Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003621.1 Hibiscus syriacus cultivar Beakdansim tig00007659_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: 55728
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Found at i:349 original size:153 final size:155
Alignment explanation
Indices: 2--598 Score: 849
Period size: 153 Copynumber: 3.9 Consensus size: 155
1 T
*
2 TGCATAGCTCAGCTT--CAAGTGGCAAGCTTCTCGTTAAGTTCTCTA-TTGATTCCC-CACCTTC
1 TGCATAGC-CAGCTTCACAAGAGGCAAGCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTTC
* * *
63 CTCAGCTCAGCTTTAGAATTTGC-AGCTTTTCGCCAAGTGCTTCATTTACCTGCTCTAGCCTTGA
65 CTCAGCTCAGCTTCAGAACTTGCAAGCTTTTCACCAAGTGCTTCATTTACCTGCTCTAGCCTTGA
127 ATTCGATTCATTCAGATCCTTTAACA
130 ATTCGATTCATTCAGATCCTTTAACA
* *
153 TGCATAGCTCAGATTCACAA-AGGGCAACCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTT
1 TGCATAGC-CAGCTTCACAAGA-GGCAAGCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTT
* ** **
217 CCTCAGCTCAGCTTCAGAATTTGCAAGCTTTTCACCAAGTGCTTCAAATGTCTGCTCTAGCCTTG
64 CCTCAGCTCAGCTTCAGAACTTGCAAGCTTTTCACCAAGTGCTTCATTTACCTGCTCTAGCCTTG
* * * *
282 AATTTGACTCGTTCAGATCC-TTAACT
129 AATTCGATTCATTCAGATCCTTTAACA
308 TGCATAG-CAGCTTCACAAGAGGCAAGCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTTCC
1 TGCATAGCCAGCTTCACAAGAGGCAAGCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTTCC
* *
372 TCAGCTCAACTTCAGAACTTGCAAGCTTTTCACCAAGTGCTTCATTTGCCTGCTCTAGCC-TGAA
66 TCAGCTCAGCTTCAGAACTTGCAAGCTTTTCACCAAGTGCTTCATTTACCTGCTCTAGCCTTGAA
436 TTCGATTCATTCAGATCCTTTAACA
131 TTCGATTCATTCAGATCCTTTAACA
* * * *
461 TGCATGGCTCAGCTTCACAAGTGGCAAGCTTCTC-ATAAGCTCTCTATTTGATTCCCTCACCTTC
1 TGCATAGC-CAGCTTCACAAGAGGCAAGCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTTC
* * *
525 CTCAGGTCAGCTTC-GAACTTGCAAGC-TTTCAGCAAGTGCTTCATTTACCTGCACTAGCCTTGA
65 CTCAGCTCAGCTTCAGAACTTGCAAGCTTTTCACCAAGTGCTTCATTTACCTGCTCTAGCCTTGA
*
588 ATTTGATTCAT
130 ATTCGATTCAT
599 CAAGCTTCTG
Statistics
Matches: 401, Mismatches: 34, Indels: 20
0.88 0.07 0.04
Matches are distributed among these distances:
151 14 0.03
152 49 0.12
153 171 0.43
154 50 0.12
155 65 0.16
156 52 0.13
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (155 bp):
TGCATAGCCAGCTTCACAAGAGGCAAGCTTCTCGTTAAGTTCTCTATTTGATTCCCTCACCTTCC
TCAGCTCAGCTTCAGAACTTGCAAGCTTTTCACCAAGTGCTTCATTTACCTGCTCTAGCCTTGAA
TTCGATTCATTCAGATCCTTTAACA
Found at i:864 original size:117 final size:117
Alignment explanation
Indices: 642--891 Score: 396
Period size: 117 Copynumber: 2.2 Consensus size: 117
632 CATATCTCAA
* * *
642 CTTCACAAGTAGCAAG-TTCTCATTAAGTTCTCTGTTTGCATGCTCGAGTCGTAAATTGGATTCA
1 CTTCACAAGTAGCAAGCTTCTCATTAAGTTCTCTATTGGCATGCTCAAGTCGTAAATTGGATTCA
*
706 GTCAATGCATTTTGGCTTGCCTCCGTCGAATCCCTCAACATCCTCAGGTCAG
66 GTCAATGCATTTTGGCTTGCCTCCGTCGAATCCATCAACATCCTCAGGTCAG
* ** * *
758 CTTCACAAGTGGCAAGCTTCTCATTAAGTTCTCTATTGGTGTGCTCAAGTCGTGAATTGGATTCG
1 CTTCACAAGTAGCAAGCTTCTCATTAAGTTCTCTATTGGCATGCTCAAGTCGTAAATTGGATTCA
823 GTCAATGCATTTTGGCTTGCCTCCGTCGAATCCATCAACATCCTCAGGTCAG
66 GTCAATGCATTTTGGCTTGCCTCCGTCGAATCCATCAACATCCTCAGGTCAG
*
875 CTT-ACAAGAAGCAAGCT
1 CTTCACAAGTAGCAAGCT
892 GCCTTCTAAG
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
116 27 0.22
117 95 0.78
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (117 bp):
CTTCACAAGTAGCAAGCTTCTCATTAAGTTCTCTATTGGCATGCTCAAGTCGTAAATTGGATTCA
GTCAATGCATTTTGGCTTGCCTCCGTCGAATCCATCAACATCCTCAGGTCAG
Found at i:12128 original size:28 final size:29
Alignment explanation
Indices: 12097--12154 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
12087 ACCTAATTTT
* * *
12097 TTTTTA-GTTAAAATATGTACTTAAAGTA
1 TTTTTATGTCAAAATAGGTACTTAAACTA
12125 -TTTTATGTCAAAATAGGTACTTAAACTA
1 TTTTTATGTCAAAATAGGTACTTAAACTA
12153 TT
1 TT
12155 CAAACCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 5 0.20
28 19 0.76
29 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (29 bp):
TTTTTATGTCAAAATAGGTACTTAAACTA
Found at i:13139 original size:25 final size:25
Alignment explanation
Indices: 13105--13175 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
13095 TATCAGCTAC
*
13105 AACAAAAACGGTTATGGAGGTTTCA
1 AACAAAAACGGTTATGGAGGTTGCA
* *
13130 AACAAAAACGGTTACGAGGGGTTGCA
1 AACAAAAACGGTTATG-GAGGTTGCA
*
13156 AACAAAAACAGTTATGGAGG
1 AACAAAAACGGTTATGGAGG
13176 AGAAGAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 18 0.46
26 21 0.54
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (25 bp):
AACAAAAACGGTTATGGAGGTTGCA
Found at i:17709 original size:2 final size:2
Alignment explanation
Indices: 17702--17734 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17692 CATATAAAAT
17702 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 T
17735 CAATAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18964 original size:29 final size:29
Alignment explanation
Indices: 18903--18992 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
18893 TTTATTTAAC
* * *
18903 TAAAGTATTTTTTAGTCAAAATAAGTACA
1 TAAAGTTTTTTTTTGTCAAAATAGGTACA
*
18932 TAAAGTTTTTTTTTGTCAAAATAGGTGA-T
1 TAAAGTTTTTTTTTGTCAAAATAGGT-ACA
* * *
18961 TAAAG-TATTTTATGTCAAAATAGGTACT
1 TAAAGTTTTTTTTTGTCAAAATAGGTACA
18989 TAAA
1 TAAA
18993 CTATTCAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 1 0.02
28 23 0.43
29 28 0.53
30 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (29 bp):
TAAAGTTTTTTTTTGTCAAAATAGGTACA
Found at i:18980 original size:28 final size:28
Alignment explanation
Indices: 18903--18997 Score: 102
Period size: 28 Copynumber: 3.3 Consensus size: 28
18893 TTTATTTAAC
*
18903 TAAAGTATTTTTTAGTCAAAATAAGTACA
1 TAAAGTATTTTTT-GTCAAAATAGGTACA
* *
18932 TAAAGTTTTTTTTTGTCAAAATAGGTGA-T
1 TAAAG-TATTTTTTGTCAAAATAGGT-ACA
* *
18961 TAAAGTATTTTATGTCAAAATAGGTACT
1 TAAAGTATTTTTTGTCAAAATAGGTACA
*
18989 TAAACTATT
1 TAAAGTATT
18998 CAAACATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 1 0.02
28 27 0.47
29 21 0.37
30 8 0.14
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (28 bp):
TAAAGTATTTTTTGTCAAAATAGGTACA
Found at i:19121 original size:29 final size:29
Alignment explanation
Indices: 19079--19160 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
19069 AAAACAATTG
* *
19079 AATATTTTAAATATTTATTTTGGCCAAAA
1 AATAATTTAAATATTTATTTTGACCAAAA
* * * *
19108 AATACTTTAAATATATGTTTTGATCAAAA
1 AATAATTTAAATATTTATTTTGACCAAAA
* *
19137 AGATAATTTAGATACTTATTTTGA
1 A-ATAATTTAAATATTTATTTTGA
19161 TCGGAAAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (29 bp):
AATAATTTAAATATTTATTTTGACCAAAA
Found at i:21200 original size:21 final size:21
Alignment explanation
Indices: 21174--21218 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
21164 GATAAAAAAA
21174 TTATTTAAAATATT-ATTATTT
1 TTATTTAAAATATTAATT-TTT
21195 TTATTTAAAATATTAATTTTT
1 TTATTTAAAATATTAATTTTT
21216 TTA
1 TTA
21219 ATATTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTAAAATATTAATTTTT
Found at i:21917 original size:59 final size:58
Alignment explanation
Indices: 21853--22001 Score: 158
Period size: 59 Copynumber: 2.5 Consensus size: 58
21843 TTAAAGGGCC
* * *
21853 AATTTAGAATGAGATTCATAGTTTAGGGATAAATTCA-ATTGTTAAAATGTTTAA-AGACT
1 AATTTAGAATGAGAATCATAGTTTAGGGATAAATT-AGAATATTAAAA-GTTTAAGA-ACT
* * ** *
21912 AATTTAGAATTACAATCATAGTTTAAAGATGAAATTAGAATATTAAAAGTTTAAGAATT
1 AATTTAGAATGAGAATCATAGTTTAGGGAT-AAATTAGAATATTAAAAGTTTAAGAACT
* *
21971 AATTTAAAATGAGAGTCATAGTTTAGGGATA
1 AATTTAGAATGAGAATCATAGTTTAGGGATA
22002 TATAATAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
58 1 0.01
59 58 0.79
60 14 0.19
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (58 bp):
AATTTAGAATGAGAATCATAGTTTAGGGATAAATTAGAATATTAAAAGTTTAAGAACT
Found at i:26109 original size:38 final size:38
Alignment explanation
Indices: 26063--26142 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
26053 AGCTTAATGT
*
26063 TAAATTTTTGAA-AG-AGGTATTAAAATGAAACAAAAAC
1 TAAATTTTT-AACAGCAGGTACTAAAATGAAACAAAAAC
*
26100 TAAAGTTTTTAACAGCGGGTACTAAAATGAAACAAAAAC
1 TAAA-TTTTTAACAGCAGGTACTAAAATGAAACAAAAAC
26139 TAAA
1 TAAA
26143 CTTAGGTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 6 0.16
38 7 0.18
39 25 0.66
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.25
Consensus pattern (38 bp):
TAAATTTTTAACAGCAGGTACTAAAATGAAACAAAAAC
Found at i:35476 original size:15 final size:15
Alignment explanation
Indices: 35453--35482 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35443 TATCGCCGAT
*
35453 CGAATTTCACTATTC
1 CGAAATTCACTATTC
35468 CGAAATTCACTATTC
1 CGAAATTCACTATTC
35483 ACGTGATAGT
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:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (15 bp):
CGAAATTCACTATTC
Found at i:37636 original size:14 final size:14
Alignment explanation
Indices: 37619--37646 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37609 TAAAAGAAAT
37619 TATTTAAATTTAAA
1 TATTTAAATTTAAA
37633 TATTTAAATTTAAA
1 TATTTAAATTTAAA
37647 ATAAGTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTAAATTTAAA
Found at i:38475 original size:21 final size:18
Alignment explanation
Indices: 38422--38476 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
38412 TATAAAAATT
*
38422 AATTACAATTTTAAGACA
1 AATTACAATTTTAATACA
38440 AATTAC-ATGTTTAATACCTA
1 AATTACAAT-TTTAATA-C-A
38460 AATTATCAATTTTAATA
1 AATTA-CAATTTTAATA
38477 TATTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 1 0.03
20 6 0.19
21 8 0.26
22 2 0.06
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (18 bp):
AATTACAATTTTAATACA
Found at i:43034 original size:16 final size:15
Alignment explanation
Indices: 42990--43048 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
42980 TGTCTCGTAA
*
42990 TAAAAATTG-AATTT
1 TAAAAATAGAAATTT
43004 TAAAAATAGAAATTT
1 TAAAAATAGAAATTT
43019 TAAATAATTA-AAA-TT
1 TAAA-AA-TAGAAATTT
43034 TAAAGAATAGAAATT
1 TAAA-AATAGAAATT
43049 AAACAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 10 0.26
15 20 0.53
16 6 0.16
17 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (15 bp):
TAAAAATAGAAATTT
Found at i:45202 original size:2 final size:2
Alignment explanation
Indices: 45195--45230 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
45185 TCATGTTCGG
45195 AT AT AT AT CA- 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
45231 GCACAAATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47468 original size:13 final size:15
Alignment explanation
Indices: 47452--47484 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
47442 CTTTTTTTTC
47452 GATATTT-GATTT-A
1 GATATTTGGATTTAA
47465 GATATTTGGATTTAA
1 GATATTTGGATTTAA
47480 GATAT
1 GATAT
47485 GGGTTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (15 bp):
GATATTTGGATTTAA
Found at i:48892 original size:33 final size:34
Alignment explanation
Indices: 48846--48910 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
48836 ACTGCACCTG
*
48846 GATGGTCATATTCGGG-TTTTTACTAACCGAGAT
1 GATGGTCACATTCGGGTTTTTTACTAACCGAGAT
48879 GATGGTCACATTCGGGTTTTTTACTAACCGAG
1 GATGGTCACATTCGGGTTTTTTACTAACCGAG
48911 TGACATCCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (34 bp):
GATGGTCACATTCGGGTTTTTTACTAACCGAGAT
Found at i:49738 original size:14 final size:14
Alignment explanation
Indices: 49719--49749 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49709 AATGAACATA
49719 AACGAACACAAACG
1 AACGAACACAAACG
*
49733 AACGAACATAAACG
1 AACGAACACAAACG
49747 AAC
1 AAC
49750 ACAAATGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.26, G:0.13, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:49744 original size:24 final size:24
Alignment explanation
Indices: 49712--49773 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
49702 AATGATAAAT
49712 GAACATAAACGAACACAAACGAAC
1 GAACATAAACGAACACAAACGAAC
*
49736 GAACATAAACGAACACAAATGAAC
1 GAACATAAACGAACACAAACGAAC
*
49760 AAACAT-AACGAACA
1 GAACATAAACGAACA
49774 ACACAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.60, C:0.23, G:0.11, T:0.06
Consensus pattern (24 bp):
GAACATAAACGAACACAAACGAAC
Found at i:49783 original size:32 final size:33
Alignment explanation
Indices: 49733--49795 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
49723 AACACAAACG
* **
49733 AACGAACATAAACGAACACAAATGAACAAACAT
1 AACGAACATAAACAAACACAAAAAAACAAACAT
*
49766 AACGAACA-ACACAAACACAAAAAAACAAAC
1 AACGAACATAAACAAACACAAAAAAACAAAC
49796 TTATTCGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.65, C:0.24, G:0.06, T:0.05
Consensus pattern (33 bp):
AACGAACATAAACAAACACAAAAAAACAAACAT
Found at i:54254 original size:29 final size:29
Alignment explanation
Indices: 54212--54268 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
54202 AATCACTCAG
* *
54212 GGCCCCCAAATTTTTTATATTTATAATTA
1 GGCCCCCAAATTTTTTACATTCATAATTA
54241 GGCCTCCC-AATTTTTTACATTCATAATT
1 GGCC-CCCAAATTTTTTACATTCATAATT
54269 GGGACCCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (29 bp):
GGCCCCCAAATTTTTTACATTCATAATTA
Found at i:54425 original size:116 final size:116
Alignment explanation
Indices: 54252--54488 Score: 325
Period size: 116 Copynumber: 2.0 Consensus size: 116
54242 GCCTCCCAAT
* * * *
54252 TTTTTACATTCATAATTGGGACCCTTAATTTTTATAATTTCATAAAGTTTTTAGTTTTAGATCCT
1 TTTTTACATTCATAATTGGGACCCCTAATTTTTATAATTTCATAAAATATTTAGTTTTAGACCCT
* * * *
54317 CCTTTTT-CATTTCTCTTATTAATTTATTCAATTTTGAATTAAATTTAACCA
66 -ATTTTTCCATTTCTCTTATTAATTCATTCAATTTTGAACTAAATCTAACCA
* * *
54368 TTTTTATATTTATAATTCGGG-CCCCTAATTTTTATAATTTCATAAAATATTTAGTTTTTGACCC
1 TTTTTACATTCATAATT-GGGACCCCTAATTTTTATAATTTCATAAAATATTTAGTTTTAGACCC
* *
54432 TATTTTTCCATTTCTCTTATTTATTCATTCAATTTTGAACTAAATCTAATCA
65 TATTTTTCCATTTCTCTTATTAATTCATTCAATTTTGAACTAAATCTAACCA
54484 TTTTT
1 TTTTT
54489 TCTCTTTTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
115 5 0.05
116 98 0.92
117 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.52
Consensus pattern (116 bp):
TTTTTACATTCATAATTGGGACCCCTAATTTTTATAATTTCATAAAATATTTAGTTTTAGACCCT
ATTTTTCCATTTCTCTTATTAATTCATTCAATTTTGAACTAAATCTAACCA
Found at i:55253 original size:2 final size:2
Alignment explanation
Indices: 55246--55328 Score: 141
Period size: 2 Copynumber: 42.0 Consensus size: 2
55236 TCTTACTTTG
*
55246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
55288 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55329 GAGCAAATGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Done.