Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001411.1 Hibiscus syriacus cultivar Beakdansim tig00002748_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: 68782
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:725 original size:23 final size:23
Alignment explanation
Indices: 687--731 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
677 ACATGTTGAC
** *
687 GAACATGTTAGTAAACTCTAAAA
1 GAACATGTTAACAAACCCTAAAA
710 GAACATGTTAACAAACCCTAAA
1 GAACATGTTAACAAACCCTAAA
732 CTAGCATATT
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:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (23 bp):
GAACATGTTAACAAACCCTAAAA
Found at i:957 original size:14 final size:15
Alignment explanation
Indices: 938--966 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
928 TGCAAAACAA
938 CCTTTTTT-TTTTTT
1 CCTTTTTTCTTTTTT
952 CCTTTTTTCTTTTTT
1 CCTTTTTTCTTTTTT
967 TGCTTTGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CCTTTTTTCTTTTTT
Found at i:4083 original size:4 final size:4
Alignment explanation
Indices: 4063--4109 Score: 51
Period size: 4 Copynumber: 11.0 Consensus size: 4
4053 TTCAAACACT
4063 TAAA GTAAA TGAAA TAAA TAAA TAAA TAAA TTAAA -AACA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA -TAAA TAA-A TAAA TAAA
4110 ATATTATCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
3 2 0.05
4 22 0.58
5 14 0.37
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:4092 original size:21 final size:22
Alignment explanation
Indices: 4063--4109 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
4053 TTCAAACACT
4063 TAAAGTAAATGAAATAA-ATAAA
1 TAAAGTAAATGAAA-AACATAAA
*
4085 TAAA-TAAATTAAAAACATAAA
1 TAAAGTAAATGAAAAACATAAA
4106 TAAA
1 TAAA
4110 ATATTATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (22 bp):
TAAAGTAAATGAAAAACATAAA
Found at i:4097 original size:17 final size:16
Alignment explanation
Indices: 4063--4109 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4053 TTCAAACACT
4063 TAAAGTAAATGAAATAAA
1 TAAA-TAAAT-AAATAAA
4081 TAAATAAATAAATTAAA
1 TAAATAAATAAA-TAAA
4098 -AACATAAATAAA
1 TAA-ATAAATAAA
4110 ATATTATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 18 0.67
18 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (16 bp):
TAAATAAATAAATAAA
Found at i:4738 original size:13 final size:13
Alignment explanation
Indices: 4720--4766 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
4710 TGAAGTGAAA
4720 TGAATGTGGAATG
1 TGAATGTGGAATG
*
4733 TGAATGT-GAGACG
1 TGAATGTGGA-ATG
* *
4746 TGAATATGAAATG
1 TGAATGTGGAATG
4759 TGAATGTG
1 TGAATGTG
4767 TTGTATTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 2 0.07
13 24 0.89
14 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.30
Consensus pattern (13 bp):
TGAATGTGGAATG
Found at i:4739 original size:6 final size:6
Alignment explanation
Indices: 4708--4766 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
4698 ATTTATTTTT
* * *
4708 TGTGAA -GTGAA -ATGAA TGTGGAA TGTGAA TGTGAGA CGTGAA TATGAAA
1 TGTGAA TGTGAA TGTGAA TGT-GAA TGTGAA TGTGA-A TGTGAA TGTG-AA
4757 TGTGAA TGTG
1 TGTGAA TGTG
4767 TTGTATTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 9 0.21
6 18 0.42
7 16 0.37
ACGTcount: A:0.36, C:0.02, G:0.34, T:0.29
Consensus pattern (6 bp):
TGTGAA
Found at i:9411 original size:27 final size:26
Alignment explanation
Indices: 9359--9411 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
9349 GTCTGACGTA
* *
9359 GCAGTTTCTAGAAGGTCCAGTCAGCG
1 GCAGTTTCTAGAAGATCCAGTAAGCG
*
9385 GCAGTTTTCTAGAAGATCTAGTAAGCG
1 GCAG-TTTCTAGAAGATCCAGTAAGCG
9412 CCTTCTGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (26 bp):
GCAGTTTCTAGAAGATCCAGTAAGCG
Found at i:24299 original size:78 final size:78
Alignment explanation
Indices: 24197--24345 Score: 219
Period size: 78 Copynumber: 1.9 Consensus size: 78
24187 TAATTAAACT
* * *
24197 CTTAATTAATTAATTCAAAATAAATATCCATTAAAAGAGTTATAATCTGAATTATATTCTTTTAA
1 CTTAATTAATTAATTCAAAATAAATATCCATTAAAAGAGTTATAATCAGAATTACATTATTTTAA
24262 TGTTTATTTTATC
66 TGTTTATTTTATC
* * * *
24275 CTTATTTAATT-ATTCCAAATTAAATATCCATTAAAATAGTTTTAATCAGAATTACATTATTTTA
1 CTTAATTAATTAATT-CAAAATAAATATCCATTAAAAGAGTTATAATCAGAATTACATTATTTTA
24339 ATGTTTA
65 ATGTTTA
24346 CTTACTATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
77 3 0.05
78 60 0.95
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (78 bp):
CTTAATTAATTAATTCAAAATAAATATCCATTAAAAGAGTTATAATCAGAATTACATTATTTTAA
TGTTTATTTTATC
Found at i:32321 original size:30 final size:30
Alignment explanation
Indices: 32285--32341 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
32275 TAATATTACA
32285 TTGAAAAAATTAAAAATTATCACATCATCG
1 TTGAAAAAATTAAAAATTATCACATCATCG
* * *
32315 TTGAAAATATTAAAATTTGTCACATCA
1 TTGAAAAAATTAAAAATTATCACATCA
32342 ATGGTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (30 bp):
TTGAAAAAATTAAAAATTATCACATCATCG
Found at i:33246 original size:2 final size:2
Alignment explanation
Indices: 33241--33287 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
33231 TTAATATGTG
*
33241 TA TA TA TA TA TC 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 TA TA TA TA TA TA
33283 TA TA T
1 TA TA T
33288 CAGTTCCATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35164 original size:90 final size:90
Alignment explanation
Indices: 35058--35237 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
35048 TTGACCGACC
35058 CGATCTTATTAAAAAAACTTGCTACTCTACTTGACTCGACCCCACTATGTAAAATCTAATAAATT
1 CGATCTTATTAAAAAAACTTGCTACTCTACTTGACTCGACCCCACTATGTAAAATCTAATAAATT
35123 AATAATTTAGTATCTTTCTTGTTGT
66 AATAATTTAGTATCTTTCTTGTTGT
35148 CGATCTTATTAAAAAAACTTGCTACTCTACTTGACTCGACCCCACTATGTAAAATCTAATAAATT
1 CGATCTTATTAAAAAAACTTGCTACTCTACTTGACTCGACCCCACTATGTAAAATCTAATAAATT
35213 AATAATTTAGTATCTTTCTTGTTGT
66 AATAATTTAGTATCTTTCTTGTTGT
35238 TTGTTAGAAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (90 bp):
CGATCTTATTAAAAAAACTTGCTACTCTACTTGACTCGACCCCACTATGTAAAATCTAATAAATT
AATAATTTAGTATCTTTCTTGTTGT
Found at i:37940 original size:19 final size:20
Alignment explanation
Indices: 37906--37943 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
37896 CAACAATATC
37906 TATAAAAATATATAAAATTG
1 TATAAAAATATATAAAATTG
*
37926 TATAAAAA-ATTTAAAATT
1 TATAAAAATATATAAAATT
37944 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TATAAAAATATATAAAATTG
Found at i:39038 original size:26 final size:26
Alignment explanation
Indices: 39008--39060 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
38998 GGGATTAATC
*
39008 ATTAATTTGGTCCTTAAACTTTAGAT
1 ATTAATTTAGTCCTTAAACTTTAGAT
39034 ATTAATTTAGTCCTTAAACTTTAGAT
1 ATTAATTTAGTCCTTAAACTTTAGAT
39060 A
1 A
39061 AAATACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (26 bp):
ATTAATTTAGTCCTTAAACTTTAGAT
Found at i:39088 original size:31 final size:31
Alignment explanation
Indices: 39048--39198 Score: 141
Period size: 31 Copynumber: 4.9 Consensus size: 31
39038 ATTTAGTCCT
*
39048 TAAACTTTAGATAAAATA-CTAATTTAACCTC
1 TAAACTTTAGATAAAATATC-AATTTGACCTC
* *
39079 TAAATTTTAGATGAAATATCAATTTGACC-C
1 TAAACTTTAGATAAAATATCAATTTGACCTC
* *
39109 TTGAACTTTAGATAAAATA-CTAATTTGATCTC
1 -TAAACTTTAGATAAAATATC-AATTTGACCTC
* * *
39141 TTAACTTTAAATAAAATATCAATTT-ATCTCC
1 TAAACTTTAGATAAAATATCAATTTGACCT-C
*
39172 TGAAA-TTTAGATAAAATATAAATTTGA
1 T-AAACTTTAGATAAAATATCAATTTGA
39199 TCATTCAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
30 6 0.06
31 88 0.88
32 6 0.06
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (31 bp):
TAAACTTTAGATAAAATATCAATTTGACCTC
Found at i:39119 original size:62 final size:63
Alignment explanation
Indices: 39044--39189 Score: 190
Period size: 62 Copynumber: 2.3 Consensus size: 63
39034 ATTAATTTAG
* * * *
39044 TCCTTAAACTTTAGATAAAATACTAATTTAACCTCTAAATTTTAGATGAAATATCAATTTGA-C
1 TCCTTGAACTTTAGATAAAATACTAATTTAACCTCTAAACTTTAAATAAAATATCAATTT-ATC
* * *
39107 -CCTTGAACTTTAGATAAAATACTAATTTGATCTCTTAACTTTAAATAAAATATCAATTTATC
1 TCCTTGAACTTTAGATAAAATACTAATTTAACCTCTAAACTTTAAATAAAATATCAATTTATC
*
39169 TCC-TGAAATTTAGATAAAATA
1 TCCTTGAACTTTAGATAAAATA
39190 TAAATTTGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
61 1 0.01
62 70 0.96
63 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (63 bp):
TCCTTGAACTTTAGATAAAATACTAATTTAACCTCTAAACTTTAAATAAAATATCAATTTATC
Found at i:45187 original size:2 final size:2
Alignment explanation
Indices: 45180--45230 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
45170 AAGGTAGTTC
45180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45222 AT AT AT AT A
1 AT AT AT AT A
45231 GATGAATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51827 original size:11 final size:11
Alignment explanation
Indices: 51811--51849 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
51801 TAGCAGCGTA
51811 AAAAAAATAAG
1 AAAAAAATAAG
**
51822 -AAAAAATGTG
1 AAAAAAATAAG
51832 AAAAAAATAAG
1 AAAAAAATAAG
51843 AAAAAAA
1 AAAAAAA
51850 AATGTGTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAAATAAG
Found at i:55587 original size:12 final size:12
Alignment explanation
Indices: 55565--55597 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55555 TTTATTGAAC
55565 TCTTTTT-TTCT
1 TCTTTTTCTTCT
*
55576 TTTTTTTCTTCT
1 TCTTTTTCTTCT
55588 TCTTTTTCTT
1 TCTTTTTCTT
55598 TGTGGAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTCTTCT
Found at i:56597 original size:20 final size:20
Alignment explanation
Indices: 56526--56598 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 20
56516 TGACACCTGA
56526 AAAATTCACGAAAAAATAAAT
1 AAAATTCACG-AAAAATAAAT
* *
56547 AAAATGCTGAAAAGAAAAATAAAGGAT
1 AAAAT--T--CACGAAAAAT-AA--AT
56574 AAAATTCACGAAAAATAAAT
1 AAAATTCACGAAAAATAAAT
56594 AAAAT
1 AAAAT
56599 GCTGAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
20 7 0.17
21 5 0.12
22 2 0.05
23 9 0.22
24 6 0.15
25 5 0.12
27 7 0.17
ACGTcount: A:0.66, C:0.07, G:0.10, T:0.18
Consensus pattern (20 bp):
AAAATTCACGAAAAATAAAT
Found at i:56598 original size:47 final size:48
Alignment explanation
Indices: 56526--56624 Score: 191
Period size: 47 Copynumber: 2.1 Consensus size: 48
56516 TGACACCTGA
56526 AAAATTCACGAAAAAATAAATAAAATGCTGAAAAGAAAAATAAAGGAT
1 AAAATTCACGAAAAAATAAATAAAATGCTGAAAAGAAAAATAAAGGAT
56574 AAAATTCACG-AAAAATAAATAAAATGCTGAAAAGAAAAATAAAGGAT
1 AAAATTCACGAAAAAATAAATAAAATGCTGAAAAGAAAAATAAAGGAT
56621 AAAA
1 AAAA
56625 AAATCAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 41 0.80
48 10 0.20
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (48 bp):
AAAATTCACGAAAAAATAAATAAAATGCTGAAAAGAAAAATAAAGGAT
Found at i:56622 original size:27 final size:27
Alignment explanation
Indices: 56545--56624 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
56535 GAAAAAATAA
56545 ATAAAATGCTGAAAAGAAAAATAAAGG
1 ATAAAATGCTGAAAAGAAAAATAAAGG
* *
56572 ATAAAAT--T--CACGAAAAAT-AA--
1 ATAAAATGCTGAAAAGAAAAATAAAGG
56592 ATAAAATGCTGAAAAGAAAAATAAAGG
1 ATAAAATGCTGAAAAGAAAAATAAAGG
56619 ATAAAA
1 ATAAAA
56625 AAATCAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
20 7 0.17
22 3 0.07
23 8 0.19
24 8 0.19
25 3 0.07
27 13 0.31
ACGTcount: A:0.65, C:0.05, G:0.14, T:0.16
Consensus pattern (27 bp):
ATAAAATGCTGAAAAGAAAAATAAAGG
Found at i:62604 original size:34 final size:33
Alignment explanation
Indices: 62549--62612 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 33
62539 GAGATATATG
* *
62549 ATTTAAATCTTAAATATTTTTTATTATGATTATA
1 ATTTAAATATTAAATATTTTTT-TAATGATTATA
*
62583 ATTTGAATATTAAAT-TATTTTTTAATGATT
1 ATTTAAATATTAAATAT-TTTTTTAATGATT
62613 TCATGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
33 8 0.31
34 18 0.69
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTTAAATATTAAATATTTTTTTAATGATTATA
Found at i:62623 original size:2 final size:2
Alignment explanation
Indices: 62618--62670 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
62608 TGATTTCATG
62618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62659 TA TA TA TA TA TA
1 TA TA TA TA TA TA
62671 GTAGTGATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65340 original size:19 final size:19
Alignment explanation
Indices: 65313--65357 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
65303 TAAATGTCCT
*
65313 TGATTTTTATAGTAAAATG
1 TGATATTTATAGTAAAATG
*
65332 TGATATTTATAGTAAACTG
1 TGATATTTATAGTAAAATG
65351 TGATATT
1 TGATATT
65358 GACTACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (19 bp):
TGATATTTATAGTAAAATG
Found at i:67405 original size:19 final size:19
Alignment explanation
Indices: 67378--67414 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
67368 TTTAATATAA
67378 TTTTTTAAATTC-ATATTT
1 TTTTTTAAATTCTATATTT
67396 TTTTTATAAATTCTATATT
1 TTTTT-TAAATTCTATATT
67415 CATCTCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTAAATTCTATATTT
Found at i:67898 original size:2 final size:2
Alignment explanation
Indices: 67891--67925 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
67881 CAATATGAAT
67891 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 T
67926 TGTATAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:68246 original size:2 final size:2
Alignment explanation
Indices: 68239--68284 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
68229 GCGGCCCTGG
* *
68239 AT AT AT AT AT AT AT AT AT AT TT AT AT A- AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68280 AT AT A
1 AT AT A
68285 GGGTTTAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Done.