Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012859.1 Corchorus capsularis cultivar CVL-1 contig12880, 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: 20817
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:1221 original size:322 final size:321
Alignment explanation
Indices: 635--2133 Score: 1783
Period size: 324 Copynumber: 4.7 Consensus size: 321
625 ATCCAGATTT
* * * * *
635 AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCTCATCAATCTTTTTGTCATTAAATTATA
1 AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCACGTCAATC-TTTTGGCGTTGAATTATA
* * ** *
700 TAATTTTTCTGAGTATTGTGGCAAAAAATTTC-GGAAAAAATTTTCGACTCGGTTTTTAGCCGAA
65 T-ATTTTCCTGAGTATTGTGGC-AAAAATTTCAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAA
* * * * *
764 ATCGTGTACTAACCATCATGGATTTCGGGCTTAAAACGCGTTTCGGGGCCCCGACTAAATTTTGC
128 ATCGTGTACTAACCATCACGGATTTTGGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGC
* *
829 ATGATTTTTGGCAAAAAGACTCCATGAAATATCTATATTCATCTAACCAAATTTCAGCCACATTG
193 ATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATTTCAGCCACATTG
* ** *
894 GACTTAAGGATTTGTTTTTTCGAGCATCT-GAATCTTGTTTCAAATTAATTAAAACTTAATTCAG
258 GACTTAAGGATTTGATTTTAGGAGCATCTAG-ATCTTGTTTCAATTTAATTAAAACTTAATTCAG
* *
958 -AAAAAATGGAAAAACGATATTAGAAACGTGAAAAGCACGTCAATCATTTGGCGTTGAATTATAT
1 AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCACGTCAATCTTTTGGCGTTGAATTATAT
** ** *
1022 -TTTTCCTGAGTATTGTGGCAAAAATTTCAGAAAAAAAAAATACTCTTGTTAGTTTTTAGCCGAA
66 ATTTTCCTGAGTATTGTGGCAAAAATTTCAG---AAAAAAATTTTCGGGTCAGTTTTTAGCCGAA
* * * * * *
1086 ATTGTGTACTAACCATCACGGATTTTAGGTTAAAAACGCGTTTCAGGACCCCGACTCAGTTTTGT
128 ATCGTGTACTAACCATCACGGATTTTGGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGC
* ** * *
1151 ATTATTTTTGGCAGAAAGACTCCTCAAAATATCTATAGTCATATAACCAAATTTCAGCCACATTG
193 ATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATTTCAGCCACATTG
* * * * *
1216 GACTTAAGGATTTAATTTTAGGAGCAACTGGATCTAGTTTCAATTTAATTAAAACTTCATTC-G
258 GACTTAAGGATTTGATTTTAGGAGCATCTAGATCTTGTTTCAATTTAATTAAAACTTAATTCAG
* * *
1279 ---AAAA---AAAAATGATATTAGAAGCGTGAAAAGCACATCAATTTTTCTGGCGTTGAATTATA
1 AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCACGTCAATCTTT-TGGCGTTGAATTATA
* * * * *
1338 TATTGTTCCTGAGTATTGTGGCGAAAAA-ATCTG-AAAAACTTTTAGGGTCAGTTTTTTGCCGAA
65 TATT-TTCCTGAGTATTGTGGC-AAAAATTTCAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAA
* * ** **
1401 ATCGTATGCTAACCATCACGGATTTTGGGCTAAATTCGCGTTTCGGGGCCTTGACTCAGTTTTGC
128 ATCGTGTACTAACCATCACGGATTTTGGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGC
* * *
1466 ATGATTTTTGG-TGAAAAGACTCCTTGAAATATCTATATTCTTCTAACCAAATTTCAGCCATATT
193 ATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATTTCAGCCACATT
*
1530 GGACTTAAGGATTTGATTTTAGGAGCATCTAGATCTTGTTTCAATTTAATTAGAACTTAATTCAG
257 GGACTTAAGGATTTGATTTTAGGAGCATCTAGATCTTGTTTCAATTTAATTAAAACTTAATTCAG
* *
1595 AAAAAAAAATGGAAAAACGATATTAGAAACGTGAAAAGCCCGTCAA-CTTTTTAGGCGTTGAATT
1 --AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCACGTCAATC-TTTT-GGCGTTGAATT
* ** * * *
1659 ATATATTATTCCTGGGTATTGTGGCAAAAAAATCAG-AAAAAATTTTAGAGTCAGTTTTTAGTCG
62 ATATATT-TTCCTGAGTATTGTGGCAAAAATTTCAGAAAAAAATTTTCGGGTCAGTTTTTAGCCG
* * * * ***
1723 AAATCGTATGCTAACTATCACGGATTTTGGGCTAAAATCGCGCTTT-GGGGCCTTAACTCAGTTT
126 AAATCGTGTACTAACCATCACGGATTTTGGGCTAAAAACGCG-TTTCGGGGCCCCGACTCAGTTT
* *
1787 TCCATGATTTTTGGC-GAAAAGACTCCTTTAAATATCTATATTCATCTAACCAAATTTCAGCCAC
190 TGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATTTCAGCCAC
* * * *
1851 ATTGGGCTTAAGGATTTGATTTTAAGAGCATCTAGATTTTGTTTCAATTTAATTAGAACTTAATT
254 ATTGGACTTAAGGATTTGATTTTAGGAGCATCTAGATCTTGTTTCAATTTAATTAAAACTTAATT
*
1916 CGGG
319 C-AG
* * * *
1920 AAAAAAATAGAAAAATGATATTAGAAGCGTGGAAAGCACGTCAATCTTTCTAGCGTTGAATTATA
1 AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCACGTCAATCTTT-TGGCGTTGAATTATA
* *
1985 TATTTTTCCTGAGTACTGTGGCAAAAATTTCAGAAAAAAATTTTCTGGTCAGTTTTTAGCCGAAA
65 TA-TTTTCCTGAGTATTGTGGCAAAAATTTCAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAA
* * * * **
2050 TCGTGCACTAACAACCATCACGAAATTTGGGCTAAAAACGCGTTTCGGGGCTCAAACTCAGTTTT
129 TCGTGTACT---AACCATCACGGATTTTGGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTT
*
2115 GCATGATTTTTAGCAGAAA
191 GCATGATTTTTGGCAGAAA
2134 ATCAAATTCC
Statistics
Matches: 1010, Mismatches: 132, Indels: 64
0.84 0.11 0.05
Matches are distributed among these distances:
314 1 0.00
315 186 0.18
316 35 0.03
317 16 0.02
318 11 0.01
319 43 0.04
320 5 0.00
321 20 0.02
322 229 0.23
323 88 0.09
324 311 0.31
325 4 0.00
326 3 0.00
327 57 0.06
328 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (321 bp):
AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCACGTCAATCTTTTGGCGTTGAATTATAT
ATTTTCCTGAGTATTGTGGCAAAAATTTCAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATC
GTGTACTAACCATCACGGATTTTGGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATG
ATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATTTCAGCCACATTGGAC
TTAAGGATTTGATTTTAGGAGCATCTAGATCTTGTTTCAATTTAATTAAAACTTAATTCAG
Found at i:6601 original size:658 final size:642
Alignment explanation
Indices: 4712--6645 Score: 1997
Period size: 658 Copynumber: 2.9 Consensus size: 642
4702 TCGGCTCTCT
* * * * *
4712 GCTAAAAACGTATTCAGGAACCCCGTCTCAATTTTGCAT-ATTTTAAGCGTAAAGGA-TTCTTGA
1 GCTAAAAACGTGTTCCGGAACCCCGACTCAATTTTGCATGATTTTATGCG-AAAGGACTCCTTGA
* * * * *
4775 AATATCTATATTTATCGAACCAAATCCCAGCCACATTGAATTTAATGATTTGTTTTTACGAGCAT
65 AATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCAT
* * *
4840 CTTATTCTTGTTTCGATTTAATTAGAAATT-ATTTCGGAAGAAAAATGGAAAAACAATATTACAA
130 CTAATT-TTGTTTCGATTTAATTAGAAATTAATTT--G--GAAAAATGGAAAAACGATATTAGAA
** * * **
4904 GCGTGAAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTTATAAA
190 GCGTG--AAAGCCCATCAATCTTTTTGGCGTTGAATTATATATTTTTTCTTAGTATTG-TGGAAA
* *
4969 AAATTGAGAAAAAAATTTCGGGTCAGTTTTTAGCCGAAATCGTGTAC--GTT-ACGGTTTTTGGC
252 AAATTGAGAAAAAAATTTC-GGTCAATTTTTAGCCGAAATCGTGTACAACTTCAC-GTTTTTGGC
* * * * * * * * *
5031 TAATAACACGTTGCGGGGCCTC-GACTCAATTTTGTATGGTTTATGGCATAAAAACTCCTTGAAA
315 GAAAAACGCGTTTCGGGGCCCCAG-CTCAATTTTGCATGATTTTTGGCAAAAAAACTCCTTGAAA
* * *
5095 TATCTATATTCATCTAACCAAATCTCAGCTACATTGGATTTAGGGATTTGTTTTTAAGAGTATCT
379 TATCTATATTCATCTAACCAAATCTCAGCCACATT-GATTTAAGGATTTGTTTTTACGAGTATCT
* * * *
5160 GAATCTTGTTTCGATTTAAGTAGAAATAAATTCAGGGTAAAAATTGAAAAATGATATTAGAAGCG
443 GAATCTTGTTTCGATTTAATTAGAAATAAATTC-GGGAAAAAATTGGAAAACGATATTAGAAGCG
** * * * *
5225 TGAAAAACCCTTCAATTCTTTTGGCCTTGAATTCTTTTTTTTTTTGTAGTTACTGTTGGCAAAAA
507 TGAAAAACCCTTCAATT-TTTTTTCGTTGAATTATTATTTTTTTTG-AG-TATTG-TGGCAAAAA
** *** * * *
5290 ATTGAG-GGAAAACTTTTCGGGTCAGATTTTTTCAACTTTTAGCCGAAATCGTGTACAAACCATC
568 ATTGAGAAAAAAACTTTTCAAATCAGATTTTTGCAAATTCTAGCCGAAATCGTGTACAAACCATC
*
5354 ACGGTTTTTT
633 ACGGTTTTTA
* * * * *
5364 G-TGAAAAACGCGTTCC-GAACCCCCGGCTCAATTTTACATGATTTTTTTCGCAAA-GACTCCTT
1 GCT-AAAAACGTGTTCCGGAA-CCCCGACTCAATTTTGCATGATTTTATGCG-AAAGGACTCCTT
* *
5426 GAAATAT-TCATATTCATCAAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACCAG
63 GAAATATCT-ATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAG
** * * * *
5490 CATCTAAATCATGATTCGATTTAATTAGAAATTAATTCGGAATAAAAAAAGAAAAAACGATATTA
127 CATCT-AATTTTGTTTCGATTTAATTAGAAATTAATTTGG----AAAAATGGAAAAACGATATTA
* * *
5555 GAAGCGTGAAATGCCCGTC-ATCTTTTTGGCTTTGAATTATATATATATATATATATATTAAGTA
187 GAAGCGTGAAA-GCCCATCAATCTTTTTGGCGTTGAA-T-TATATAT-T-T-T-T-TCTT-AGTA
* * * * *
5619 TTATGG-AAAAATTCAGGAAAAATAAATTCGGTTCAATTTTTAGCCAAAATCGTGTACTAACCGT
243 TTGTGGAAAAAATTGA-GAAAAA-AATTTCGG-TCAATTTTTAGCCGAAATCGTGTAC-AA-CTT
* * * * * *
5683 CATGGTTTTGGGGATAAAAACGCGTTTCGGGGCACCAACTCAATTTTGCATGATTTTTGGCAGAA
303 CACGTTTTTGGCG--AAAAACGCGTTTCGGGGCCCCAGCTCAATTTTGCATGATTTTTGGCAAAA
** *
5748 TGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCTCATTAGATTTAAGGATTTGTT
366 AAACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATT-GATTTAAGGATTTGTT
* *
5813 TTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGGAAGAAAA-TGGAAAAA
430 TTTACGAGTATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGGAA-AAAATTGG-AAAA
* * *
5877 CGATATTACAAGCGTGAAAAACCCCTCAATTTTTTTT-GTCTTGAATTATTATTTTTTTTTAGTA
493 CGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTCG--TTGAATTATTATTTTTTTTGAGTA
*
5941 TTGTGGCAAAAAATTGAGAAAAAAACATTTT-AAATCAG-TTTTTGCAAAATTCTAGCTGAAATC
556 TTGTGGCAAAAAATTGAGAAAAAAAC-TTTTCAAATCAGATTTTTGC-AAATTCTAGCCGAAATC
* *
6004 GTGTA-ATAACCGTTACGGTTTTTA
619 GTGTACA-AACCATCACGGTTTTTA
* * * *
6028 GCTAAAAACGTGTTCCGGAGCCCCAACTCAATTTTGCATGATTGTATGCGGAAGGACTCCTTGAA
1 GCTAAAAACGTGTTCCGGAACCCCGACTCAATTTTGCATGATTTTATGCGAAAGGACTCCTTGAA
* * *
6093 ATATCTATATTCATCGAACCAAATCTCAGTCACATTGGATACAAGGATTCTTTTTTTTTTACGAG
66 ATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGA----TTTGTTTTTACGAG
*
6158 TATCTGAATTTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAATGGAAAAACGATATTAGAAG
127 CATCT-AATTTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAATGGAAAAACGATATTAGAAG
* * *
6223 CTTGAATAGCCCAACAATCTTTTTGGCGTTGGATTATATATTTTTTCTTAGTATTGTGGCAAAAA
191 CGTGAA-AGCCCATCAATCTTTTTGGCGTTGAATTATATATTTTTTCTTAGTATTGTGG-AAAAA
* * * *
6288 ATTGAGAAAAAACTTTTCAGGCCAATTTTTAACCGAAATCATGTACAAACTATCACGATTTTTGG
254 ATTGAGAAAAAA-ATTTC-GGTCAATTTTTAGCCGAAATCGTGTAC-AACT-TCACG-TTTTTGG
* **
6353 CGAAAAACGCGTTTCGAGGCCCCAGCTCAATTTTGCATGATTTTTTGTAAAAAAAACTCCTTGAA
314 CGAAAAACGCGTTTCGGGGCCCCAGCTCAATTTTGCATGA-TTTTTGGCAAAAAAACTCCTTGAA
* * *
6418 ATATTTATATTCATCTGACCAAATCTCTGCCACATTGTATTTAAGGATTTGTTTTTACGAGTATC
378 ATATCTATATTCATCTAACCAAATCTCAGCCACATTG-ATTTAAGGATTTGTTTTTACGAGTATC
* * * *
6483 TGAATCTTATTTCGATTAAATTAG-AATAAATTCGGGGGAAAAAATTGGAAGACGATATTAGAGG
442 TGAATCTTGTTTCGATTTAATTAGAAATAAATTC--GGGAAAAAATTGGAAAACGATATTAGAAG
* * *
6547 CGTGAAGAACCCTTCAATTTTTTTTCGTTGAATTATATATTTGTTCTGAGTATTGTGGCAAAGAA
505 CGTGAAAAACCCTTCAATTTTTTTTCGTTGAATTAT-TATTTTTTTTGAGTATTGTGGCAAA-AA
* * *
6612 TTTG-G-GAAAAACTTTTCAAGTCA-ATTTTTGCAAA
568 ATTGAGAAAAAAACTTTTCAAATCAGATTTTTGCAAA
6646 CAACTCAGTT
Statistics
Matches: 1060, Mismatches: 157, Indels: 126
0.79 0.12 0.09
Matches are distributed among these distances:
650 1 0.00
651 4 0.00
652 51 0.05
653 100 0.09
654 37 0.03
655 1 0.00
656 8 0.01
657 84 0.08
658 209 0.20
659 43 0.04
660 35 0.03
661 1 0.00
662 1 0.00
663 31 0.03
664 178 0.17
665 37 0.03
666 193 0.18
668 46 0.04
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (642 bp):
GCTAAAAACGTGTTCCGGAACCCCGACTCAATTTTGCATGATTTTATGCGAAAGGACTCCTTGAA
ATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATC
TAATTTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAATGGAAAAACGATATTAGAAGCGTGA
AAGCCCATCAATCTTTTTGGCGTTGAATTATATATTTTTTCTTAGTATTGTGGAAAAAATTGAGA
AAAAAATTTCGGTCAATTTTTAGCCGAAATCGTGTACAACTTCACGTTTTTGGCGAAAAACGCGT
TTCGGGGCCCCAGCTCAATTTTGCATGATTTTTGGCAAAAAAACTCCTTGAAATATCTATATTCA
TCTAACCAAATCTCAGCCACATTGATTTAAGGATTTGTTTTTACGAGTATCTGAATCTTGTTTCG
ATTTAATTAGAAATAAATTCGGGAAAAAATTGGAAAACGATATTAGAAGCGTGAAAAACCCTTCA
ATTTTTTTTCGTTGAATTATTATTTTTTTTGAGTATTGTGGCAAAAAATTGAGAAAAAAACTTTT
CAAATCAGATTTTTGCAAATTCTAGCCGAAATCGTGTACAAACCATCACGGTTTTTA
Found at i:6891 original size:269 final size:268
Alignment explanation
Indices: 6384--6896 Score: 599
Period size: 269 Copynumber: 1.9 Consensus size: 268
6374 CCAGCTCAAT
* * * * *
6384 TTTGCATGATTTTTTGTAAAAAAAACTCCTTGAAATATTTATATTCATCTGACCAAATCTCTGCC
1 TTTGCATGATTTTTTGGAAAAAAAACTCCTTCAAATATCTATATTCATCGGACCAAATCTCAGCC
* * * * *
6449 ACATTGTATTTAAGGATTTGTTTTTACGAGTATCTGAATCTTATTTCGATTAAATTAGAATAAAT
66 ACATTGTATATAAGAATTTGGTTTTACAAGCATCTGAATCTTATTTCGATTAAATTAGAATAAAT
* * * * * * **
6514 TCGGGGGAAAAAATTGGAAGACGATATTAGAGGCGTGAAGAACCCTTCAATTTTTTTTCGTTGAA
131 TC--GGGAAAAAAATGAAAAACGATATTAGAAGCGTGAAGAACCCGTAAATTTTTTGACGTTGAA
* * *
6579 TTATATATTTGTTCTGAGTATTGTGGCAAAGAATTTGGGAAAAACTTTTCAAGTCAATTTTTGCA
194 TTATATATTTGTTCTGAGTATTATGGCAAAAAATTTAGGAAAAACTTTTCAAGTCAATTTTTGCA
6644 AACAACTCAG
259 AACAACTCAG
* *
6654 TTTGCATGATTTTTTGCGCAAAAACA-T-CTTCAAATATCTATATTCAT-GGAACCAAATCTCAG
1 TTTGCATGATTTTTTG-GAAAAAAAACTCCTTCAAATATCTATATTCATCGG-ACCAAATCTCAG
* * * *
6716 CCACATTAG-ATATAAGAATTTGGTTTTACAAGCATCTGTATCTTGTTTTGATTTAATTAGAAAT
64 CCACATT-GTATATAAGAATTTGGTTTTACAAGCATCTGAATCTTATTTCGATTAAATTAG-AAT
* * * *
6780 TAATTC-GGAAAAAAATGAAAAATTGATATTAGAAGCGTTAA-AAGCCCGTAAATCTTTTTGACT
127 AAATTCGGGAAAAAAATGAAAAA-CGATATTAGAAGCGTGAAGAA-CCCGTAAAT-TTTTTGACG
*
6843 TTGAATTATAT-TTTTTTCTGAGTATTATGGCAAAAAATTTAAGGAAAAACTTTT
189 TTGAATTATATATTTGTTCTGAGTATTATGGCAAAAAATTT-AGGAAAAACTTTT
6897 TGGATGAGTT
Statistics
Matches: 203, Mismatches: 32, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
267 15 0.07
268 49 0.24
269 107 0.53
270 26 0.13
271 6 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (268 bp):
TTTGCATGATTTTTTGGAAAAAAAACTCCTTCAAATATCTATATTCATCGGACCAAATCTCAGCC
ACATTGTATATAAGAATTTGGTTTTACAAGCATCTGAATCTTATTTCGATTAAATTAGAATAAAT
TCGGGAAAAAAATGAAAAACGATATTAGAAGCGTGAAGAACCCGTAAATTTTTTGACGTTGAATT
ATATATTTGTTCTGAGTATTATGGCAAAAAATTTAGGAAAAACTTTTCAAGTCAATTTTTGCAAA
CAACTCAG
Found at i:16520 original size:24 final size:24
Alignment explanation
Indices: 16473--16522 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
16463 ACGCCAGTTC
*
16473 TTTATCCATCGCCACCACCTCCTG
1 TTTATCCATCGCCACCACCCCCTG
* *
16497 TTTATCCATCGCCGCCGCCCCCTG
1 TTTATCCATCGCCACCACCCCCTG
16521 TT
1 TT
16523 GTTATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.46, G:0.12, T:0.30
Consensus pattern (24 bp):
TTTATCCATCGCCACCACCCCCTG
Found at i:18443 original size:7 final size:7
Alignment explanation
Indices: 18431--18486 Score: 94
Period size: 7 Copynumber: 8.0 Consensus size: 7
18421 ATAAAGCAGA
*
18431 GTAAGTG
1 GTAACTG
*
18438 GTAAGTG
1 GTAACTG
18445 GTAACTG
1 GTAACTG
18452 GTAACTG
1 GTAACTG
18459 GTAACTG
1 GTAACTG
18466 GTAACTG
1 GTAACTG
18473 GTAACTG
1 GTAACTG
18480 GTAACTG
1 GTAACTG
18487 AAATTAACAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (7 bp):
GTAACTG
Done.