Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016395.1 Corchorus capsularis cultivar CVL-1 contig16416, 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: 10420
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Found at i:75 original size:26 final size:26
Alignment explanation
Indices: 46--132 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 26
36 AAAAAGGGGC
*
46 AATCAGTAATTAAGTAAAAAGAGATT
1 AATCAGTAGTTAAGTAAAAAGAGATT
* *
72 AATCAG-AGTTAAGGTAATAGTAATCAG-TA
1 AATCAGTAGTTAA-GTAA-A--AA-GAGATT
*
101 AATCAGTAGTTAAGTAAGAAGAGATT
1 AATCAGTAGTTAAGTAAAAAGAGATT
127 AATCAG
1 AATCAG
133 AGTCAAGGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
25 7 0.15
26 19 0.40
27 1 0.02
29 13 0.27
30 8 0.17
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (26 bp):
AATCAGTAGTTAAGTAAAAAGAGATT
Found at i:143 original size:26 final size:26
Alignment explanation
Indices: 46--143 Score: 76
Period size: 26 Copynumber: 3.7 Consensus size: 26
36 AAAAAGGGGC
* *
46 AATCAGTAATTAA-GTAAAAAGAGATT
1 AATCAG-AGTTAAGGTAAGAAGAGATT
* *
72 AATCAGAGTTAAGGTAATAGTAATCAG-TA
1 AATCAGAGTTAAGGT-A-AG-AA-GAGATT
101 AATCAGTAGTTAA-GTAAGAAGAGATT
1 AATCAG-AGTTAAGGTAAGAAGAGATT
*
127 AATCAGAGTCAAGGTAA
1 AATCAGAGTTAAGGTAA
144 TATTAAAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
25 12 0.21
26 21 0.37
27 3 0.05
28 2 0.04
29 11 0.19
30 8 0.14
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (26 bp):
AATCAGAGTTAAGGTAAGAAGAGATT
Found at i:161 original size:66 final size:65
Alignment explanation
Indices: 80--238 Score: 228
Period size: 66 Copynumber: 2.4 Consensus size: 65
70 TTAATCAGAG
* *
80 TTAAGGTAATAGTAATCAGTAAATCAGTAGTTAAGTAAGAAGAGATTAATCAGAGTCAAGGTAAT
1 TTAAAGTAATAGTAATCAGTAAATCAGTAATTAAGTAA-AAGAGATTAATCAGAGTCAAGGTAAT
145 A
65 A
*
146 TTAAAGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAGAGATTAATCAGAGTCAATGTAATA
1 TTAAAGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAGAGATTAATCAGAGTCAAGGTAATA
*
211 GTAATCAGTAAATCAGTAATCAAGTAAA
1 TTAA--AGT-AAT-AGTAATC-AGTAAA
239 AAGATAGTAA
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
65 29 0.35
66 36 0.43
67 3 0.04
68 3 0.04
69 7 0.08
70 6 0.07
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (65 bp):
TTAAAGTAATAGTAATCAGTAAATCAGTAATTAAGTAAAAGAGATTAATCAGAGTCAAGGTAATA
Found at i:209 original size:33 final size:33
Alignment explanation
Indices: 110--209 Score: 77
Period size: 35 Copynumber: 3.0 Consensus size: 33
100 AAATCAGTAG
*
110 TTAAGTAAGAAGAGATTAATCAGAGTCAAGGTAA
1 TTAAGTAA-AAGAGATTAATCAGAGTCAATGTAA
* *
144 -T-A-TTAAAGTA-ATAGTAATC--AGTAAATCAGTAA
1 TTAAGTAAAAG-AGAT--TAATCAGAGTCAAT--GTAA
176 TTAAGTAAAAGAGATTAATCAGAGTCAATGTAA
1 TTAAGTAAAAGAGATTAATCAGAGTCAATGTAA
209 T
1 T
210 AGTAATCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 23
0.64 0.06 0.29
Matches are distributed among these distances:
30 10 0.20
31 3 0.06
32 10 0.20
33 12 0.24
34 2 0.04
35 13 0.26
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (33 bp):
TTAAGTAAAAGAGATTAATCAGAGTCAATGTAA
Found at i:237 original size:29 final size:29
Alignment explanation
Indices: 149--237 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
139 GGTAATATTA
*
149 AAGTAATAGTAATCAGTAAATCAGTAATT
1 AAGTAATAGTAATCAGTAAATCAGTAATC
* *
178 AAGTAAAAG-AGAT---T-AATCAG-AGTC
1 AAGTAATAGTA-ATCAGTAAATCAGTAATC
202 AATGTAATAGTAATCAGTAAATCAGTAATC
1 AA-GTAATAGTAATCAGTAAATCAGTAATC
232 AAGTAA
1 AAGTAA
238 AAAGATAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
24 4 0.09
25 14 0.30
26 2 0.04
28 2 0.04
29 20 0.43
30 5 0.11
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (29 bp):
AAGTAATAGTAATCAGTAAATCAGTAATC
Found at i:272 original size:71 final size:70
Alignment explanation
Indices: 196--347 Score: 166
Period size: 71 Copynumber: 2.1 Consensus size: 70
186 GAGATTAATC
* * *
196 AGAGTCAATGTAATAG-TAATCAGTAAATCAGTAATCAAG-TAAAAAGATAGTAATCAGTAAAT-
1 AGAGTCAATGAAAGAGATAATCAGTAAATAAG-AATCAAGAT-AAAA-ATAGTAATCAGTAAATC
*
258 TGATAATTA
63 AG-TAATTA
* * *
267 AGAGTCAAGGAAAGAGATTAATCAGTAATTAAGAGTCAAGATAAAAATAGTAATCAGTAAATCAG
1 AGAGTCAATGAAAGAGA-TAATCAGTAAATAAGAATCAAGATAAAAATAGTAATCAGTAAATCAG
332 TAATTA
65 TAATTA
*
338 AAAGTCAATG
1 AGAGTCAATG
348 GATTAAATCG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
71 43 0.63
72 11 0.16
73 14 0.21
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (70 bp):
AGAGTCAATGAAAGAGATAATCAGTAAATAAGAATCAAGATAAAAATAGTAATCAGTAAATCAGT
AATTA
Found at i:326 original size:32 final size:31
Alignment explanation
Indices: 261--326 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
251 AGTAAATTGA
* *
261 TAATTAAGAGTCAAGGAAAGAGATTAATCAG
1 TAATTAAGAGTCAAGGAAAAAGAGTAATCAG
* *
292 TAATTAAGAGTCAAGATAAAAATAGTAATCAG
1 TAATTAAGAGTCAAG-GAAAAAGAGTAATCAG
324 TAA
1 TAA
327 ATCAGTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (31 bp):
TAATTAAGAGTCAAGGAAAAAGAGTAATCAG
Found at i:551 original size:51 final size:50
Alignment explanation
Indices: 437--535 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 50
427 AAATTCAAGT
* * *
437 GAGTAATCAGTAAA-GGAAAAATGGTAAAGAGTAAAGAATAATCAGTAAG
1 GAGTAATTAGTAAAGGGAAAAATGATAAAAAGTAAAGAATAATCAGTAAG
*
486 GAGTAATTAGTAAAGGGAAAAATGATAAAAAAGTAAAGAGTAATCAGTAA
1 GAGTAATTAGTAAAGGGAAAAATGAT-AAAAAGTAAAGAATAATCAGTAA
536 AGGAAGAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 13 0.30
50 10 0.23
51 21 0.48
ACGTcount: A:0.55, C:0.03, G:0.23, T:0.19
Consensus pattern (50 bp):
GAGTAATTAGTAAAGGGAAAAATGATAAAAAGTAAAGAATAATCAGTAAG
Found at i:564 original size:35 final size:37
Alignment explanation
Indices: 483--571 Score: 110
Period size: 35 Copynumber: 2.4 Consensus size: 37
473 AATAATCAGT
*
483 AAGGAGTAATTAGTAAAGGGAAAAATGATAAAAAAGTA
1 AAGG-GTAATCAGTAAAGGGAAAAATGATAAAAAAGTA
* * * *
521 AAGAGTAATCAGTAAA-GGAAGAATGGT-AAAGAGTA
1 AAGGGTAATCAGTAAAGGGAAAAATGATAAAAAAGTA
556 AAGGGTAATCAGTAAA
1 AAGGGTAATCAGTAAA
572 AAGTAAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 22 0.49
36 9 0.20
37 11 0.24
38 3 0.07
ACGTcount: A:0.54, C:0.02, G:0.26, T:0.18
Consensus pattern (37 bp):
AAGGGTAATCAGTAAAGGGAAAAATGATAAAAAAGTA
Found at i:589 original size:22 final size:23
Alignment explanation
Indices: 561--664 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 23
551 GAGTAAAGGG
561 TAATCAGT-AAAAAGTAAAAAGA
1 TAATCAGTAAAAAAGTAAAAAGA
* *
583 TAATCAGTAAAGAATGAAATAGTAAAAGG
1 TAATCAGT-AA-AA--AAGTA--AAAAGA
* *
612 TAATCAATAAAAAAGT--AATGA
1 TAATCAGTAAAAAAGTAAAAAGA
*
633 TAATCAGT-AAAAGGTAAAATAG-
1 TAATCAGTAAAAAAGTAAAA-AGA
655 TAATCAGTAA
1 TAATCAGTAA
665 GAGCAAAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 21
0.67 0.10 0.23
Matches are distributed among these distances:
20 6 0.10
21 10 0.16
22 18 0.29
23 2 0.03
24 1 0.02
25 5 0.08
27 6 0.10
28 2 0.03
29 12 0.19
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.22
Consensus pattern (23 bp):
TAATCAGTAAAAAAGTAAAAAGA
Found at i:655 original size:50 final size:50
Alignment explanation
Indices: 552--657 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
542 AATGGTAAAG
* * *
552 AGTAAAGGGTAATCAGTAAAAAGTAAAAAGATAATCAGTAAAGAATGAAAT
1 AGTAAAAGGTAATCAATAAAAAGT-AAAAGATAATCAGTAAAGAATAAAAT
* *
603 AGTAAAAGGTAATCAATAAAAAAGT-AATGATAATCAGTAAA-AGGTAAAAT
1 AGTAAAAGGTAATCAAT-AAAAAGTAAAAGATAATCAGTAAAGA-ATAAAAT
653 AGTAA
1 AGTAA
658 TCAGTAAGAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 25 0.52
51 15 0.31
52 7 0.15
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.21
Consensus pattern (50 bp):
AGTAAAAGGTAATCAATAAAAAGTAAAAGATAATCAGTAAAGAATAAAAT
Found at i:680 original size:64 final size:63
Alignment explanation
Indices: 606--725 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 63
596 ATGAAATAGT
606 AAAAGGTAATCAAT-A-AAAAAGTAATGATAATCAGTAAA-AGGTAAAATAGTAATCAGTAAGAG
1 AAAAGGTAATCAATGAGAAAAA--AATGATAATCAGTAAAGA-GTAAAATAGTAATCAGTAAGAG
668 C
63 C
** * *
669 AAAATGGTAATCAATGAGAGCAAAATGGTAATTAGTAAAGAGTAAAATAGTAATCAG
1 AAAA-GGTAATCAATGAGAAAAAAATGATAATCAGTAAAGAGTAAAATAGTAATCAG
726 CAAAAGGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
63 4 0.08
64 40 0.82
65 2 0.04
66 3 0.06
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (63 bp):
AAAAGGTAATCAATGAGAAAAAAATGATAATCAGTAAAGAGTAAAATAGTAATCAGTAAGAGC
Found at i:715 original size:22 final size:21
Alignment explanation
Indices: 628--897 Score: 109
Period size: 21 Copynumber: 13.7 Consensus size: 21
618 ATAAAAAAGT
* * *
628 AATGATAATCAGTAAAAGGTAA
1 AATGGTAATCAGTAAGA-GCAA
*
650 AATAGTAATCAGTAAGAGCAA
1 AATGGTAATCAGTAAGAGCAA
* *
671 AATGGTAATCAATGAGAGCAA
1 AATGGTAATCAGTAAGAGCAA
* *
692 AATGGTAATTAGTAAAGAGTAA
1 AATGGTAATCAGT-AAGAGCAA
*
714 AATAGTAATC------AGCAA
1 AATGGTAATCAGTAAGAGCAA
*
729 AA-GGTAATCAGTAAGAGTAA
1 AATGGTAATCAGTAAGAGCAA
*
749 AATAGTAATCAGT---AG---
1 AATGGTAATCAGTAAGAGCAA
*
764 AA-GGTAATCAGTAAAGAGTAA
1 AATGGTAATCAGT-AAGAGCAA
*
785 AATAGTAATCAGT------AA
1 AATGGTAATCAGTAAGAGCAA
* *
800 AA-GATAATCAGTAAGAGTAA
1 AATGGTAATCAGTAAGAGCAA
** * *
820 AACAGTAACCAGTGAGAGCAA
1 AATGGTAATCAGTAAGAGCAA
* * *
841 AGTGGTAATTAGTATGAGTC-A
1 AATGGTAATCAGTAAGAG-CAA
* *
862 AATAGTAATCAGTAAAGAGTAA
1 AATGGTAATCAGT-AAGAGCAA
*
884 AA-GGTGATCAGTAA
1 AATGGTAATCAGTAA
898 TTCAAAGAGT
Statistics
Matches: 182, Mismatches: 40, Indels: 54
0.66 0.14 0.20
Matches are distributed among these distances:
14 23 0.13
15 12 0.07
18 4 0.02
20 12 0.07
21 86 0.47
22 45 0.25
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (21 bp):
AATGGTAATCAGTAAGAGCAA
Found at i:751 original size:35 final size:36
Alignment explanation
Indices: 687--827 Score: 205
Period size: 35 Copynumber: 3.9 Consensus size: 36
677 AATCAATGAG
*
687 AGCAAAATGGTAATTAGTAAAGAGTAAAATAGTAATC
1 AGCAAAA-GGTAATCAGTAAAGAGTAAAATAGTAATC
724 AGCAAAAGGTAATCAGT-AAGAGTAAAATAGTAATC
1 AGCAAAAGGTAATCAGTAAAGAGTAAAATAGTAATC
* *
759 AGTAGAAGGTAATCAGTAAAGAGTAAAATAGTAATC
1 AGCAAAAGGTAATCAGTAAAGAGTAAAATAGTAATC
* * *
795 AGTAAAAGATAATCAGT-AAGAGTAAAACAGTAA
1 AGCAAAAGGTAATCAGTAAAGAGTAAAATAGTAA
828 CCAGTGAGAG
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
35 48 0.49
36 42 0.43
37 7 0.07
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.21
Consensus pattern (36 bp):
AGCAAAAGGTAATCAGTAAAGAGTAAAATAGTAATC
Found at i:778 original size:71 final size:71
Alignment explanation
Indices: 695--832 Score: 231
Period size: 71 Copynumber: 1.9 Consensus size: 71
685 AGAGCAAAAT
* * * *
695 GGTAATTAGTAAAGAGTAAAATAGTAATCAGCAAAAGGTAATCAGTAAGAGTAAAATAGTAATCA
1 GGTAATCAGTAAAGAGTAAAATAGTAATCAGCAAAAGATAATCAGTAAGAGTAAAACAGTAACCA
760 GTAGAA
66 GTAGAA
*
766 GGTAATCAGTAAAGAGTAAAATAGTAATCAGTAAAAGATAATCAGTAAGAGTAAAACAGTAACCA
1 GGTAATCAGTAAAGAGTAAAATAGTAATCAGCAAAAGATAATCAGTAAGAGTAAAACAGTAACCA
831 GT
66 GT
833 GAGAGCAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (71 bp):
GGTAATCAGTAAAGAGTAAAATAGTAATCAGCAAAAGATAATCAGTAAGAGTAAAACAGTAACCA
GTAGAA
Found at i:784 original size:14 final size:15
Alignment explanation
Indices: 752--784 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
742 AGAGTAAAAT
752 AGTAATCAGTAGAAG
1 AGTAATCAGTAGAAG
767 -GTAATCAGTA-AAG
1 AGTAATCAGTAGAAG
780 AGTAA
1 AGTAA
785 AATAGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.21
Consensus pattern (15 bp):
AGTAATCAGTAGAAG
Found at i:793 original size:57 final size:57
Alignment explanation
Indices: 653--883 Score: 190
Period size: 57 Copynumber: 4.1 Consensus size: 57
643 AAGGTAAAAT
* * * *
653 AGTAATCAGT-AAGAGCAAAATGGTAATCAATGAGAGCAAAATGGTAATTAGTAAAG
1 AGTAATCAGTAAAGAGCAAAATGGTAATCAGTAAGAGCAAAATAGTAATCAGTAAAG
** *
709 AGTAAAAT-AGTAATCAGCAAAA-GGTAATCAGTAAGAGTAAAATAGTAATCAGTAGAAG
1 AGT--AATCAGTAAAGAGCAAAATGGTAATCAGTAAGAGCAAAATAGTAATCAGTA-AAG
* * * * * *
767 -GTAATCAGTAAAGAGTAAAATAGTAATCAGTAAAAG-ATAATCAGTAA-GAGTAAAAC
1 AGTAATCAGTAAAGAGCAAAATGGTAATCAGTAAGAGCAAAAT-AGTAATCAGT-AAAG
* * * * *
823 AGTAACCAGT-GAGAGCAAAGTGGTAATTAGTATGAGTC-AAATAGTAATCAGTAAAG
1 AGTAATCAGTAAAGAGCAAAATGGTAATCAGTAAGAG-CAAAATAGTAATCAGTAAAG
879 AGTAA
1 AGTAA
884 AAGGTGATCA
Statistics
Matches: 137, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
55 3 0.02
56 55 0.40
57 65 0.47
58 14 0.10
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (57 bp):
AGTAATCAGTAAAGAGCAAAATGGTAATCAGTAAGAGCAAAATAGTAATCAGTAAAG
Found at i:809 original size:14 final size:15
Alignment explanation
Indices: 780--813 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
770 ATCAGTAAAG
*
780 AGTAAAATAGTAATC
1 AGTAAAAGAGTAATC
795 AGTAAAAGA-TAATC
1 AGTAAAAGAGTAATC
809 AGTAA
1 AGTAA
814 GAGTAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (15 bp):
AGTAAAAGAGTAATC
Found at i:975 original size:13 final size:13
Alignment explanation
Indices: 959--1005 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
949 GGTAATAAAT
959 AAAAGAGAGTAAG
1 AAAAGAGAGTAAG
* *
972 AAAAGAGTAATTAG
1 AAAAGAG-AGTAAG
986 TAAAA-AGAGTAAG
1 -AAAAGAGAGTAAG
999 AAAAGAG
1 AAAAGAG
1006 TAAAAATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.15
13 13 0.48
14 6 0.22
15 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.13
Consensus pattern (13 bp):
AAAAGAGAGTAAG
Found at i:975 original size:29 final size:28
Alignment explanation
Indices: 950--1012 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
940 GTAAAAAGTG
950 GTAATAAATAAAAGAGAGTAAGAAAAGA
1 GTAATAAATAAAAGAGAGTAAGAAAAGA
* *
978 GTAATTAGTAAAA-AGAGTAAGAAAAGA
1 GTAATAAATAAAAGAGAGTAAGAAAAGA
1005 GTAA-AAAT
1 GTAATAAAT
1013 GATAAAAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 18 0.58
28 11 0.35
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (28 bp):
GTAATAAATAAAAGAGAGTAAGAAAAGA
Found at i:2256 original size:13 final size:13
Alignment explanation
Indices: 2238--2268 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2228 ATCTAACTAT
2238 TTCCTTTGTTTTC
1 TTCCTTTGTTTTC
2251 TTCCTTTGTTTTC
1 TTCCTTTGTTTTC
2264 -TCCTT
1 TTCCTT
2269 CTTTCTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.68
Consensus pattern (13 bp):
TTCCTTTGTTTTC
Done.