Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003846.1 Hibiscus syriacus cultivar Beakdansim tig00008252_pilon, 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: 85607
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:855 original size:24 final size:24
Alignment explanation
Indices: 823--874 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
813 TAGTGTTTGG
*
823 TGTTTAGTGGACTAATTGGTGGTC
1 TGTTTAGTGGACTAATTGGTGGAC
*
847 TGTTTAGTGGACTTATTGGTGGAC
1 TGTTTAGTGGACTAATTGGTGGAC
871 TGTT
1 TGTT
875 CGCTAAGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.15, C:0.08, G:0.33, T:0.44
Consensus pattern (24 bp):
TGTTTAGTGGACTAATTGGTGGAC
Found at i:2736 original size:29 final size:29
Alignment explanation
Indices: 2693--2760 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
2683 ACCGTTGACC
*
2693 AGGTGTTATTCTGGTAATTATTTGGAAAA
1 AGGTGCTATTCTGGTAATTATTTGGAAAA
* *
2722 GGGTGCTATTCTGGTAATTATTTTGAAAA
1 AGGTGCTATTCTGGTAATTATTTGGAAAA
2751 AGGTGCTATT
1 AGGTGCTATT
2761 TTCATAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (29 bp):
AGGTGCTATTCTGGTAATTATTTGGAAAA
Found at i:2768 original size:29 final size:29
Alignment explanation
Indices: 2693--2769 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
2683 ACCGTTGACC
* **
2693 AGGTGTTATTCTGGTAATTATTTGGAAAA
1 AGGTGCTATTCTCATAATTATTTGGAAAA
* ** *
2722 GGGTGCTATTCTGGTAATTATTTTGAAAA
1 AGGTGCTATTCTCATAATTATTTGGAAAA
*
2751 AGGTGCTATTTTCATAATT
1 AGGTGCTATTCTCATAATT
2770 TAAAAAAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (29 bp):
AGGTGCTATTCTCATAATTATTTGGAAAA
Found at i:2834 original size:29 final size:29
Alignment explanation
Indices: 2788--2870 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
2778 ACGTAATTTT
* *
2788 TTTTAAAAA-AATGTTATTTTAGTAATTA
1 TTTTAAAAATGATGATATTTTAGTAATTA
* * * *
2816 TTTTGAAAATGGTGATATTTTGGTAATTG
1 TTTTAAAAATGATGATATTTTAGTAATTA
* *
2845 TTTTAAAAATGATGCTATTTTCGTAA
1 TTTTAAAAATGATGATATTTTAGTAA
2871 AATGGTTGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 8 0.18
29 36 0.82
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.48
Consensus pattern (29 bp):
TTTTAAAAATGATGATATTTTAGTAATTA
Found at i:7630 original size:13 final size:14
Alignment explanation
Indices: 7614--7666 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
7604 CAAAGTCAAG
7614 GGTTGACTCGGA-C
1 GGTTGACTCGGATC
*
7627 GGTTGACTCGGATG
1 GGTTGACTCGGATC
* *
7641 GGTAGACTTGGATC
1 GGTTGACTCGGATC
7655 GAGTTGACTCGG
1 G-GTTGACTCGG
7667 TGACTGGGCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 12 0.38
14 12 0.38
15 8 0.25
ACGTcount: A:0.17, C:0.17, G:0.40, T:0.26
Consensus pattern (14 bp):
GGTTGACTCGGATC
Found at i:11635 original size:18 final size:19
Alignment explanation
Indices: 11612--11653 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11602 TAAGCATATG
*
11612 ATAAATAAAAT-AAATGGA
1 ATAAATAAAATAAAATGAA
*
11630 ATAAATAAATTAAAATGAA
1 ATAAATAAAATAAAATGAA
11649 ATAAA
1 ATAAA
11654 GTTTTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
ATAAATAAAATAAAATGAA
Found at i:17617 original size:24 final size:25
Alignment explanation
Indices: 17583--17643 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
17573 AGCATATTTG
17583 AAAAT-AAAACTT-AAAA-ATAAAGA
1 AAAATGAAAACTTGAAAAGA-AAAGA
17606 AAAATGAAAACTTGAAAAGAAAAGA
1 AAAATGAAAACTTGAAAAGAAAAGA
17631 AAAGA-GAAAACTT
1 AAA-ATGAAAACTT
17644 TATAAAACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.15
24 7 0.21
25 20 0.59
26 2 0.06
ACGTcount: A:0.69, C:0.05, G:0.11, T:0.15
Consensus pattern (25 bp):
AAAATGAAAACTTGAAAAGAAAAGA
Found at i:19571 original size:3 final size:3
Alignment explanation
Indices: 19565--19595 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19555 AATAATAATA
19565 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
19596 ACTACATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20395 original size:21 final size:22
Alignment explanation
Indices: 20369--20409 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20359 AATAGCGATC
20369 AATGACATAAACTAT-AAATCA
1 AATGACATAAACTATGAAATCA
* *
20390 AATGACTTAATCTATGAAAT
1 AATGACATAAACTATGAAAT
20410 TTACTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (22 bp):
AATGACATAAACTATGAAATCA
Found at i:24555 original size:17 final size:18
Alignment explanation
Indices: 24528--24571 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
24518 AGCATATTTG
24528 AAAAT-AAAACTT-AAAA
1 AAAATGAAAACTTGAAAA
24544 AAAATGAAAACTTGAAAA
1 AAAATGAAAACTTGAAAA
*
24562 AAAAAGAAAA
1 AAAATGAAAA
24572 GAGAAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.20
17 7 0.28
18 13 0.52
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (18 bp):
AAAATGAAAACTTGAAAA
Found at i:24722 original size:20 final size:22
Alignment explanation
Indices: 24672--24724 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
24662 ATAGCCTTCA
24672 AAATCCTAAAAACAAGGTAAAT
1 AAATCCTAAAAACAAGGTAAAT
24694 ATAATTCCTAAAATA-AA-G-AAAT
1 A-AA-TCCTAAAA-ACAAGGTAAAT
24716 AAATCCTAA
1 AAATCCTAA
24725 TGAAAATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 6 0.21
21 2 0.07
22 6 0.21
23 3 0.11
24 10 0.36
25 1 0.04
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (22 bp):
AAATCCTAAAAACAAGGTAAAT
Found at i:29200 original size:21 final size:22
Alignment explanation
Indices: 29174--29214 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29164 AATAGCGATC
29174 AATGACATAAACTAT-AAATCA
1 AATGACATAAACTATGAAATCA
* *
29195 AATGACTTAATCTATGAAAT
1 AATGACATAAACTATGAAAT
29215 TTACTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (22 bp):
AATGACATAAACTATGAAATCA
Found at i:38069 original size:106 final size:107
Alignment explanation
Indices: 37876--38112 Score: 358
Period size: 106 Copynumber: 2.2 Consensus size: 107
37866 ATTTGAGCCG
* *
37876 CTTTTTAATTAATTTATTTG-ATGT-TTGATTCGACCTTGTGGTGACCCGATCCAAGGTACGATC
1 CTTTTT-ATTAATTTGTTTGAAT-TATTGATTCGACCTTATGGTGACCCGATCCAAGGTACGATC
* * *
37939 CACATTATTATTGTCCAGATTCTATTAACTTCTAATTGTTAATT
64 CACATTATTATGGTCCAGACTCTATTAACTCCTAATTGTTAATT
37983 CTTTTTATTAATTTGTTTGAATTATT-ATTCGACCTTATGGTGACCCGAT-CAAGGCTACGATCC
1 CTTTTTATTAATTTGTTTGAATTATTGATTCGACCTTATGGTGACCCGATCCAAGG-TACGATCC
38046 ACATTATTATGGTCC-GAACTCTATTAACTCCTAATTGTTAATT
65 ACATTATTATGGTCCAG-ACTCTATTAACTCCTAATTGTTAATT
38089 CTTTTTATTAATTTGTTTGAATTA
1 CTTTTTATTAATTTGTTTGAATTA
38113 ATATATGAAC
Statistics
Matches: 121, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
105 6 0.05
106 105 0.87
107 10 0.08
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (107 bp):
CTTTTTATTAATTTGTTTGAATTATTGATTCGACCTTATGGTGACCCGATCCAAGGTACGATCCA
CATTATTATGGTCCAGACTCTATTAACTCCTAATTGTTAATT
Found at i:38186 original size:106 final size:106
Alignment explanation
Indices: 37916--38210 Score: 328
Period size: 106 Copynumber: 2.8 Consensus size: 106
37906 CGACCTTGTG
* * *
37916 GTGACCCGATCCAAGG-TACGATCCACATTATTATTGTCC-AGATTCTATTAACTTCTAATTGTT
1 GTGACCCGAT-CAAGGCTACGATCCACATTATTATGGTCCGA-ACTCTATTAACTACTAATTGTT
* * **
37979 AATTCTTTTTATTAATTTGTTTGAATTATTATTCGACCTTATG
64 AATTCTTTTTATTAATTTGTTTGAATTAATATTCGAACTTACA
*
38022 GTGACCCGATCAAGGCTACGATCCACATTATTATGGTCCGAACTCTATTAACTCCTAATTGTTAA
1 GTGACCCGATCAAGGCTACGATCCACATTATTATGGTCCGAACTCTATTAACTACTAATTGTTAA
*
38087 TTCTTTTTATTAATTTGTTTGAATTAATATAT-GAACTTGCA
66 TTCTTTTTATTAATTTGTTTGAATTAATAT-TCGAACTTACA
** * ** * * * *
38128 GTGACCCGATCCGGGGTACGA-CTCGTATTATTATGGTTCGGACTCTATTAACAACTAATTTTTA
1 GTGACCCGATCAAGGCTACGATC-CACATTATTATGGTCCGAACTCTATTAACTACTAATTGTTA
* *
38192 TTTATCTTTTTATTTATTT
65 -AT-TCTTTTTATTAATTT
38211 ATTTTATGTT
Statistics
Matches: 163, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
105 6 0.04
106 140 0.86
107 3 0.02
108 14 0.09
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (106 bp):
GTGACCCGATCAAGGCTACGATCCACATTATTATGGTCCGAACTCTATTAACTACTAATTGTTAA
TTCTTTTTATTAATTTGTTTGAATTAATATTCGAACTTACA
Found at i:41050 original size:27 final size:27
Alignment explanation
Indices: 40960--41033 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
40950 CTTTAGGTAT
*
40960 TTTGGTCATTTTGGAGTTCAAAGATAA
1 TTTGGTCATTTTGGAGTTCAAGGATAA
* * *
40987 TTTGTTCATTTTGGTGTTTAAGGATAA
1 TTTGGTCATTTTGGAGTTCAAGGATAA
41014 TTTGGTCATTTTGGAGTTCA
1 TTTGGTCATTTTGGAGTTCA
41034 GGGGTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (27 bp):
TTTGGTCATTTTGGAGTTCAAGGATAA
Found at i:41860 original size:19 final size:19
Alignment explanation
Indices: 41832--41869 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41822 GGCATCACTT
* *
41832 GGTTCGACTCAAGTGGCTC
1 GGTTCAACTCAAATGGCTC
41851 GGTTCAACTCAAATGGCTC
1 GGTTCAACTCAAATGGCTC
41870 AGTTTGGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
GGTTCAACTCAAATGGCTC
Found at i:59301 original size:19 final size:18
Alignment explanation
Indices: 59269--59317 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
59259 AATCTCTTTA
*
59269 ATTTGTTTAATTAATTATT
1 ATTT-TTTATTTAATTATT
* *
59288 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
59307 ATTTTTTATTT
1 ATTTTTTATTT
59318 TAAAAACAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 8 0.32
19 16 0.64
20 1 0.04
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:64819 original size:4 final size:5
Alignment explanation
Indices: 64804--64859 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
64794 TTCGTTTTAT
* * * *
64804 TTTCA TTTTA TTT-A TTTCA TTTCA TTTCA TTACA TTACA TTT-A TTTTA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
*
64852 TTTTA TTT
1 TTTCA TTT
64860 TATCAGATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
4 8 0.17
5 38 0.83
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (5 bp):
TTTCA
Found at i:66587 original size:19 final size:19
Alignment explanation
Indices: 66559--66621 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
66549 GGCATTTTAG
*
66559 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
66578 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
66597 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
66618 TTTA
1 TTTA
66622 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:67293 original size:19 final size:19
Alignment explanation
Indices: 67248--67290 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
67238 TTTAATTTGC
*
67248 TTATTTAATTATTTTTCTT
1 TTATTTAATTATTATTCTT
*
67267 TTATTTAATTCTTATT-TT
1 TTATTTAATTATTATTCTT
67285 TTATTT
1 TTATTT
67291 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTAATTATTATTCTT
Found at i:67846 original size:2 final size:2
Alignment explanation
Indices: 67839--67868 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67829 ATGTATAACC
67839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67869 CACGTGTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67900 original size:14 final size:15
Alignment explanation
Indices: 67876--67904 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67866 ATACACGTGT
67876 TGGTCATATAAATGG
1 TGGTCATATAAATGG
67891 TGGT-ATATAAATGG
1 TGGTCATATAAATGG
67905 GTATTTCGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (15 bp):
TGGTCATATAAATGG
Found at i:73208 original size:2 final size:2
Alignment explanation
Indices: 73197--73228 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
73187 TAAAGGCTAT
73197 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73229 AAGCTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73370 original size:34 final size:34
Alignment explanation
Indices: 73322--73390 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
73312 GTTAAGGAAC
73322 ACCTCTTATAGTCAATTTCACACGAGCACTCAAA
1 ACCTCTTATAGTCAATTTCACACGAGCACTCAAA
*
73356 ACCTGTTATAGTCAATTTCACACGAGCACTCAAA
1 ACCTCTTATAGTCAATTTCACACGAGCACTCAAA
73390 A
1 A
73391 ATTTCATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (34 bp):
ACCTCTTATAGTCAATTTCACACGAGCACTCAAA
Found at i:75572 original size:136 final size:135
Alignment explanation
Indices: 75406--75678 Score: 377
Period size: 135 Copynumber: 2.0 Consensus size: 135
75396 AAACAAATTA
* *
75406 TTATCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCATA-TTATTCTCCTTTCAGATTTGGTCTT
1 TTATCGAGTCTAACCTCCCCTAAAGAGTAGCAGAGCA-AGTTATTCTCCTTTCAGATTTGGTCTT
** * * * * * *
75470 CCCTGAAGAGGAGCAAAGCAAATCAAGTTTGATTCAATCTTCCCTGAAGAGTAGTGAAGTGGATC
65 -CCTGAAGAGGAGCAAAGCAAATCAAGTTCAATTCAACCTTCCCTCAAAAGCAGCGAAGTGAATC
75535 AAAAGTT
129 AAAAGTT
* *
75542 TTATCGAGTCTAACCTCCCCTAAAGAGTAGCAGAGCAAGTTCTTCTTCTTTCAGATTTGGTCTTC
1 TTATCGAGTCTAACCTCCCCTAAAGAGTAGCAGAGCAAGTTATTCTCCTTTCAGATTTGGTCTTC
* **
75607 CTGAAGAGTAGTGAAGCAAATCAAGTTCAATTCAACCTTCCCTCAAAAGCAGCGAAGTGAATCAA
66 CTGAAGAGGAGCAAAGCAAATCAAGTTCAATTCAACCTTCCCTCAAAAGCAGCGAAGTGAATCAA
*
75672 AATTT
131 AAGTT
75677 TT
1 TT
75679 GAGATCTAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
135 62 0.52
136 58 0.48
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (135 bp):
TTATCGAGTCTAACCTCCCCTAAAGAGTAGCAGAGCAAGTTATTCTCCTTTCAGATTTGGTCTTC
CTGAAGAGGAGCAAAGCAAATCAAGTTCAATTCAACCTTCCCTCAAAAGCAGCGAAGTGAATCAA
AAGTT
Found at i:78684 original size:15 final size:15
Alignment explanation
Indices: 78664--78697 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
78654 CACATAAATA
78664 TCTTTAAAGAAATTG
1 TCTTTAAAGAAATTG
78679 TCTTTAAAGAAATTG
1 TCTTTAAAGAAATTG
78694 TCTT
1 TCTT
78698 GAATTTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (15 bp):
TCTTTAAAGAAATTG
Done.