Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005580.1 Hibiscus syriacus cultivar Beakdansim tig00012947_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: 98537
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:1046 original size:31 final size:33
Alignment explanation
Indices: 1009--1074 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
999 ATTAGCCCAC
1009 CTTCTTCC-TTTTAACAGATTTTAGCC-ATCTT
1 CTTCTTCCTTTTTAACAGATTTTAGCCTATCTT
*
1040 CTTCTTCCTTTTTAATAGATTTTAGCCTATCTT
1 CTTCTTCCTTTTTAACAGATTTTAGCCTATCTT
1073 CT
1 CT
1075 CGAATAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 8 0.25
32 17 0.53
33 7 0.22
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (33 bp):
CTTCTTCCTTTTTAACAGATTTTAGCCTATCTT
Found at i:6793 original size:15 final size:15
Alignment explanation
Indices: 6770--6799 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6760 ATTACTTGAT
6770 GAGAGGGAGCAGGCC
1 GAGAGGGAGCAGGCC
*
6785 GAGATGGAGCAGGCC
1 GAGAGGGAGCAGGCC
6800 AGAAGCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.20, G:0.50, T:0.03
Consensus pattern (15 bp):
GAGAGGGAGCAGGCC
Found at i:9692 original size:23 final size:23
Alignment explanation
Indices: 9666--9710 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9656 CACCACAGCT
*
9666 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
9689 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
9711 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:11573 original size:21 final size:21
Alignment explanation
Indices: 11531--11575 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11521 TTTTGTTCGT
* * *
11531 TTGAAGGGGTATCGGTTTCCC
1 TTGAAGGGGTACCGATTCCCC
*
11552 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
11573 TTG
1 TTG
11576 CCCATAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:14875 original size:23 final size:23
Alignment explanation
Indices: 14849--14893 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14839 CACCACAGCT
*
14849 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
14872 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
14894 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:15035 original size:25 final size:26
Alignment explanation
Indices: 14999--15049 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
14989 TCCAAAGAAT
14999 ATATATATCCCGAAGGACCGCGTAGA
1 ATATATATCCCGAAGGACCGCGTAGA
15025 ATAT-TATCCCGAAGGACCGCGTAGA
1 ATATATATCCCGAAGGACCGCGTAGA
15050 CCCTCTACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (26 bp):
ATATATATCCCGAAGGACCGCGTAGA
Found at i:16738 original size:21 final size:21
Alignment explanation
Indices: 16714--16758 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16704 TTTTGTTCGT
* *
16714 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
16735 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
16756 TTG
1 TTG
16759 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:25488 original size:14 final size:14
Alignment explanation
Indices: 25458--25487 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
25448 TGTGCCCCTC
25458 TTAATTTTATATTT
1 TTAATTTTATATTT
25472 TTAATATTTATATTT
1 TTAAT-TTTATATTT
25487 T
1 T
25488 ATAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTAATTTTATATTT
Found at i:31353 original size:22 final size:22
Alignment explanation
Indices: 31325--31817 Score: 727
Period size: 22 Copynumber: 22.5 Consensus size: 22
31315 CATTTAAATC
*
31325 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGGATTGATT
*
31347 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
*
31369 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
31391 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
***
31413 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
31435 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
31457 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGGATTGATT
31479 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
31501 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
31523 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATGGATTGATT
31545 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
31567 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGGATTGATT
*
31589 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
***
31611 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
31633 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
31655 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
31677 TATTTTAAAATATGGTTTG-TT
1 TATTTTAAAATATGGATTGATT
***
31698 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
31720 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
31742 TATTTTAAAATATGAACAAATT
1 TATTTTAAAATATGGATTGATT
31764 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
31786 TATTTTAAAATATGGATTGCTT
1 TATTTTAAAATATGGATTGATT
31808 TATTTTAAAA
1 TATTTTAAAA
31818 AATTTATTAT
Statistics
Matches: 420, Mismatches: 50, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 0.04
22 403 0.96
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TATTTTAAAATATGGATTGATT
Found at i:37677 original size:2 final size:2
Alignment explanation
Indices: 37672--37710 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
37662 TGCGTGTGTG
37672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37711 CATTTTTGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37938 original size:17 final size:18
Alignment explanation
Indices: 37912--37952 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
37902 AACGTCATTT
37912 AAAA-TATTTTTAAGA-A
1 AAAATTATTTTTAAGACA
37928 AAAATTATTTTTAAGACA
1 AAAATTATTTTTAAGACA
37946 AAAATTA
1 AAAATTA
37953 GTTTGCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAATTATTTTTAAGACA
Found at i:37991 original size:22 final size:21
Alignment explanation
Indices: 37944--37993 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
37934 ATTTTTAAGA
37944 CAAAAATTAGTTTGCATTTAC
1 CAAAAATTAGTTTGCATTTAC
* *
37965 CAAAAATTGGTTTGTATTTAC
1 CAAAAATTAGTTTGCATTTAC
37986 CAAAAATT
1 CAAAAATT
37994 TGACTTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
CAAAAATTAGTTTGCATTTAC
Found at i:39570 original size:15 final size:15
Alignment explanation
Indices: 39546--39580 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
39536 CAAAACTCTC
39546 TTTT-TCTTCTTTTT
1 TTTTCTCTTCTTTTT
39560 TTTTCTCTTCTTTTT
1 TTTTCTCTTCTTTTT
39575 TTTTCT
1 TTTTCT
39581 TGAATGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTCTTCTTTTT
Found at i:40196 original size:12 final size:12
Alignment explanation
Indices: 40152--40202 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
40142 TAAAATGTAG
*
40152 TAATAATACTAT
1 TAATAATAATAT
* *
40164 TAATAA-AACAA
1 TAATAATAATAT
*
40175 TAATATTAATAT
1 TAATAATAATAT
40187 TAATAATAATAAT
1 TAATAATAAT-AT
40200 TAA
1 TAA
40203 AACACTGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:40540 original size:30 final size:30
Alignment explanation
Indices: 40504--40568 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
40494 TTTTGGCTCT
40504 AACGTCTTATTTTAGGATAAAATAGTCTCC
1 AACGTCTTATTTTAGGATAAAATAGTCTCC
*
40534 AACGTCTTATTTTAGGATAAAATAGTCTCT
1 AACGTCTTATTTTAGGATAAAATAGTCTCC
40564 AACGT
1 AACGT
40569 TTGATCTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (30 bp):
AACGTCTTATTTTAGGATAAAATAGTCTCC
Found at i:42941 original size:13 final size:14
Alignment explanation
Indices: 42923--42952 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
42913 CGCCTTTTTC
42923 AAATTTTCCT-GGA
1 AAATTTTCCTGGGA
42936 AAATTTTCCTGGGA
1 AAATTTTCCTGGGA
42950 AAA
1 AAA
42953 ATTAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (14 bp):
AAATTTTCCTGGGA
Found at i:45272 original size:20 final size:18
Alignment explanation
Indices: 45240--45293 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
45230 AACTCTAAGA
45240 AAAATATAATAACTAAAT
1 AAAATATAATAACTAAAT
*
45258 AAAATATTAAGTAACTATAT
1 AAAATA-TAA-TAACTAAAT
*
45278 AGAAATAGAATAACTA
1 A-AAATATAATAACTA
45294 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 6 0.19
19 9 0.29
20 11 0.35
21 5 0.16
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (18 bp):
AAAATATAATAACTAAAT
Found at i:45582 original size:19 final size:19
Alignment explanation
Indices: 45558--45599 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
45548 ATATCCTGTC
* *
45558 AATAAAATATTATTTTAAA
1 AATAAAAGATTAATTTAAA
45577 AAT-AAAGATTAATTTAAA
1 AATAAAAGATTAATTTAAA
45595 AATAA
1 AATAA
45600 TTTTCATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AATAAAAGATTAATTTAAA
Found at i:48828 original size:24 final size:24
Alignment explanation
Indices: 48796--48900 Score: 129
Period size: 24 Copynumber: 4.4 Consensus size: 24
48786 TATATCAAAA
* *
48796 ATCAAATCATAATTCATGTCAAGT
1 ATCATATCATAATCCATGTCAAGT
* * *
48820 ATTATATCAAAATCCAGGTCAAGT
1 ATCATATCATAATCCATGTCAAGT
* *
48844 ATCATATCAGAATCCAAGTCAAGT
1 ATCATATCATAATCCATGTCAAGT
*
48868 ATCAGATCATAATCCATGTCAAGT
1 ATCATATCATAATCCATGTCAAGT
*
48892 ATCAGATCA
1 ATCATATCA
48901 GAAATCAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (24 bp):
ATCATATCATAATCCATGTCAAGT
Found at i:48920 original size:48 final size:48
Alignment explanation
Indices: 48825--48920 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
48815 CAAGTATTAT
* * *
48825 ATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAG
1 ATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAG
* *
48873 ATCATAATCCATGTCAAGTATCAGATCAGAAAT-CAAATCGAA-AATCAG
1 ATCAAAATCCAGGTCAAGTATCAGATCAG-AATCCAAATC-AAGAATCAG
48921 GTAAAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 36 0.88
49 5 0.12
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.23
Consensus pattern (48 bp):
ATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAG
Found at i:50614 original size:18 final size:17
Alignment explanation
Indices: 50581--50614 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50571 GAATAATTAA
50581 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
50598 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
50615 ATACAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:58848 original size:18 final size:17
Alignment explanation
Indices: 58815--58848 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58805 GAATAATTAA
58815 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
58832 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
58849 ATACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:67080 original size:18 final size:17
Alignment explanation
Indices: 67047--67080 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67037 GAATAATTAA
67047 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
67064 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
67081 ATACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:88749 original size:12 final size:13
Alignment explanation
Indices: 88711--88757 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 13
88701 TAAAATTATA
88711 TAAATAATAATAT
1 TAAATAATAATAT
*
88724 TGATATAAATAATAT
1 T-AAAT-AATAATAT
88739 TAAATAA-AATAT
1 TAAATAATAATAT
88751 TATAATA
1 TA-AATA
88758 TTTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 7 0.24
13 7 0.24
14 6 0.21
15 9 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
TAAATAATAATAT
Found at i:92227 original size:113 final size:115
Alignment explanation
Indices: 92028--92241 Score: 272
Period size: 113 Copynumber: 1.9 Consensus size: 115
92018 CAGTTTTTGT
* * * * * * *
92028 TAGCAGAAGTGATCAATAAACTGAAGTTTTCTTTTACTTTGATTATAATTGAGGAGACAATATTT
1 TAGCAGAAGTGATCAATAAACTCAAGCTTTCTTATACGTAGATTATAATCGAGAAGACAATATTT
* *
92093 GTTATAAGAGTATAGTATTTGA-TTTTGGTCAAATTGTTGTTCTGGTCCA
66 GTTATAAAAGTATAGTATTTGATTTTTGGTAAAATTGTTGTTCTGGTCCA
* *
92142 TAGCAGAAGTGATCAA-GAACTCAAGCTTTCTTATGCGTAGA-TATTAATCGAGAAGACAATATT
1 TAGCAGAAGTGATCAATAAACTCAAGCTTTCTTATACGTAGATTA-TAATCGAGAAGACAATATT
* * *
92205 TGTTGTAAAAGTATGGTTTTTGATTTTTGGTAAAATT
65 TGTTATAAAAGTATAGTATTTGATTTTTGGTAAAATT
92242 TGGTTTTGAT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
112 2 0.02
113 54 0.64
114 28 0.33
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (115 bp):
TAGCAGAAGTGATCAATAAACTCAAGCTTTCTTATACGTAGATTATAATCGAGAAGACAATATTT
GTTATAAAAGTATAGTATTTGATTTTTGGTAAAATTGTTGTTCTGGTCCA
Found at i:93122 original size:35 final size:35
Alignment explanation
Indices: 93073--93231 Score: 201
Period size: 35 Copynumber: 4.5 Consensus size: 35
93063 TAGTAAACCA
*
93073 TCCGTTCTAGTTGAATCGAAAGTGCGATGCCTCCT
1 TCCGTTCTACTTGAATCGAAAGTGCGATGCCTCCT
* * * *
93108 TCGGTTCTACTTGAATCAAAAGTGCAATGCTTCCT
1 TCCGTTCTACTTGAATCGAAAGTGCGATGCCTCCT
* *
93143 TCCGTTCTACTTGAATCAAAAGTGTGATGCCTCCT
1 TCCGTTCTACTTGAATCGAAAGTGCGATGCCTCCT
* * * *
93178 TTCGTTCGACTTGAATCGAAAGTGTGATGCCTCAT
1 TCCGTTCTACTTGAATCGAAAGTGCGATGCCTCCT
* *
93213 TCCATTCGACTTGAATCGA
1 TCCGTTCTACTTGAATCGA
93232 TGCAACTTTG
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 109 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (35 bp):
TCCGTTCTACTTGAATCGAAAGTGCGATGCCTCCT
Found at i:97644 original size:35 final size:35
Alignment explanation
Indices: 97593--97659 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
97583 GTCTCAAGCC
97593 ATATATTTTTAATATTTTAATAACATTTTATTTAA
1 ATATATTTTTAATATTTTAATAACATTTTATTTAA
* * *
97628 ATATTTTTTTACTATTTTAATAATATTTTATT
1 ATATATTTTTAATATTTTAATAACATTTTATT
97660 AAAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (35 bp):
ATATATTTTTAATATTTTAATAACATTTTATTTAA
Done.