Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002394.1 Hibiscus syriacus cultivar Beakdansim tig00004897_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: 71787
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:10554 original size:19 final size:19
Alignment explanation
Indices: 10527--10567 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
10517 TGCAGAAATG
* *
10527 GTATTGGTACCGTAATATA
1 GTATCGGTACCATAATATA
10546 GTATCGGTACCATAATATA
1 GTATCGGTACCATAATATA
10565 GTA
1 GTA
10568 GTTTCGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (19 bp):
GTATCGGTACCATAATATA
Found at i:11343 original size:81 final size:81
Alignment explanation
Indices: 11235--11481 Score: 379
Period size: 81 Copynumber: 3.1 Consensus size: 81
11225 TATTCTAATA
* * *
11235 TAAAAGATTAATGACATAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTATATGAAAG
1 TAAAAGATTAATGACCTAGTTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
11300 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
11316 TAAAAGATTAATGGCCTGGTTGTGCATTTGACAGAAATGTGTCAATCATGTCAGTTAGATCAAAG
1 TAAAAGATTAATGACCTAGTTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
11381 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
** *
11397 TAAAAGATTAATGACCTAACTGTGCATTTGACAGAAATGTGTCAATCATGCTAGTTAGATGAAAG
1 TAAAAGATTAATGACCTAGTTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
**
11462 GTT-AATGTCTTTGAG
66 GTTAAATACCTTTGAG
11477 TAAAA
1 TAAAA
11482 AACTAGATGT
Statistics
Matches: 150, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
80 15 0.10
81 135 0.90
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGACCTAGTTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:11614 original size:45 final size:45
Alignment explanation
Indices: 11518--11801 Score: 304
Period size: 45 Copynumber: 6.3 Consensus size: 45
11508 TTGTATAAAA
* * * * * **
11518 GGCATGAAAGGATGCCATAAATGAAATGTATAAT-AGTGTATAAAA
1 GGCATGAAAGGATGCCATAATTGAAATGCAT-ATGGGTGCATTATC
* * *
11563 GGCATGAAATGATGTCATAATTGAAATGCATATGGGTACATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* *
11608 GACATGAAAGGATGCCATAATTGAAATGCATATAGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* * *
11653 GGCATGAAAGGATGTCATAATTGATATGCACATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* * *
11698 GGCATGAAAGGATGCCATAAGTGAGATGTATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
* * * *
11743 GGCATGAAAGG-TGCCATAAATAAACAGGCATAAT-GGTGCATTATA
1 GGCATGAAAGGATGCCATAATTGAA-ATGCAT-ATGGGTGCATTATC
* *
11788 AGCATGAATGGATG
1 GGCATGAAAGGATG
11802 TTATCAATGA
Statistics
Matches: 202, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
44 12 0.06
45 186 0.92
46 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.26
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
Found at i:15250 original size:33 final size:33
Alignment explanation
Indices: 15208--15273 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
15198 TTTCTTCTCA
15208 ATCCAGTGCCTAATTTAAGCTAAAGAGCTTAGT
1 ATCCAGTGCCTAATTTAAGCTAAAGAGCTTAGT
15241 ATCCAGTGCCTAATTTAAGCTAAAGAGCTTAGT
1 ATCCAGTGCCTAATTTAAGCTAAAGAGCTTAGT
15274 TTCCTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (33 bp):
ATCCAGTGCCTAATTTAAGCTAAAGAGCTTAGT
Found at i:20088 original size:19 final size:21
Alignment explanation
Indices: 20064--20108 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
20054 GGGTACGACA
*
20064 TATAAAATA-ATTT-TAAAAT
1 TATAAAATAGATTTAAAAAAT
20083 TAT-AAATAGATTTAAAAAAT
1 TATAAAATAGATTTAAAAAAT
20103 TATAAA
1 TATAAA
20109 TAAAGTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 8 0.36
21 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAAAATAGATTTAAAAAAT
Found at i:25442 original size:6 final size:6
Alignment explanation
Indices: 25431--25455 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25421 AGCAATCAGT
25431 GTGAAA GTGAAA GTGAAA GTGAAA G
1 GTGAAA GTGAAA GTGAAA GTGAAA G
25456 ATCATGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GTGAAA
Found at i:30435 original size:22 final size:20
Alignment explanation
Indices: 30396--30435 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30386 CCTCTAACTT
*
30396 TGCCACAACCATACATCATA
1 TGCCACAACCATAAATCATA
30416 TGCCACAACAGCATAAATCA
1 TGCCACAAC--CATAAATCA
30436 AGAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.42, C:0.33, G:0.07, T:0.17
Consensus pattern (20 bp):
TGCCACAACCATAAATCATA
Found at i:33681 original size:33 final size:33
Alignment explanation
Indices: 33644--33719 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 33
33634 TAATCTTTGG
*
33644 TCAGCTTTTATGAATATTTGAATTGTTTTTAAA
1 TCAGCTTTTATGAATATTTGAATTATTTTTAAA
33677 TCAGC----A--AATATTTGAATTATTTTTAAA
1 TCAGCTTTTATGAATATTTGAATTATTTTTAAA
33704 TCAGCTTTTATGAATA
1 TCAGCTTTTATGAATA
33720 CTGTGCCGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
27 25 0.69
29 1 0.03
31 1 0.03
33 9 0.25
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (33 bp):
TCAGCTTTTATGAATATTTGAATTATTTTTAAA
Found at i:37129 original size:20 final size:23
Alignment explanation
Indices: 37106--37154 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
37096 TATAAATTTT
37106 ATAAATTTAA-T-T-ATAATTAA
1 ATAAATTTAAGTCTAATAATTAA
37126 ATAAATTTAAGTCTAATAATTAA
1 ATAAATTTAAGTCTAATAATTAA
37149 A-AAATT
1 ATAAATT
37155 ATATCAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.38
21 1 0.04
22 6 0.23
23 9 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATAAATTTAAGTCTAATAATTAA
Found at i:43598 original size:23 final size:23
Alignment explanation
Indices: 43585--43630 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
43575 AGGTTGAATT
43585 GAGCTCAAAATCGAGCTTCAATC
1 GAGCTCAAAATCGAGCTTCAATC
**
43608 GAGCTCAAGTCTCGAGCTTCAAT
1 GAGCTCAA-AATCGAGCTTCAAT
43631 TGAGTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
GAGCTCAAAATCGAGCTTCAATC
Found at i:44082 original size:4 final size:4
Alignment explanation
Indices: 44075--44116 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
44065 AACAAGTTCG
*
44075 TTTA TTTA TTTA TTTA TTTA TTT- TTAA GTTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TT
44117 GACTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 29 0.85
5 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:45207 original size:13 final size:13
Alignment explanation
Indices: 45167--45208 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
45157 CCAATGTCCC
*
45167 AAAAATATATCAT
1 AAAAATATAACAT
*
45180 AAAAGTATAA-A-
1 AAAAATATAACAT
45191 AAAAATATAACAT
1 AAAAATATAACAT
45204 AAAAA
1 AAAAA
45209 CAAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 13 0.54
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAAATATAACAT
Found at i:45217 original size:24 final size:24
Alignment explanation
Indices: 45167--45223 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
45157 CCAATGTCCC
* **
45167 AAAAATATATCATAAAAGTATAAA
1 AAAAATATAACATAAAAACATAAA
*
45191 AAAAATATAACATAAAAACAAAGAA
1 AAAAATATAACATAAAAACATA-AA
45216 AAAAATAT
1 AAAAATAT
45224 TATAAAGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAAATATAACATAAAAACATAAA
Found at i:46225 original size:72 final size:72
Alignment explanation
Indices: 46148--46327 Score: 308
Period size: 72 Copynumber: 2.5 Consensus size: 72
46138 ACTCCTTTGG
* *
46148 TAGTCATTAAAATTTTAGGTTTCTTTTACTTTAACTAATAAATTTCTAAAACTCATCTTATAATT
1 TAGTCACTAAAATTTTAGGTTGCTTTTACTTTAACTAATAAATTTCTAAAACTCATCTTATAATT
46213 TTTAATT
66 TTTAATT
*
46220 TAGTCACT-AAATTTTAAGGTTGCTTTTACTTTAACTAATAAATTTCTAAAACTCATCTTATAGT
1 TAGTCACTAAAATTTT-AGGTTGCTTTTACTTTAACTAATAAATTTCTAAAACTCATCTTATAAT
46284 TTTTAATT
65 TTTTAATT
*
46292 TAGTCACTAAATTTTTAGGTTGCTTTTACTTTAACT
1 TAGTCACTAAAATTTTAGGTTGCTTTTACTTTAACT
46328 GCTAAACTAT
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
71 7 0.07
72 89 0.87
73 6 0.06
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (72 bp):
TAGTCACTAAAATTTTAGGTTGCTTTTACTTTAACTAATAAATTTCTAAAACTCATCTTATAATT
TTTAATT
Found at i:46231 original size:41 final size:41
Alignment explanation
Indices: 46186--46305 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 41
46176 CTTTAACTAA
46186 TAAATTTCTAAAACTCATCTTATAATTTTTAATTTAGTCAC
1 TAAATTTCTAAAACTCATCTTATAATTTTTAATTTAGTCAC
** * * *
46227 TAAATTT-T-AAGGT--TGCTT-TTA-CTTTAA-CTA---A-
1 TAAATTTCTAAAACTCAT-CTTATAATTTTTAATTTAGTCAC
*
46258 TAAATTTCTAAAACTCATCTTATAGTTTTTAATTTAGTCAC
1 TAAATTTCTAAAACTCATCTTATAATTTTTAATTTAGTCAC
46299 TAAATTT
1 TAAATTT
46306 TTAGGTTGCT
Statistics
Matches: 56, Mismatches: 11, Indels: 24
0.62 0.12 0.26
Matches are distributed among these distances:
31 7 0.12
32 2 0.04
33 3 0.05
34 3 0.05
35 4 0.07
36 10 0.18
37 5 0.09
38 3 0.05
39 3 0.05
40 2 0.04
41 14 0.25
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (41 bp):
TAAATTTCTAAAACTCATCTTATAATTTTTAATTTAGTCAC
Found at i:46341 original size:27 final size:27
Alignment explanation
Indices: 46311--46364 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46301 AATTTTTAGG
*
46311 TTGCTTTTACTTTAACTGCTAAACTAT
1 TTGCTTTTACTTTAACTACTAAACTAT
46338 TTGCTTTTACTTTAACTACTAAACTAT
1 TTGCTTTTACTTTAACTACTAAACTAT
46365 CTTTTAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (27 bp):
TTGCTTTTACTTTAACTACTAAACTAT
Found at i:48607 original size:69 final size:68
Alignment explanation
Indices: 48528--48744 Score: 159
Period size: 69 Copynumber: 3.2 Consensus size: 68
48518 AGATATCGTG
48528 AGAATTACAATAAGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTATGG
1 AGAATTACAATAAGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTATGG
48593 GAAT
66 G-AT
* * ** *
48597 AGAATTACAATCGTAAGATGACGATCAT-TTAA-CCAAT-A-TTTATTTT-ATGA-CA--AGA-A
1 AGAATTACAA---TAAG-T----AT-TTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATT
* *
48653 GTAGATAT-CG-T
57 CTAG-TATGGGAT
* *
48664 GAGAATTACAATAAGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAATTTG
1 -AGAATTACAATAAGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTATG
48729 GGTAT
65 GG-AT
48734 AGAATTACAAT
1 AGAATTACAAT
48745 TGTAAGAGGA
Statistics
Matches: 109, Mismatches: 16, Indels: 46
0.64 0.09 0.27
Matches are distributed among these distances:
59 1 0.01
60 6 0.06
61 5 0.05
62 1 0.01
63 8 0.07
64 4 0.04
65 6 0.06
67 4 0.04
68 13 0.12
69 25 0.23
70 5 0.05
72 6 0.06
73 4 0.04
74 8 0.07
75 1 0.01
76 5 0.05
77 6 0.06
78 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (68 bp):
AGAATTACAATAAGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTATGG
GAT
Found at i:48652 original size:137 final size:137
Alignment explanation
Indices: 48403--48805 Score: 725
Period size: 137 Copynumber: 2.9 Consensus size: 137
48393 ATATAATATT
48403 AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTTTGGGTATAGAATTAC
1 AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTTTGGGTATAGAATTAC
* *
48468 AATCGTAAGAAGACGTTCATTTAACCAATATTTATTTTATGATAAGAAGTAGATATCGTGAGAAT
66 AATCGTAAGAAGACGATCATTTAACCAATATTTATTTTATGACAAGAAGTAGATATCGTGAGAAT
48533 TACAATA
131 TACAATA
* *
48540 AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTATGGGAATAGAATTAC
1 AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTTTGGGTATAGAATTAC
*
48605 AATCGTAAGATGACGATCATTTAACCAATATTTATTTTATGACAAGAAGTAGATATCGTGAGAAT
66 AATCGTAAGAAGACGATCATTTAACCAATATTTATTTTATGACAAGAAGTAGATATCGTGAGAAT
48670 TACAATA
131 TACAATA
*
48677 AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAATTTGGGTATAGAATTAC
1 AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTTTGGGTATAGAATTAC
* * *
48742 AATTGTAAGAGGACTATCATTTAACCAATATTTATTTTATGACAAGAAGTAGATATCGTGAGAA
66 AATCGTAAGAAGACGATCATTTAACCAATATTTATTTTATGACAAGAAGTAGATATCGTGAGAA
48806 AGCACGAGTC
Statistics
Matches: 255, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 255 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (137 bp):
AGTATTTGTTAAGCCAATAAGTTTATTTTGTTGATCATTTCATTCTAGTTTGGGTATAGAATTAC
AATCGTAAGAAGACGATCATTTAACCAATATTTATTTTATGACAAGAAGTAGATATCGTGAGAAT
TACAATA
Found at i:52650 original size:19 final size:19
Alignment explanation
Indices: 52628--52668 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
52618 TTTATTTATT
52628 TTAA-TATTATTTATTATCA
1 TTAATTATTA-TTATTATCA
52647 TTAATTATTATTATTATCA
1 TTAATTATTATTATTATCA
52666 TTA
1 TTA
52669 CCAATACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATTATTATTATTATCA
Found at i:58170 original size:36 final size:37
Alignment explanation
Indices: 58117--58209 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 37
58107 CGAGAGATGA
58117 AATTGTTCCA-CCTCAAAC-AGAACCACCAAATAACG-
1 AATTGTTCCATCCTCAAACGA-AACCACCAAATAACGT
*
58152 AGATTGTTCCATCC-CAAACGAAACCACCGAATAACGT
1 A-ATTGTTCCATCCTCAAACGAAACCACCAAATAACGT
* *
58189 AATTGATCCAT-CTTAAACGAA
1 AATTGTTCCATCCTCAAACGAA
58210 CAACTAGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
35 2 0.04
36 44 0.88
37 4 0.08
ACGTcount: A:0.41, C:0.28, G:0.11, T:0.20
Consensus pattern (37 bp):
AATTGTTCCATCCTCAAACGAAACCACCAAATAACGT
Found at i:65212 original size:36 final size:36
Alignment explanation
Indices: 65164--65247 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
65154 ATTATTCAAC
* * *
65164 CCCAAACAGAACCACCAAATAATG-AGATTGTTTCAT
1 CCCAAACGGAACCACCAAATAACGTA-ATTGATTCAT
*
65200 CCCAAACGGAACCACCGAATAACGTAATTGATTCAT
1 CCCAAACGGAACCACCAAATAACGTAATTGATTCAT
*
65236 CTCAAACGGAAC
1 CCCAAACGGAAC
65248 TACTAGTACC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 41 0.98
37 1 0.02
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.19
Consensus pattern (36 bp):
CCCAAACGGAACCACCAAATAACGTAATTGATTCAT
Found at i:67971 original size:36 final size:35
Alignment explanation
Indices: 67903--67997 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 35
67893 CTAGAGATGA
* *
67903 AATTGTTCCA-CCTCAAACAGAACCATAAAATAATG
1 AATTGTTCCATCC-CAAACGGAACCACAAAATAATG
**
67938 AGATTGTTCCATCCCAAACGGAACCACCGAATAATG
1 A-ATTGTTCCATCCCAAACGGAACCACAAAATAATG
*
67974 TAATTGATT-CATCTCAAACGGAAC
1 -AATTG-TTCCATCCCAAACGGAAC
67998 AACTAGTGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 1 0.02
36 45 0.88
37 5 0.10
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (35 bp):
AATTGTTCCATCCCAAACGGAACCACAAAATAATG
Found at i:70740 original size:36 final size:35
Alignment explanation
Indices: 70648--70741 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
70638 CTAGAGATGA
* *
70648 AATTGTTCCACCTCAAACGGAACTACCAAATAACG
1 AATTGTTCCATCTCAAACGGAACCACCAAATAACG
* *
70683 ATATTGTTTCATC-CAAACGGAACCACCGAATAACG
1 A-ATTGTTCCATCTCAAACGGAACCACCAAATAACG
*
70718 TAATTGATCCATCTCAAACGGAAC
1 -AATTGTTCCATCTCAAACGGAAC
70742 AACTAGTACC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 30 0.60
36 20 0.40
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (35 bp):
AATTGTTCCATCTCAAACGGAACCACCAAATAACG
Done.