTAATTATTACAAAACAAGACTCAGATGCTCGTAAAAACAAATCCGTAAA
** ** *
2026 TCCATTGCGACTGAGATTGGGTTCGATTAATATAGATATTTCAAGGAGTCTTTCTGCCAGAAATC
781 TCCATTGCGACTGAGATTGGGTTCGAAGAATATAGATATTTCAAGGAGTCTTTCTGAAAAAAATC
* * *
2091 ATGGAAAACTCAGCCGGGGCCCCGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTACATGAT
846 ATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTACACGAT
2156 TTCGGCTAAAAACTGCCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
911 TTCGGCTAAAAACTGCCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
*
2213 AAAAATATATAATTTGTAACC-AAAAAATTGAAGGGTTTTTTTACGCTTCTAATATCGTTTTACC
1 AAAAATATATAATTTGTAACCAAAAAAATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTTACC
* *
2277 ATTTTTTTCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATG-CTAGTAAAAACAAATC
65 AATTTTATCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCCT-GTAAAAACAAATC
* *
2341 CTTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTGTGAAA
129 CTTAAATCCATTGTGCCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTATGAAA
* * *
2406 AAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGTCAAAAACCGTGATGTTAAGT
194 AAAATTATG-AAAACCCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGT
* *
2471 ACATGA-TTTCGTCTAAAAACTG-CCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAG
258 ACACGATTTTCGGCTAAAAACTGACC-CGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAG
* * * *
2534 AAAAAATATATAATTTGATGACCAAAAAAATTGAAGAG-TTTTTCACGTTTCTAATATCGTTTTT
322 AAAAAATATATAATTT-ATAACCAAAAAAATTGAAGAGTTTTTTCACGCTTCTAATATAGTTTTA
* * *
2598 CCATTTTTTTTCAAATTTATATCTAATTAT-TACGAAAC-AAGA-CTCAGATGCTCGTAAAAACA
386 CCAATTTTTTCCAAATTTATATCTAATTATCT-CGAAACTAA-ATC-CAGATGCTAGTAAAAACA
* **
2660 AATTCGTAAATCCATTGTGACTGAGA-TTGGATTCGATTAATATAGATATTTCAAGGAGTCTTT-
448 AATCCGTAAATCCATTGTGACTGAGATTTGG-TTCGAAGAATATAGATATTTCAAGGAGTCTTTG
** * * * *
2723 TAGCCAGAAATCATGGAAAACTCAGCCGGGGCCCCGAAATGCGTTTTTAG-CAAAAACCGTGATG
512 T-GAAAAAAATCATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATG
2787 GTAAGTACACAATTTCGGCTAAAAACTGACCCGAAATTATTTTTTTCCTAAATTTTTTGCCA-AA
576 GTAAGTACACAATTTCGGCTAAAAACTGACCCGAAA--ATTTTTTTCCTAAATTTTTTGCCACAA
* *
2851 TACTCAGAAAAAATATATAATTTG-TAACCAAAAAAATTGAAGGGTTTTTTACGCTTCTAATATC
639 TACTCAGAAAAAATATATAATTTGAT-ACCAAAAAAATTGAAGCGTTTTTCACGCTTCTAATATC
* * *
2915 GTTTTACCATTTTTTTCCTAATTTATATCTAATTA-TATCAAAACAAGATTCAGATGCTTGTAAA
703 GTTTTACCATTTTTTTCCAAATTTATATCTAATTATTA-CAAAACAAGACTCAGATGCTCGTAAA
* * * ** * * *
2979 AACAAATCCTTAAATCCATTGTGGCTGAGATTTTGTTCGAAGAATATAGATATTTGAGGGAGTGT
767 AACAAATCCGTAAATCCATTGCGACTGAGATTGGGTTCGAAGAATATAGATATTTCAAGGAGTCT
* *
3044 TTGTGAAAAAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGA
832 TTCTGAAAAAAATCATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAG-CAAAAACCGTGA
*
3109 TGGTAAGTACACGATTTCGGCTACAAACTGACC-CG-AAATTTTTTT
896 TGGTAAGTACACGATTTCGGCTAAAAACTG-CCACGAAAATTTTTTT
3154 GGATCGATGA
Statistics
Matches: 841, Mismatches: 84, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
966 79 0.09
967 625 0.74
968 135 0.16
969 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (967 bp):
AAAAATATATAATTTGTAACCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTACCA
ATTTTATCCTAATTTATATCTAATTATATCGAAACAAGATTCAGATGCCTGTAAAAACAAATCCT
TAAATCCATTGTGCCTGAGATTTGGTTCGAAGAATATAGATATTTCAGGGAGTGTTTATGAAAAA
AATTATGAAAACCCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACA
CGATTTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGAAAA
AATATATAATTTATAACCAAAAAAATTGAAGAGTTTTTTCACGCTTCTAATATAGTTTTACCAAT
TTTTTCCAAATTTATATCTAATTATCTCGAAACTAAATCCAGATGCTAGTAAAAACAAATCCGTA
AATCCATTGTGACTGAGATTTGGTTCGAAGAATATAGATATTTCAAGGAGTCTTTGTGAAAAAAA
TCATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACAC
AATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCCTAAATTTTTTGCCACAATACTCAGAAAAA
ATATATAATTTGATACCAAAAAAATTGAAGCGTTTTTCACGCTTCTAATATCGTTTTACCATTTT
TTTCCAAATTTATATCTAATTATTACAAAACAAGACTCAGATGCTCGTAAAAACAAATCCGTAAA
TCCATTGCGACTGAGATTGGGTTCGAAGAATATAGATATTTCAAGGAGTCTTTCTGAAAAAAATC
ATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTTTAGCAAAAACCGTGATGGTAAGTACACGAT
TTCGGCTAAAAACTGCCACGAAAATTTTTTTCTAAATTTTTTGCCACAATACTCAGA
Found at i:3655 original size:536 final size:541
Alignment explanation
Indices: 2630--3664 Score: 1405
Period size: 536 Copynumber: 1.9 Consensus size: 541
2620 CTAATTATTA
* *
2630 CGAAACAAGACTCAGATGCTCGTAAAAACAAATTCGTAAATCCATTGTGACTGAGATTGGATTCG
1 CGAAACAAGACTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTATGACTGAGATTGGATTCG
* *
2695 ATTAATATAGATATTTCAAGGAGTCTTTTAGCCAGAAATCATGGAAAACTCAGCCGGGGCCCCGA
66 ATGAATATAGATATTTCAAGGAGTCTTTTAGCCAGAAATCATGCAAAACTCAGCCGGGGCCCCGA
* *
2760 AATGCGTTTTTAGCAAAAACCGTGATGGTAAGTACACAATTTCGGCTAAAAACTGACCCGAAATT
131 AACGCGTTTTTAGCAAAAA-C-TGATGATAAGTACACAATTTCGGCTAAAAACTGACCCGAAA-T
* *
2825 ATTTTTTTCCTAAATTTTTTGCCAAATACTCAGAAAAAATATATAATTTGTAACCAAAAAAATTG
193 ACTTTTTTCCTAAATTTTTTGCCAAATACTAAGAAAAAATATATAATTTGTAACCAAAAAAATTG
* ** * *
2890 AAGGGTTTTTTACGCTTCTAATATCGTTTTACCATTTTTTTCCTAATTTATATCTAATTATATCA
258 AAGCGCCTTTCAAGCTTCTAATATCGTTTTACCA-----TTCCTAATTTATATCTAATTATATCA
* * *
2955 AAACAAGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTTGTTCGAA
318 AAACAAGATTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTGTGGCTGAGATTTGGTTCGAA
* *
3020 GAATATAGATATTTGAGGGAGTGTTTGTGAAAAAAATTATGCAAAACTCAGCCGGGGCCACGAAA
383 GAATATAGATATTTCAGGGAGTGTTTCTGAAAAAAATTATGCAAAACTCAGCCGGGGCCACGAAA
3085 CGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTACAAACTGACCCGAAATTT
448 CGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTACAAACTGACCCGAAATTT
3150 TTTTGGATCGATGAATATAGATATTTCAG
513 TTTTGGATCGATGAATATAGATATTTCAG
* * *
3179 CGAAACAAGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCATTATGGA-TGAGATTTGGA-T
1 CGAAACAAGACTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTAT-GACTGAGA-TTGGATT
* *
3242 CGATGAATATAGATATTTC-AGCGAGTGTTTCT-GCCCA-AAATTATGCAAAACTCAGCCGGGGC
64 CGATGAATATAGATATTTCAAG-GAGTCTTT-TAG-CCAGAAATCATGCAAAACTCAGCCGGGGC
* * * * *
3304 CCCGAAACGCTTTTTTAGCCCAAAA-TTAT-AT-AGTATACGATTTCGGCTAAAAACTGACCCGA
126 CCCGAAACGCGTTTTTAG-CAAAAACTGATGATAAGTACACAATTTCGGCTAAAAACTGACCCGA
** * *
3366 AA-ACTTTTTT-CTGTATTATTTTGGCACAATACTAAGAAAAAATATATAATTTGGT-GCCAAAA
190 AATACTTTTTTCCTAAATT-TTTTGCCA-AATACTAAGAAAAAATATATAATTT-GTAACCAAAA
* * * *
3428 AAATTGAAGCGCCTTTCAAGCTTCTAATATCGTTTTTCCA-T-C-GATTTTTTTCTAATTATATC
252 AAATTGAAGCGCCTTTCAAGCTTCTAATATCGTTTTACCATTCCTAATTTATATCTAATTATATC
* * * *
3490 GAAAGACGATTCAGATGCTCGTAAAAACAAATCCGTAATTCCATTGTGGCTGAGATTTGGTTCGA
317 AAAACAAGATTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTGTGGCTGAGATTTGGTTCGA
* * ** *
3555 TGAATATATATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCGAA
382 AGAATATAGATATTTCAGGGAGTGTTTCTGAAAAAAATTATGCAAAACTCAGCCGGGGCCACGAA
*
3620 ATGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGG
447 ACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGG
3665 ATAAAAACGT
Statistics
Matches: 431, Mismatches: 46, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
536 177 0.41
537 1 0.00
538 1 0.00
542 5 0.01
543 14 0.03
544 64 0.15
545 33 0.08
546 1 0.00
547 3 0.01
548 2 0.00
549 114 0.26
550 16 0.04
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (541 bp):
CGAAACAAGACTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTATGACTGAGATTGGATTCG
ATGAATATAGATATTTCAAGGAGTCTTTTAGCCAGAAATCATGCAAAACTCAGCCGGGGCCCCGA
AACGCGTTTTTAGCAAAAACTGATGATAAGTACACAATTTCGGCTAAAAACTGACCCGAAATACT
TTTTTCCTAAATTTTTTGCCAAATACTAAGAAAAAATATATAATTTGTAACCAAAAAAATTGAAG
CGCCTTTCAAGCTTCTAATATCGTTTTACCATTCCTAATTTATATCTAATTATATCAAAACAAGA
TTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTGTGGCTGAGATTTGGTTCGAAGAATATAG
ATATTTCAGGGAGTGTTTCTGAAAAAAATTATGCAAAACTCAGCCGGGGCCACGAAACGCGTTTT
TAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTACAAACTGACCCGAAATTTTTTTGGAT
CGATGAATATAGATATTTCAG
Found at i:4385 original size:325 final size:320
Alignment explanation
Indices: 3179--4792 Score: 1785
Period size: 325 Copynumber: 5.0 Consensus size: 320
3169 GATATTTCAG
* * * *
3179 CGAAACAAGATTCAGATGCTTGTAAAAACAAATCCTTAAATCCATTATGGATGAGATTTGGATCG
1 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTCG
* *
3244 ATGAATATAGATATTTCAGCGAGTGTTTCTGCCCAAAATTATGCAAAACTCAGCCGGGGCCCCGA
66 ATGAATATAGATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCGA
* * * * *
3309 AACGCTTTTTTAGCCCAAAA---TTAT-AT-AGTATACGATTTCGGCTAAAAACTGACCCGAAAA
131 AACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTGACCCGAAAA
* ** * * ***
3369 CTTTTTTCTGTATTATTTTGGCACAATACTAAGAAAAAATATATAATTTGGTGCCAAAAAAATTG
196 TTTTTTTCTCAATT-TTCTGGCACAATACTCAGAAAAAATATAT-ATTTAAAGCCAAAAAAATTG
** * * *
3434 AAGCGCCTTTCAAGCTTCTAATATCGTTTTTCCA------T-CG-ATTTTTTTCTAATTATAT
259 AAG-GTTTTTCACGCTTCTAATATCGTTTTACCATTTTTTTCCGAATTTATTTCTAATTATAT
* * * *
3489 CGAAAGACGATTCAGATGCTCGTAAAAACAAATCCGTAATTCCATTGTGGCTGAGATTTGGTTCG
1 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTCG
*
3554 ATGAATATATATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCGA
66 ATGAATATAGATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCGA
* * **
3619 AATGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGATAAAAAC-GTACTAGAAA
131 AACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTG-ACCCGAAA
* * * * **
3683 ATTTTTTTTCTCTACTTTTC-GGCACAAAAATTAGAAAAAATATATTATTTATTGCCAAAAAAAT
195 A-TTTTTTTCTC-AATTTTCTGGCACAATACTCAGAAAAAATATA-TATTTAAAGCCAAAAAAAT
* * * *
3747 TGAAGCGCTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTTTCGAATTTTATTTCTAATTATA
257 TGAAG-GTTTTTCACGCTTCTAATATCGTTTTACCATTTTTTTCCGAA-TTTATTTCTAATTATA
3812 T
320 T
* * * * *
3813 CGAAAC-AGATTCAGATGCTCGTAAAAACAAATCCGTAAATCCATTGGGGCTGAAATTCGGTTAG
1 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTCG
* * * * * * *
3877 ATTAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGAAAAACTGAGCC-GGGCCCAGA
66 ATGAATATAGATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCGA
* * *
3941 AACGCGTTTTTAGCCAAAAAACC--G-T--TATGTACACGATTTCGGCTAAAAATTGACCCAAAA
131 AACGCGTTTTTAGCC-AAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTGACCCGAAA
* * * * * *
4001 ATTTTTTTCTAAAATTTT-TGCCACAATACTCAGGAAAAATATGTAATTTTTAA-CCAAAAAAGT
195 ATTTTTTTCT-CAATTTTCTGGCACAATACTCAGAAAAAATATAT-A-TTTAAAGCCAAAAAAAT
* * * *
4064 TCAATGATTTTTCACGCTTCTAATATCGTTTTACCATTTTTTTCCCCTAATTTATATCTAATTAT
257 TGAA-GGTTTTTCACGCTTCTAATATCGTTTTACCATTTTTTT--CCGAATTTATTTCTAATTAT
4129 AT
319 AT
* * *
4131 CGAAACAAGATTCAGATGCTTGTAAAAAAAAACCCTTAAATCCATTGTGGCTGAGATTTGGTTCG
1 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTCG
* * * * * *
4196 ATGAATATAAATATTTCAGGGTGTGTTCCTGCCAAATATTATGCAAAACTCAGCTGGATGCCCCG
66 ATGAATATAGATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGG-GGCCCCG
* * * *
4261 AAACGCGTTTTTAACCAAAAATCGTGATGTTAAGTACACGATTTCGGCTAAAAACTGACCCGATA
130 AAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTGACCCGAAA
* * **
4326 ATTTTTTTCTCAATTTTCTGCCACAATACTTAGAAAACGTATATATTTCAAAGCCAAAAAAATTG
195 ATTTTTTTCTCAATTTTCTGGCACAATACTCAGAAAAAATATATATTT-AAAGCCAAAAAAATTG
** * * * **
4391 AAGGGTTTTTCACGAATCTACTATCCTTTTACCATTTTTTTTTCCGAATTCATTTCTAATTATCC
259 AA-GGTTTTTCACGCTTCTAATATCGTTTTACCA--TTTTTTTCCGAATTTATTTCTAATTATAT
* * *
4456 CGAAACTAA-ATACAAATGCTAGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTC
1 CGAAAC-AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTC
* * ** * *
4520 GAAGAATATAGATATTTCAGGGAGTGTTTGTGAAAAAAATTATGCAAAACTCAGTCGGGGCCACG
65 GATGAATATAGATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCG
*
4585 AAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTGCCCCGAAA
130 AAACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTGACCCGAAA
*
4650 ATTTTTTT-TCAAATTTTTTGGCACAATACTCAGAAAAAATATA-ATTTGAAA-CCAAAAAAATT
195 ATTTTTTTCTC-AATTTTCTGGCACAATACTCAGAAAAAATATATATTT-AAAGCCAAAAAAATT
* * * * * *
4712 -AGAGGATTTTTCTACGATTGTAATATCGTTTTACCTATTTTGTTCCTAATCTATATCTAATTAT
258 GA-AGG-TTTTTC-ACGCTTCTAATATCGTTTTACC-ATTTTTTTCCGAATTTATTTCTAATTAT
4776 AT
319 AT
4778 CG-AACAAGATTCAGA
1 CGAAACAAGATTCAGA
Statistics
Matches: 1093, Mismatches: 164, Indels: 83
0.82 0.12 0.06
Matches are distributed among these distances:
310 136 0.12
313 3 0.00
314 2 0.00
315 98 0.09
316 12 0.01
317 80 0.07
318 54 0.05
319 98 0.09
320 10 0.01
321 33 0.03
322 67 0.06
323 139 0.13
324 131 0.12
325 221 0.20
326 2 0.00
327 7 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (320 bp):
CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTCG
ATGAATATAGATATTTCAGGGAGTGTTTCTGCCAAAAATTATGCAAAACTCAGCCGGGGCCCCGA
AACGCGTTTTTAGCCAAAAACCGTGATGGTAAGTACACGATTTCGGCTAAAAACTGACCCGAAAA
TTTTTTTCTCAATTTTCTGGCACAATACTCAGAAAAAATATATATTTAAAGCCAAAAAAATTGAA
GGTTTTTCACGCTTCTAATATCGTTTTACCATTTTTTTCCGAATTTATTTCTAATTATAT
Done.