Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008272.1 Corchorus capsularis cultivar CVL-1 contig08293, 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: 110807
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--85 Score: 161
Period size: 2 Copynumber: 42.5 Consensus size: 2
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
43 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
85 C
1 C
86 ACACACACAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:547 original size:21 final size:21
Alignment explanation
Indices: 518--557 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
508 TGGAAGAAAA
*
518 CCAACATATATTATTATATATT
1 CCAACATATAATATT-TATATT
540 CCAA-ATATAATATTTATA
1 CCAACATATAATATTTATA
558 AAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
CCAACATATAATATTTATATT
Found at i:16254 original size:1 final size:1
Alignment explanation
Indices: 16248--16273 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
16238 GAATTCTGGG
16248 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
16274 GCTTTATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17466 original size:62 final size:63
Alignment explanation
Indices: 17369--17489 Score: 181
Period size: 62 Copynumber: 1.9 Consensus size: 63
17359 GCGTATTGAG
* * * *
17369 TATTTTTTTTGTTTAAATTGCTATTTTTCATATTTGT-ATTTTTCCCTTTGAATTACTACTGT
1 TATTTTTTTTGTTTAAAATCCTATTTCTCATATTTGTAATTTTTCCCCTTGAATTACTACTGT
* *
17431 TATTTTTTTTTTTTAAAATCCTATTTCTCATATTTGTAATTTTTCCCCTTGATTTACTA
1 TATTTTTTTTGTTTAAAATCCTATTTCTCATATTTGTAATTTTTCCCCTTGAATTACTA
17490 TTTCTTTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
62 33 0.63
63 19 0.37
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (63 bp):
TATTTTTTTTGTTTAAAATCCTATTTCTCATATTTGTAATTTTTCCCCTTGAATTACTACTGT
Found at i:25866 original size:23 final size:25
Alignment explanation
Indices: 25834--25882 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25824 GATCTGAATC
25834 TAACCCAA-CCTAA-AACCGAAAAT
1 TAACCCAACCCTAATAACCGAAAAT
* *
25857 TAACCGAACCCTAATAACCTAAAAT
1 TAACCCAACCCTAATAACCGAAAAT
25882 T
1 T
25883 TCCTTACCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 5 0.23
25 10 0.45
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (25 bp):
TAACCCAACCCTAATAACCGAAAAT
Found at i:27567 original size:123 final size:123
Alignment explanation
Indices: 27348--27594 Score: 404
Period size: 123 Copynumber: 2.0 Consensus size: 123
27338 TGTGGTGATC
*
27348 TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTAAGGCACTTTTTGAGAAGGACAAATC
1 TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTAAGGCACCTTTTGAGAAGGACAAATC
*
27413 TGTGAAGCCTTTGGGCCAAAACGGACAATACCTCGCAGGTTGGGCCGGATCTCTACAG
66 CGTGAAGCCTTTGGGCCAAAACGGACAATACCTCGCAGGTTGGGCCGGATCTCTACAG
* ** *
27471 TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTGAGGTGCCTTTTGAGAAGGGCAAATC
1 TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTAAGGCACCTTTTGAGAAGGACAAATC
* * * *
27536 CGTGAGGCCTTTGGGTCAAAGCGGACAATACCTCGCAGGTTGGGCCGGGTCTCTACAG
66 CGTGAAGCCTTTGGGCCAAAACGGACAATACCTCGCAGGTTGGGCCGGATCTCTACAG
27594 T
1 T
27595 TGGTATCAGA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 114 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (123 bp):
TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTAAGGCACCTTTTGAGAAGGACAAATC
CGTGAAGCCTTTGGGCCAAAACGGACAATACCTCGCAGGTTGGGCCGGATCTCTACAG
Found at i:29360 original size:39 final size:39
Alignment explanation
Indices: 29271--29489 Score: 370
Period size: 39 Copynumber: 5.7 Consensus size: 39
29261 GGCTGTGCAT
29271 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGT-AAG
1 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
29309 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
1 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
* *
29348 AGTGGATCCGCGCCTCAGGGGGTTAAACTGATGGTAAAT
1 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
*
29387 AGTGGATCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
1 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
* *
29426 AGTGGACCCGTGCCTCAGGGGGTTAAACTGTTGGT-AAG
1 AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
*
29464 AGTGGACCCGTGCCTCAGGGGGTTAA
1 AGTGGACCCGCGCCTCAGGGGGTTAA
29490 CTGTTGGCTA
Statistics
Matches: 174, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 64 0.37
39 110 0.63
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.21
Consensus pattern (39 bp):
AGTGGACCCGCGCCTCAGGGGGTTAAACTGATGGTAAAG
Found at i:30591 original size:320 final size:319
Alignment explanation
Indices: 30005--30642 Score: 1116
Period size: 320 Copynumber: 2.0 Consensus size: 319
29995 GACAATTTAG
*
30005 TGGTATCAGAGCTTTAACCGGGCGTGTAGCGGGAGCTAAGTGCTACACCGTGGGAGTGCGGTGGG
1 TGGTATCAGAGCTTTAACCGGGCGTGTAGCGGGAGCTAAGTGCTACACCGTGGGAGTGCGATGGG
* *
30070 AGCCACCTCTAGAATCCCGACGCCCGGTGGGTTCTGGTGATTGTGTTGTGTGGGCTTGTCGGGGA
66 AGCCACCTCTAGAATCCCGACGCCCGGTGGGTCCTGGTGATTGTGTTGTGTCGGCTTGTCGGGGA
* *
30135 CGATAAGCCTATAAGGGGGTAGATTGTGACGCCCCAAGATCCGACATCAGGAGGATGTGGTGATC
131 CGACAAGCCTATAAGGGGGTAGATTGTGACGCCCCAAGATCCCACATCAGGAGGATGTGGTGATC
*
30200 TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTGAGGCGCCTTTTGGGAAGGACAAATC
196 TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTGAGGCGCCTTTTGAGAAGGACAAATC
* **
30265 CGTGAGGCCTTTGGGCCAAAGCGGACAATACCTCGCAGGTTGGGCCGGGTCTCTACAGC
261 CGTGAGGCCTTTGGACCAAAGCGGACAATACCTCGCAGGTTGAACCGGGTCTCTACAGC
* *
30324 TGGTAATCAGAGCTTTAATCGGGCGTGTAGCGGGAGCTAAGTGCTACATCGTGGGAGTGCGATGG
1 TGGT-ATCAGAGCTTTAACCGGGCGTGTAGCGGGAGCTAAGTGCTACACCGTGGGAGTGCGATGG
30389 GAGCCACCTCTAGAATCCCGACGCCCGGTGGGTCCTGGTGATTGTGATTGTGTCGGCTTGTCGGG
65 GAGCCACCTCTAGAATCCCGACGCCCGGTGGGTCCTGGTGATTGTG-TTGTGTCGGCTTGTCGGG
30454 GACGACAAGCCTATAA-GGGGTAGATTGTGACGCCCCAAGATCCCACATCAGGAGGATGTGGTGA
129 GACGACAAGCCTATAAGGGGGTAGATTGTGACGCCCCAAGATCCCACATCAGGAGGATGTGGTGA
*
30518 TCTATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTGAGGCGCCTTTTGAGAAGGGCAAA
194 TCTATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTGAGGCGCCTTTTGAGAAGGACAAA
* * *
30583 TCCGTGAGGTCTTTGGATCAAAGTGGACAATACCTCGCAGGTTGAACCGGGTCTCTACAG
259 TCCGTGAGGCCTTTGGACCAAAGCGGACAATACCTCGCAGGTTGAACCGGGTCTCTACAG
30643 ATAGAGACCA
Statistics
Matches: 302, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
319 4 0.01
320 266 0.88
321 32 0.11
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (319 bp):
TGGTATCAGAGCTTTAACCGGGCGTGTAGCGGGAGCTAAGTGCTACACCGTGGGAGTGCGATGGG
AGCCACCTCTAGAATCCCGACGCCCGGTGGGTCCTGGTGATTGTGTTGTGTCGGCTTGTCGGGGA
CGACAAGCCTATAAGGGGGTAGATTGTGACGCCCCAAGATCCCACATCAGGAGGATGTGGTGATC
TATTGTGGTTTATATAATAGAGATCCAACCCAAACTTGTGAGGCGCCTTTTGAGAAGGACAAATC
CGTGAGGCCTTTGGACCAAAGCGGACAATACCTCGCAGGTTGAACCGGGTCTCTACAGC
Found at i:32462 original size:93 final size:92
Alignment explanation
Indices: 32303--32482 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 92
32293 TACCTTTCTC
32303 TTTTACAATAATCTGCAGATTATATTAATCAAAGGGTTAAATTCATTGAAACTTTTTGACACTTT
1 TTTTACAATAATCTGCAGATTATATTAATCAAAGGGTTAAATTCATTGAAACTTTTTGACACTTT
32368 TGACAGCAAAAGTTAATAGGAAAAAGCT
66 TGACAGC-AAAGTTAATAGGAAAAAGCT
*
32396 TTTTACAATTATCATGCAGATTATGA-TAATCAAAGGGTTAAATT-ATTGAAACTTTTTGACACT
1 TTTTACAATAATC-TGCAGATTAT-ATTAATCAAAGGGTTAAATTCATTGAAACTTTTTGACACT
32459 TTTGACAGCAAAGTTAATAGGAAA
64 TTTGACAGCAAAGTTAATAGGAAA
32483 TTAAGCCTAA
Statistics
Matches: 84, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
92 15 0.18
93 40 0.48
94 28 0.33
95 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (92 bp):
TTTTACAATAATCTGCAGATTATATTAATCAAAGGGTTAAATTCATTGAAACTTTTTGACACTTT
TGACAGCAAAGTTAATAGGAAAAAGCT
Found at i:43979 original size:53 final size:53
Alignment explanation
Indices: 43899--44005 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
43889 TGGCTGTTTT
*
43899 ATTTTATAAATTCTTTTAAGAAAATTCAGTTAAGAAATCAAATTTTGTTGTGA
1 ATTTTATAAATTCTCTTAAGAAAATTCAGTTAAGAAATCAAATTTTGTTGTGA
43952 ATTTTATAAATTCTCTTAAGAAAATTCAGTTAAGAAATCAAATTTTGTTGTGA
1 ATTTTATAAATTCTCTTAAGAAAATTCAGTTAAGAAATCAAATTTTGTTGTGA
44005 A
1 A
44006 ATGATAACAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (53 bp):
ATTTTATAAATTCTCTTAAGAAAATTCAGTTAAGAAATCAAATTTTGTTGTGA
Found at i:45460 original size:18 final size:19
Alignment explanation
Indices: 45422--45470 Score: 82
Period size: 18 Copynumber: 2.6 Consensus size: 19
45412 GCGACGTGGC
*
45422 ATGCCACATGTACCAAAAA
1 ATGCCACGTGTACCAAAAA
45441 ATGCCACGTGTACC-AAAA
1 ATGCCACGTGTACCAAAAA
45459 ATGCCACGTGTA
1 ATGCCACGTGTA
45471 GAAAAGGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (19 bp):
ATGCCACGTGTACCAAAAA
Found at i:50995 original size:15 final size:15
Alignment explanation
Indices: 50975--51004 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50965 CGTGATTGAA
50975 GTAATTTCAAGTATT
1 GTAATTTCAAGTATT
*
50990 GTAATTTTAAGTATT
1 GTAATTTCAAGTATT
51005 CTTTTTTCTT
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:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (15 bp):
GTAATTTCAAGTATT
Found at i:51418 original size:45 final size:45
Alignment explanation
Indices: 51354--51444 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
51344 TTGGGGGAAA
51354 CAGCGTTTTATATTGATCAGCTCGTGGTTACAGAATGCGAAAAGG
1 CAGCGTTTTATATTGATCAGCTCGTGGTTACAGAATGCGAAAAGG
51399 CAGCGTTTTATATTGATCAGCTCGTGGTTACAGAATGCGAAAAGG
1 CAGCGTTTTATATTGATCAGCTCGTGGTTACAGAATGCGAAAAGG
51444 C
1 C
51445 CAAGCCCTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (45 bp):
CAGCGTTTTATATTGATCAGCTCGTGGTTACAGAATGCGAAAAGG
Found at i:53762 original size:16 final size:17
Alignment explanation
Indices: 53743--53775 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
53733 AATTCGCCTG
*
53743 AATCCGAATCC-GAAAA
1 AATCCAAATCCGGAAAA
53759 AATCCAAATCCGGAAAA
1 AATCCAAATCCGGAAAA
53776 GCTCAAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (17 bp):
AATCCAAATCCGGAAAA
Found at i:53989 original size:16 final size:15
Alignment explanation
Indices: 53964--54024 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
53954 ACCGAAGCCG
*
53964 AATTAACTTGACCCA
1 AATTAACCTGACCCA
* *
53979 AATTCAACTTGAACCCG
1 AATT-AACCTG-ACCCA
* *
53996 AATTAACCTAACTCA
1 AATTAACCTGACCCA
54011 AATTCAACCTGACC
1 AATT-AACCTGACC
54025 TGACTCAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 11 0.31
16 17 0.47
17 8 0.22
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.25
Consensus pattern (15 bp):
AATTAACCTGACCCA
Found at i:73008 original size:15 final size:15
Alignment explanation
Indices: 72988--73016 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
72978 GGGTGTTTTT
72988 AATATAAAACATATC
1 AATATAAAACATATC
73003 AATATAAAACATAT
1 AATATAAAACATAT
73017 TAAACAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAAAACATATC
Found at i:82028 original size:11 final size:11
Alignment explanation
Indices: 82012--82046 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
82002 TTTTTCTGTT
82012 TTTTGTTTTTG
1 TTTTGTTTTTG
*
82023 TTTTGTTTTCG
1 TTTTGTTTTTG
82034 TTTTGTTTTTG
1 TTTTGTTTTTG
82045 TT
1 TT
82047 GCGCTGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.80
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:84053 original size:13 final size:13
Alignment explanation
Indices: 84022--84079 Score: 52
Period size: 12 Copynumber: 4.7 Consensus size: 13
84012 TAAACCTGGT
84022 GCTAAATTTG-T-
1 GCTAAATTTGATA
*
84033 GTCTAAATTTTATA
1 G-CTAAATTTGATA
*
84047 GCTAAATCTGAT-
1 GCTAAATTTGATA
*
84059 GTTAAATTTGATA
1 GCTAAATTTGATA
84072 -CTAAATTT
1 GCTAAATTT
84080 TAGAAATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
11 1 0.03
12 25 0.68
13 10 0.27
14 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (13 bp):
GCTAAATTTGATA
Found at i:84053 original size:25 final size:25
Alignment explanation
Indices: 84022--84079 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
84012 TAAACCTGGT
*
84022 GCTAAATTTG-TGTCTAAATTTTATA
1 GCTAAATTTGATGT-TAAATTTGATA
*
84047 GCTAAATCTGATGTTAAATTTGATA
1 GCTAAATTTGATGTTAAATTTGATA
84072 -CTAAATTT
1 GCTAAATTT
84080 TAGAAATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 7 0.24
25 19 0.66
26 3 0.10
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (25 bp):
GCTAAATTTGATGTTAAATTTGATA
Found at i:97921 original size:20 final size:20
Alignment explanation
Indices: 97896--97935 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
97886 TTGATGACTG
97896 AAGCAAGTCATAAAGTAAAA
1 AAGCAAGTCATAAAGTAAAA
97916 AAGCAAGTCATAAAGTAAAA
1 AAGCAAGTCATAAAGTAAAA
97936 GATTTGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (20 bp):
AAGCAAGTCATAAAGTAAAA
Found at i:98095 original size:61 final size:61
Alignment explanation
Indices: 98000--98116 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 61
97990 GACAAACGTC
* *
98000 AACACAAGTTGCTTGACTTTTGACTCTGTAAGTCAAGTGTTAAGTTGCCTTTTCTTTATTT
1 AACACAAATTGCTTGACTTTTGACTCTGTAAGTCAAGTGCTAAGTTGCCTTTTCTTTATTT
98061 AACACAAATTGCTTGACTTTTGACTCTGTAAGTCAAGTGCTAAGTTGCCTTTTCTT
1 AACACAAATTGCTTGACTTTTGACTCTGTAAGTCAAGTGCTAAGTTGCCTTTTCTT
98117 CATGAATTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (61 bp):
AACACAAATTGCTTGACTTTTGACTCTGTAAGTCAAGTGCTAAGTTGCCTTTTCTTTATTT
Found at i:101996 original size:25 final size:27
Alignment explanation
Indices: 101949--101998 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
101939 TGCAACTTGT
* *
101949 TTCCATTAAAAAAAGTATCAGGGATTC
1 TTCCATCAAAAAAAGTATAAGGGATTC
101976 TTCCATCAAAAAAA-T-TAAGGGAT
1 TTCCATCAAAAAAAGTATAAGGGAT
101999 AAAGAAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 1 0.05
27 13 0.62
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (27 bp):
TTCCATCAAAAAAAGTATAAGGGATTC
Done.