Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012936.1 Corchorus olitorius cultivar O-4 contig12969, 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: 65493
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:918 original size:3 final size:3
Alignment explanation
Indices: 905--947 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
895 GCCACCCTGC
* * * *
905 TTA TAA TTA TTA TTA TTA GTG TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
948 AAATTTTGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:6037 original size:28 final size:30
Alignment explanation
Indices: 6001--6056 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
5991 AACAGACATA
*
6001 TGTGCGTATATATATA-G-ATATATATATG
1 TGTGCGTATATACATATGTATATATATATG
*
6029 TGTGTGTATATACATATGTATATATATA
1 TGTGCGTATATACATATGTATATATATA
6057 CACATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.58
29 1 0.04
30 9 0.38
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (30 bp):
TGTGCGTATATACATATGTATATATATATG
Found at i:9616 original size:5 final size:5
Alignment explanation
Indices: 9606--9636 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
9596 TCTTTGTCAC
9606 TCCCT TCCCT TCCCT TCCCT TCCCT TCCCT T
1 TCCCT TCCCT TCCCT TCCCT TCCCT TCCCT T
9637 GTAGATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
TCCCT
Found at i:17651 original size:12 final size:12
Alignment explanation
Indices: 17634--17659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17624 TTTAGATTTA
17634 TTCTTCTAGTTT
1 TTCTTCTAGTTT
17646 TTCTTCTAGTTT
1 TTCTTCTAGTTT
17658 TT
1 TT
17660 AGGCAAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (12 bp):
TTCTTCTAGTTT
Found at i:18972 original size:235 final size:235
Alignment explanation
Indices: 18561--19035 Score: 950
Period size: 235 Copynumber: 2.0 Consensus size: 235
18551 TTCTTGCCCT
18561 ATCTACTTAGTTAGGATTTAGTGGGGATTATTTTTATGATTGCTGACGACCGATCATAAACATAA
1 ATCTACTTAGTTAGGATTTAGTGGGGATTATTTTTATGATTGCTGACGACCGATCATAAACATAA
18626 GTTAAGTTTTTCAATCAAAGAGAGTTCTTTTGAGAATTTAGCTCCATTGTTTTAGTTTGAGCATA
66 GTTAAGTTTTTCAATCAAAGAGAGTTCTTTTGAGAATTTAGCTCCATTGTTTTAGTTTGAGCATA
18691 CTTAGGATCTCTTCAATCTTGTAGAGTCCTAGCAAACAATCAGATAGTGATTATCTAGTTGTGTT
131 CTTAGGATCTCTTCAATCTTGTAGAGTCCTAGCAAACAATCAGATAGTGATTATCTAGTTGTGTT
18756 TCTTGTGATCTTAAGTTGTCAATTGCAGGTCTAATTGATC
196 TCTTGTGATCTTAAGTTGTCAATTGCAGGTCTAATTGATC
18796 ATCTACTTAGTTAGGATTTAGTGGGGATTATTTTTATGATTGCTGACGACCGATCATAAACATAA
1 ATCTACTTAGTTAGGATTTAGTGGGGATTATTTTTATGATTGCTGACGACCGATCATAAACATAA
18861 GTTAAGTTTTTCAATCAAAGAGAGTTCTTTTGAGAATTTAGCTCCATTGTTTTAGTTTGAGCATA
66 GTTAAGTTTTTCAATCAAAGAGAGTTCTTTTGAGAATTTAGCTCCATTGTTTTAGTTTGAGCATA
18926 CTTAGGATCTCTTCAATCTTGTAGAGTCCTAGCAAACAATCAGATAGTGATTATCTAGTTGTGTT
131 CTTAGGATCTCTTCAATCTTGTAGAGTCCTAGCAAACAATCAGATAGTGATTATCTAGTTGTGTT
18991 TCTTGTGATCTTAAGTTGTCAATTGCAGGTCTAATTGATC
196 TCTTGTGATCTTAAGTTGTCAATTGCAGGTCTAATTGATC
19031 ATCTA
1 ATCTA
19036 GGGCCGACGA
Statistics
Matches: 240, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 240 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (235 bp):
ATCTACTTAGTTAGGATTTAGTGGGGATTATTTTTATGATTGCTGACGACCGATCATAAACATAA
GTTAAGTTTTTCAATCAAAGAGAGTTCTTTTGAGAATTTAGCTCCATTGTTTTAGTTTGAGCATA
CTTAGGATCTCTTCAATCTTGTAGAGTCCTAGCAAACAATCAGATAGTGATTATCTAGTTGTGTT
TCTTGTGATCTTAAGTTGTCAATTGCAGGTCTAATTGATC
Found at i:26867 original size:16 final size:15
Alignment explanation
Indices: 26846--26888 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
26836 TTTACTTGTT
26846 TTGTTTTCTAGTTTAA
1 TTGTTTTCT-GTTTAA
26862 TTGTTTTTCTGTTTAA
1 TTG-TTTTCTGTTTAA
*
26878 TTGCTTTCTGT
1 TTGTTTTCTGT
26889 CAATCTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 12 0.48
17 6 0.24
ACGTcount: A:0.12, C:0.09, G:0.14, T:0.65
Consensus pattern (15 bp):
TTGTTTTCTGTTTAA
Found at i:28472 original size:17 final size:17
Alignment explanation
Indices: 28450--28487 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
28440 TATCTCTTTG
28450 TGCTT-CATGCATCTCCA
1 TGCTTCCATGCA-CTCCA
*
28467 TGCTTCCTTGCACTCCA
1 TGCTTCCATGCACTCCA
28484 TGCT
1 TGCT
28488 CATCCTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.13, C:0.37, G:0.13, T:0.37
Consensus pattern (17 bp):
TGCTTCCATGCACTCCA
Found at i:32962 original size:81 final size:82
Alignment explanation
Indices: 32815--32981 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 82
32805 GTTCAATATG
* *
32815 GTCCCTAATTTAGGATTCTATTTACTATTCGATACAATTTAGTCCCTGATTTAGGATTCTATTTA
1 GTCCCTAATTTAGGATTCTAATTACTATTCGATACAATTTAGTCCCTGATTTAGGATTCTAATTA
32880 CTATTTGATACAATTTA
66 CTATTTGATACAATTTA
* * * *
32897 GTCCCTGATTTAGGATTCTAATTACTATT-TATTCAATTTGGTCCCTGATTTAGGATTCTAATTA
1 GTCCCTAATTTAGGATTCTAATTACTATTCGATACAATTTAGTCCCTGATTTAGGATTCTAATTA
* *
32961 CTATTTGATTCAATTTG
66 CTATTTGATACAATTTA
32978 GTCC
1 GTCC
32982 TTATTTTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 50 0.65
82 27 0.35
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (82 bp):
GTCCCTAATTTAGGATTCTAATTACTATTCGATACAATTTAGTCCCTGATTTAGGATTCTAATTA
CTATTTGATACAATTTA
Found at i:33012 original size:81 final size:78
Alignment explanation
Indices: 32806--33070 Score: 230
Period size: 81 Copynumber: 3.3 Consensus size: 78
32796 TGTTTCTGTG
* * * * * *
32806 TTCAATATGGTCCCTAATTTAGGATTCTATTTACTATTCGATACAATTTAGTCCCTGATTTAGGA
1 TTCAATTTGGTCCCTGATTT---ATTCTAATTACTATT-TATTCAATTTGGTCCCTGATTTAGGA
32871 TTCTATTTACTATTTGA
62 TTCTATTTACTATTTGA
* *
32888 TACAATTTAGTCCCTGATTTAGGATTCTAATTACTATTTATTCAATTTGGTCCCTGATTTAGGAT
1 TTCAATTTGGTCCCTGATTT---ATTCTAATTACTATTTATTCAATTTGGTCCCTGATTTAGGAT
*
32953 TCTAATTACTATTTGA
63 TCTATTTACTATTTGA
* ** * * *
32969 TTCAATTTGGT-CCTTATTT-TTCTATAGTTGTGTGATTTCATTCAACTTGGTCCCTAATTTAAG
1 TTCAATTTGGTCCCTGATTTATTCTA-A-TT-ACT-ATTT-ATTCAATTTGGTCCCTGATTTAGG
* *
33032 -TTGCTATTTATTGTTTGA
61 ATT-CTATTTACTATTTGA
*
33050 TTCAATTTGGCCCCTGATTTA
1 TTCAATTTGGTCCCTGATTTA
33071 GAACATTTAT
Statistics
Matches: 153, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
76 5 0.03
77 1 0.01
78 2 0.01
79 1 0.01
80 13 0.08
81 91 0.59
82 40 0.26
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.47
Consensus pattern (78 bp):
TTCAATTTGGTCCCTGATTTATTCTAATTACTATTTATTCAATTTGGTCCCTGATTTAGGATTCT
ATTTACTATTTGA
Found at i:33070 original size:41 final size:41
Alignment explanation
Indices: 32806--33071 Score: 267
Period size: 41 Copynumber: 6.5 Consensus size: 41
32796 TGTTTCTGTG
* * *
32806 TTCAATATGGTCCCTAATTTAGGATTCTATTTACTATTCGA
1 TTCAATTTGGTCCCTGATTTAGGATTCTATTTACTATTTGA
* *
32847 TACAATTTAGTCCCTGATTTAGGATTCTATTTACTATTTGA
1 TTCAATTTGGTCCCTGATTTAGGATTCTATTTACTATTTGA
* * *
32888 TACAATTTAGTCCCTGATTTAGGATTCTAATTACTATTT-A
1 TTCAATTTGGTCCCTGATTTAGGATTCTATTTACTATTTGA
*
32928 TTCAATTTGGTCCCTGATTTAGGATTCTAATTACTATTTGA
1 TTCAATTTGGTCCCTGATTTAGGATTCTATTTACTATTTGA
* ** *
32969 TTCAATTTGGT-CCTTATTT----TTCTATAGTTGTGTGATTTCA
1 TTCAATTTGGTCCCTGATTTAGGATTCTAT--TT-ACT-ATTTGA
* * * * *
33009 TTCAACTTGGTCCCTAATTTAAG-TTGCTATTTATTGTTTGA
1 TTCAATTTGGTCCCTGATTTAGGATT-CTATTTACTATTTGA
*
33050 TTCAATTTGGCCCCTGATTTAG
1 TTCAATTTGGTCCCTGATTTAG
33072 AACATTTATG
Statistics
Matches: 192, Mismatches: 23, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
36 5 0.03
38 2 0.01
39 1 0.01
40 60 0.31
41 115 0.60
42 1 0.01
43 2 0.01
44 2 0.01
45 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (41 bp):
TTCAATTTGGTCCCTGATTTAGGATTCTATTTACTATTTGA
Found at i:38549 original size:21 final size:21
Alignment explanation
Indices: 38523--38566 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
38513 CCAATCAATT
38523 AAGAACCCTAATTTTGAACTC
1 AAGAACCCTAATTTTGAACTC
*
38544 AAGAACCCTAATTTTGAATTC
1 AAGAACCCTAATTTTGAACTC
38565 AA
1 AA
38567 TGAGCTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (21 bp):
AAGAACCCTAATTTTGAACTC
Found at i:41231 original size:21 final size:21
Alignment explanation
Indices: 41207--41247 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41197 TAAATTTCTC
*
41207 TATCATTCATGTATTTATCTT
1 TATCATTCATGTATCTATCTT
*
41228 TATCATTTATGTATCTATCT
1 TATCATTCATGTATCTATCT
41248 CGTCTATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.05, T:0.56
Consensus pattern (21 bp):
TATCATTCATGTATCTATCTT
Found at i:44479 original size:11 final size:11
Alignment explanation
Indices: 44463--44527 Score: 121
Period size: 11 Copynumber: 5.9 Consensus size: 11
44453 ATTAAAATAA
44463 AGATCAATTTC
1 AGATCAATTTC
*
44474 AGATCACTTTC
1 AGATCAATTTC
44485 AGATCAATTTC
1 AGATCAATTTC
44496 AGATCAATTTC
1 AGATCAATTTC
44507 AGATCAATTTC
1 AGATCAATTTC
44518 AGATCAATTT
1 AGATCAATTT
44528 AAACATAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 52 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (11 bp):
AGATCAATTTC
Found at i:44962 original size:30 final size:31
Alignment explanation
Indices: 44893--44964 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
44883 GGGCAATCAA
* *
44893 GCCTTAAATTGAAACAAATCAATATAAGCAC
1 GCCTCAAATTGAAACAAATAAATATAAGCAC
* * *
44924 GCCTCAAATTGCAACAATTAAATAT-AGCAG
1 GCCTCAAATTGAAACAAATAAATATAAGCAC
*
44954 GTCTCAAATTG
1 GCCTCAAATTG
44965 TAGTAATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 14 0.40
31 21 0.60
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (31 bp):
GCCTCAAATTGAAACAAATAAATATAAGCAC
Found at i:45998 original size:22 final size:22
Alignment explanation
Indices: 45973--46046 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
45963 CTGGACATCT
45973 CTTGCTGATTTGAGCTTTGAAC
1 CTTGCTGATTTGAGCTTTGAAC
* *
45995 CTTGCTGATTTGGACGTTCTTGGAC
1 CTTGCTGATTT-GA-GCT-TTGAAC
*
46020 CTTTGCTGGTTTGAGCTTTGAAC
1 C-TTGCTGATTTGAGCTTTGAAC
46043 CTTG
1 CTTG
46047 TGTGTATGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 14 0.33
23 8 0.19
24 4 0.09
25 8 0.19
26 9 0.21
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.42
Consensus pattern (22 bp):
CTTGCTGATTTGAGCTTTGAAC
Found at i:53753 original size:134 final size:133
Alignment explanation
Indices: 53586--53846 Score: 362
Period size: 134 Copynumber: 1.9 Consensus size: 133
53576 AAAAATATAA
*
53586 TTTAAAAATTCAAATATATATAAGAATTTTTTAATTAAATTAGTAAAATGATAAAAATAAAATAG
1 TTTAAAAATTCAAATATATATAAG-ATTTTTTAATTAAAATAGTAAAATGATAAAAATAAAATAG
* * *
53651 GTATAAGGATATTCGATTTAATTAAATAAAAAATAGAGCTTTTAATTGAGTAAAACTATAAAAGT
65 GTATAAGGATATTAGATTTAATTAAAT-AAAAATAGAGATTTTAATTGAATAAAACTATAAAAGT
53716 ATATT
129 ATATT
* * * * *
53721 TTTAAAAAGTTCTAATATATATATG-TTTTTTAATTAAAATAGTAAAATGGTATAAATTAAATAG
1 TTTAAAAA-TTCAAATATATATAAGATTTTTTAATTAAAATAGTAAAATGATAAAAATAAAATAG
* ** * *
53785 TTATAAGGATATTATTTTTAATTTAATAAAAATAGAGATTTTAGTTGAATAAAACTATAAAA
65 GTATAAGGATATTAGATTTAATTAAATAAAAATAGAGATTTTAATTGAATAAAACTATAAAA
53847 ATTTAAATAA
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
133 32 0.29
134 57 0.51
135 8 0.07
136 14 0.13
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (133 bp):
TTTAAAAATTCAAATATATATAAGATTTTTTAATTAAAATAGTAAAATGATAAAAATAAAATAGG
TATAAGGATATTAGATTTAATTAAATAAAAATAGAGATTTTAATTGAATAAAACTATAAAAGTAT
ATT
Found at i:54604 original size:31 final size:30
Alignment explanation
Indices: 54548--54611 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
54538 TTAAATGAAA
54548 AAACAGTTATACACATTAAAAAAATAAAAAT
1 AAACAGTTATACACA-TAAAAAAATAAAAAT
*
54579 AAACAGTTATACACA-AAAACTAAATAATAAT
1 AAACAGTTATACACATAAAA--AAATAAAAAT
54610 AA
1 AA
54612 GAAAAAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
31 26 0.87
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (30 bp):
AAACAGTTATACACATAAAAAAATAAAAAT
Found at i:54607 original size:28 final size:29
Alignment explanation
Indices: 54539--54608 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 29
54529 CACTCTCAAT
*
54539 TAAATGAAAAAACAGTTATACACATTAAAAAAA
1 TAAAT-AATAAACAGTTATACAC---AAAAAAA
*
54572 TAAA-AATAAACAGTTATACAC-AAAAAC
1 TAAATAATAAACAGTTATACACAAAAAAA
54599 TAAATAATAA
1 TAAATAATAA
54609 TAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 9 0.26
28 5 0.15
31 16 0.47
33 4 0.12
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.21
Consensus pattern (29 bp):
TAAATAATAAACAGTTATACACAAAAAAA
Found at i:55583 original size:201 final size:201
Alignment explanation
Indices: 55238--55635 Score: 751
Period size: 201 Copynumber: 2.0 Consensus size: 201
55228 GCTTAATCGT
*
55238 GTAAACAGCTCTCATGTCCCGTGTACCTGTTGAATTTCATGTCTCATATTCGTGTTTCAATATCG
1 GTAAACAGCTCTCATGTCCCGTGTACCTGTTGAATTTCATATCTCATATTCGTGTTTCAATATCG
55303 TAACACGATTAATAATCATGTCGTGTTTGTGTCAAGCACTTTATGTATTTATACCCTATACAAAC
66 TAACACGATTAATAATCATGTCGTGTTTGTGTCAAGCACTTTATGTATTTATACCCTATACAAAC
55368 ACGACACGAGACATGACACGTTACATTATAACTTACCATTGACTCAAATGCTCAGCTGAAATAAA
131 ACGACACGAGACATGACACGTTACATTATAACTTACCATTGACTCAAATGCTCAGCTGAAATAAA
55433 ATCTAA
196 ATCTAA
* *
55439 GTAAACAGGTCTCATGTCCCGTGTACCTGTTGAATTTCATATCTCATATTCGTGTTTCAATTTCG
1 GTAAACAGCTCTCATGTCCCGTGTACCTGTTGAATTTCATATCTCATATTCGTGTTTCAATATCG
55504 TAACACGATTAATAATCATGTCGTGTTTGTGTCAAGCACTTTATGTATTTATACCCTATACAAAC
66 TAACACGATTAATAATCATGTCGTGTTTGTGTCAAGCACTTTATGTATTTATACCCTATACAAAC
* *
55569 ACGACACGAGACATGACACGTTACATTATAACTTACCATTGACTCAAATGCTCGGGTGAAATAAA
131 ACGACACGAGACATGACACGTTACATTATAACTTACCATTGACTCAAATGCTCAGCTGAAATAAA
55634 AT
196 AT
55636 TTAAATATTG
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
201 192 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (201 bp):
GTAAACAGCTCTCATGTCCCGTGTACCTGTTGAATTTCATATCTCATATTCGTGTTTCAATATCG
TAACACGATTAATAATCATGTCGTGTTTGTGTCAAGCACTTTATGTATTTATACCCTATACAAAC
ACGACACGAGACATGACACGTTACATTATAACTTACCATTGACTCAAATGCTCAGCTGAAATAAA
ATCTAA
Found at i:57199 original size:3 final size:3
Alignment explanation
Indices: 57191--57232 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
57181 TATATACGAG
57191 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57233 CTCCATCCGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:63729 original size:28 final size:27
Alignment explanation
Indices: 63696--63763 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
63686 CCCAAGGGTG
63696 TTTTGGTCATTTTCAAAATCCAGGGGCA
1 TTTTGGTCATTTTC-AAATCCAGGGGCA
* ** *
63724 TTTTGGTCATTTGCACGTTCAGGGGCA
1 TTTTGGTCATTTTCAAATCCAGGGGCA
63751 TTTTGGTCATTTT
1 TTTTGGTCATTTT
63764 AAGTTCACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.43
Consensus pattern (27 bp):
TTTTGGTCATTTTCAAATCCAGGGGCA
Done.