Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013086.1 Corchorus olitorius cultivar O-4 contig13119, 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: 22651
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:12 original size:2 final size:2
Alignment explanation
Indices: 1--89 Score: 171
Period size: 2 Copynumber: 45.0 Consensus size: 2
1 CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
42 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
84 CT CT CT
1 CT CT CT
90 TTTAAGTCTT
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 85 0.99
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:2812 original size:117 final size:118
Alignment explanation
Indices: 2606--2841 Score: 438
Period size: 117 Copynumber: 2.0 Consensus size: 118
2596 AGTGATGTTC
*
2606 TATCTCAAATTCTTCTTCTACATGGCTAAATGGTGGAACTTGTATCACGGTGTGCACAACAGCTA
1 TATCTCAAATTCTTCTTCTACATGGCTAAATGGTGGAACTTGTATCACGGCGTGCACAACAGCTA
*
2671 GCAATGAAAGCAATTAAAGCTTGTCTTTCAGCATGCAAGTT-CAATCAATTTT
66 GCAATGAAAGCAATCAAAGCTTGTCTTTCAGCATGCAAGTTCCAATCAATTTT
*
2723 TATCTCAAATTCTTCTTCTACATGGCTAAATGGTGGAACTTGTATCATGGCGTGCACAACAGCTA
1 TATCTCAAATTCTTCTTCTACATGGCTAAATGGTGGAACTTGTATCACGGCGTGCACAACAGCTA
2788 GCAATGAAAGCAATCAAAGCTTGTCTTTCAGCATGCAAGTTCCAATCAATTTT
66 GCAATGAAAGCAATCAAAGCTTGTCTTTCAGCATGCAAGTTCCAATCAATTTT
2841 T
1 T
2842 TGAACTTGAT
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
117 103 0.90
118 12 0.10
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (118 bp):
TATCTCAAATTCTTCTTCTACATGGCTAAATGGTGGAACTTGTATCACGGCGTGCACAACAGCTA
GCAATGAAAGCAATCAAAGCTTGTCTTTCAGCATGCAAGTTCCAATCAATTTT
Found at i:5491 original size:10 final size:10
Alignment explanation
Indices: 5478--5505 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
5468 ATAAAGGCCA
5478 GGAAAGGATG
1 GGAAAGGATG
5488 GGAAAGGATG
1 GGAAAGGATG
5498 GGAAAGGA
1 GGAAAGGA
5506 AGGACTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.50, T:0.07
Consensus pattern (10 bp):
GGAAAGGATG
Found at i:6702 original size:6 final size:6
Alignment explanation
Indices: 6675--6744 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
6665 TCGTTTGGCA
* *
6675 TTGTTT TCGTTTT TCTGTTT TT-TGTT TTGTTT TTG-TT TTGCTT TTG-TT
1 TTGTTT TTG-TTT T-TGTTT TTGT-TT TTGTTT TTGTTT TTGTTT TTGTTT
*
6723 TTGCTT TTG-TT TTGTTT TTGTT
1 TTGTTT TTGTTT TTGTTT TTGTT
6745 ACGCTGTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
5 16 0.29
6 29 0.53
7 9 0.16
8 1 0.02
ACGTcount: A:0.00, C:0.06, G:0.17, T:0.77
Consensus pattern (6 bp):
TTGTTT
Found at i:6704 original size:5 final size:5
Alignment explanation
Indices: 6694--6740 Score: 67
Period size: 5 Copynumber: 8.8 Consensus size: 5
6684 TTTTTCTGTT
6694 TTTTG TTTTG TTTTTG TTTTG CTTTTG TTTTG CTTTTG TTTTG TTTT
1 TTTTG TTTTG -TTTTG TTTTG -TTTTG TTTTG -TTTTG TTTTG TTTT
6741 TGTTACGCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 24 0.62
6 15 0.38
ACGTcount: A:0.00, C:0.04, G:0.17, T:0.79
Consensus pattern (5 bp):
TTTTG
Found at i:6709 original size:11 final size:11
Alignment explanation
Indices: 6693--6744 Score: 86
Period size: 11 Copynumber: 4.7 Consensus size: 11
6683 GTTTTTCTGT
6693 TTTTTGTTTTG
1 TTTTTGTTTTG
6704 TTTTTGTTTTG
1 TTTTTGTTTTG
*
6715 CTTTTGTTTTG
1 TTTTTGTTTTG
*
6726 CTTTTGTTTTG
1 TTTTTGTTTTG
6737 TTTTTGTT
1 TTTTTGTT
6745 ACGCTGTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.00, C:0.04, G:0.17, T:0.79
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:9827 original size:30 final size:30
Alignment explanation
Indices: 9793--9854 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
9783 ATTTTTATCT
*
9793 TGACTTTCCTCTTATACCCTCAAATTTTAA
1 TGACTTTCCTCTGATACCCTCAAATTTTAA
* *
9823 TGACTTTTCTCTGATATCCTCAAATTTTAA
1 TGACTTTCCTCTGATACCCTCAAATTTTAA
9853 TG
1 TG
9855 GCTTATTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (30 bp):
TGACTTTCCTCTGATACCCTCAAATTTTAA
Found at i:13961 original size:154 final size:154
Alignment explanation
Indices: 13460--15630 Score: 3639
Period size: 154 Copynumber: 14.1 Consensus size: 154
13450 TGAGCACCTT
* *
13460 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATAATTTTTGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
*
13525 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTG
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
*
13590 ACGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
*
13614 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
13679 CCACTGTGAAGTTTTTATCTCATTTGGAACACTT-TTATTTTGGGCCTATCGTGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
13743 CCGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* *
13767 GCAACCATCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGACTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* * *
13832 CCACTGTGAAGTTTTTAACTCATTGGGAACACTTGTTATTTTGGGCCTATCGGGGCCTATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
13897 CCGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
13921 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
*
13986 CCACTGTGAAGATTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
14051 CCGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* * * *
14075 GCAAACCTCAATGCTTTTTTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTGAGAGTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
14140 CCACTGTGAAG-TTTTAGCTCATTTGGAATACTTGTTATTTTGGGCCTATCGGGTCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
* *
14204 CTGTTTTGAATCATCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* * *
14228 ACAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* * *
14293 CCAATGTGAAGTTTTTAGCTCATTTGGAATACTTGTTATTTTAGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
*
14358 TCGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* * *
14382 GAAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTGAGATGAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
14447 CCACTATGAAGTTTTTACCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
14512 CCGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* **
14536 GCAACCCTCAATGCATTTCTTTCCATTGTACATGGCCTAACTATAATCA-TTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* * *
14600 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTCTTTTCGGCCTATCGGGGCCCATTATTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
* *
14665 TCGTTTTGAATCGTCTTCAATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* * *
14689 GCAACCATCAATGCTTTTCGTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
14754 CCACTGTGAAGTTTTTAGCTCGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTG
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
* * *
14819 ACATTTTGAATTGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
14843 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
14908 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTTTATTTTGGGCCTATCGGGGCCCATTACTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
14973 CCGTTTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* *
14997 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATACTCATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* * * *
15062 CCACTGTGAAATTTATAGCTC-TTTGGGAACCCTTTTTATTTTGGGCCTATCGGGGCCCATTAGT
66 CCACTGTGAAGTTTTTAGCTCATTT-GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGT
15126 TCCGTTTTGAATCGTCTTCGATTTG
130 TCCGTTTTGAATCGTCTTCGATTTG
15151 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
15216 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
** *
15281 CTATTTTAAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
* * * *
15305 GCAAACCTCAATACTTTTCTTTCCATTGTTTATGGCCTAATTATAATCATTTTGTTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
*
15370 CCACTGTGAAGTTTTTAGCTCCTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
*
15435 CCGATTTGAATCGTCTTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
*
15459 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATAATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* * * *
15524 CCACTATAAATTTTTTAGCTCATTTGGAACACTTTTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
* *
15589 CCGATTTGAATCGTATTCGATTTG
131 CCGTTTTGAATCGTCTTCGATTTG
*
15613 GCAAACCTCAATGCTTTT
1 GCAACCCTCAATGCTTTT
15631 GATGTGCTAA
Statistics
Matches: 1891, Mismatches: 121, Indels: 10
0.94 0.06 0.00
Matches are distributed among these distances:
153 432 0.23
154 1456 0.77
155 3 0.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (154 bp):
GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
CCGTTTTGAATCGTCTTCGATTTG
Found at i:14329 original size:461 final size:461
Alignment explanation
Indices: 13460--15630 Score: 3614
Period size: 461 Copynumber: 4.7 Consensus size: 461
13450 TGAGCACCTT
* *
13460 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATAATTTTTGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
*
13525 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTG
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
*
13590 ACGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
131 CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
* *
13655 TATAATCATTTTGTTGAGATTAGTCCACTGTGAAGTTTTTATCTCATTTGGAACACTT-TTATTT
196 TATAATCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGCTCATTTGGAACACTTGTTATTT
*
13719 TGGGCCTATCGTGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGC-AACCATCAATGCTT
260 TGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACC-TCAATGCTT
*
13783 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGACTAGTCCACTGTGAAGTTTTT
324 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
* * * *
13848 AACTCATTGGGAACACTTGTTATTTTGGGCCTATCGGGGCCTATTAGTTCCGTTTTGAATCGTCT
389 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCGTCT
13913 TCGATTTG
454 TCGATTTG
13921 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
*
13986 CCACTGTGAAGATTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
* *
14051 CCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATGGCCTAAC
131 CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
* * *
14116 TATAATCATTTTGTTGAGAGTAGTCCACTGTGAAGTTTTAGCTCATTTGGAATACTTGTTATTTT
196 TATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTAGCTCATTTGGAACACTTGTTATTTT
* * * *
14181 GGGCCTATCGGGTCCCATTAGTTCTGTTTTGAATCATCTTCGATTTGACAAACCTCAATGCTTTT
261 GGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
* *
14246 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTGAGATTAGTCCAATGTGAAGTTTTTAG
326 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * *
14311 CTCATTTGGAATACTTGTTATTTTAGGCCTATCGGGGCCCATTAGTTTCGTTTTGAATCGTCTTC
391 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCGTCTTC
14376 GATTTG
456 GATTTG
* * *
14382 GAAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTGAGATGAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
14447 CCACTATGAAGTTTTTACCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
* **
14512 CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCATTTCTTTCCATTGTACATGGCCTAAC
131 CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
*
14577 TATAATCA-TTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTCTTT
196 TATAATCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGCTCATTTGGAACACTTGTTATTT
* * * *
14641 TCGGCCTATCGGGGCCCATTATTTTCGTTTTGAATCGTCTTCAATTTGGC-AACCATCAATGCTT
260 TGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACC-TCAATGCTT
* *
14705 TTCGTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGAAGTTTTT
324 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
* ** *
14770 AGCTCGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACATTTTGAATTGTCT
389 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCGTCT
14835 TCGATTTG
454 TCGATTTG
14843 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
* *
14908 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTTTATTTTGGGCCTATCGGGGCCCATTACTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
*
14973 CCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
131 CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
* * * *
15038 TATACTCATTTTGGTGAGATTAGTCCACTGTGAAATTTATAGCTC-TTTGGGAACCCTTTTTATT
196 TATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTT-TAGCTCATTT-GGAACACTTGTTATT
*
15102 TTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTT
259 TTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTT
15167 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
324 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
* *
15232 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCTATTTTAAATCGTCT
389 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCGTCT
15297 TCGATTTG
454 TCGATTTG
* * * *
15305 GCAAACCTCAATACTTTTCTTTCCATTGTTTATGGCCTAATTATAATCATTTTGTTGAGATTAGT
1 GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
*
15370 CCACTGTGAAGTTTTTAGCTCCTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
66 CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
*
15435 CCGATTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
131 CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
* * * * *
15500 TATAATAATTTTGGTGAGATTAGTCCACTATAAATTTTTTAGCTCATTTGGAACACTTTTTATTT
196 TATAATCATTTTGGTGAGATTAGTCCACTGTGAA-GTTTTAGCTCATTTGGAACACTTGTTATTT
* *
15565 TGGGCCTATCGGGGCCCATTAGTTCCGATTTGAATCGTATTCGATTTGGCAAACCTCAATGCTTT
260 TGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTT
15630 T
325 T
15631 GATGTGCTAA
Statistics
Matches: 1595, Mismatches: 105, Indels: 19
0.93 0.06 0.01
Matches are distributed among these distances:
460 48 0.03
461 1005 0.63
462 533 0.33
463 9 0.01
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (461 bp):
GCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
CCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTT
CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAAC
TATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTAGCTCATTTGGAACACTTGTTATTTT
GGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCGTCTTC
GATTTG
Found at i:16623 original size:9 final size:9
Alignment explanation
Indices: 16609--16637 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
16599 TCATCAAGTT
16609 TCTCATCCA
1 TCTCATCCA
16618 TCTCATCCA
1 TCTCATCCA
16627 TCTCATCCA
1 TCTCATCCA
16636 TC
1 TC
16638 AAAGTGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (9 bp):
TCTCATCCA
Done.