Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023785.1 Corchorus olitorius cultivar O-4 contig23818, 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: 83484
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:3089 original size:8 final size:8
Alignment explanation
Indices: 3078--3121 Score: 70
Period size: 8 Copynumber: 5.2 Consensus size: 8
3068 ATATATATAT
3078 TATCTTAC
1 TATCTTAC
3086 TATCTTAC
1 TATCTTAC
3094 TATCTTATC
1 TATCTTA-C
3103 TTATCTTAC
1 -TATCTTAC
3112 TATCTTAC
1 TATCTTAC
3120 TA
1 TA
3122 CTATATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 25 0.74
9 2 0.06
10 7 0.21
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (8 bp):
TATCTTAC
Found at i:3109 original size:18 final size:16
Alignment explanation
Indices: 3078--3121 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 16
3068 ATATATATAT
3078 TATCTTACTATCTTAC
1 TATCTTACTATCTTAC
3094 TATCTTATCTTATCTTAC
1 TATCTTA-C-TATCTTAC
3112 TATCTTACTA
1 TATCTTACTA
3122 CTATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
17 2 0.08
18 15 0.58
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTACTATCTTAC
Found at i:3814 original size:32 final size:33
Alignment explanation
Indices: 3769--3845 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
3759 TTTTACAAAG
*
3769 TTTATTTAACATGCATAATC-CCT-TCTTCTACC
1 TTTATTTATCATGCATAATCTCCTCT-TTCTACC
3801 TTTATTTATCATGCATAATCTCCTCTTTCTACC
1 TTTATTTATCATGCATAATCTCCTCTTTCTACC
*
3834 TTTCTTTATCAT
1 TTTATTTATCAT
3846 TAAAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 19 0.46
33 21 0.51
34 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.03, T:0.49
Consensus pattern (33 bp):
TTTATTTATCATGCATAATCTCCTCTTTCTACC
Found at i:3836 original size:33 final size:32
Alignment explanation
Indices: 3769--3845 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
3759 TTTTACAAAG
*
3769 TTTATTTAACATGCATAATCCCTTCTTCTACC
1 TTTATTTATCATGCATAATCCCTTCTTCTACC
3801 TTTATTTATCATGCATAATCTCC-TCTTTCTACC
1 TTTATTTATCATGCATAATC-CCTTC-TTCTACC
*
3834 TTTCTTTATCAT
1 TTTATTTATCAT
3846 TAAAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 21 0.51
33 20 0.49
ACGTcount: A:0.22, C:0.26, G:0.03, T:0.49
Consensus pattern (32 bp):
TTTATTTATCATGCATAATCCCTTCTTCTACC
Found at i:5370 original size:38 final size:38
Alignment explanation
Indices: 5319--5397 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
5309 CTATATCGGG
5319 TGTGCAAATTTGATTG-ATGGCTCCGGAAGAGCTAGTAT
1 TGTGCAAATTTGATTGAAT-GCTCCGGAAGAGCTAGTAT
5357 TGTGCAAATTTGATTGAATGCTCCGGAAGAGCTAGTAT
1 TGTGCAAATTTGATTGAATGCTCCGGAAGAGCTAGTAT
5395 TGT
1 TGT
5398 TTTATCTGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 38 0.95
39 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (38 bp):
TGTGCAAATTTGATTGAATGCTCCGGAAGAGCTAGTAT
Found at i:9696 original size:118 final size:118
Alignment explanation
Indices: 9488--9715 Score: 411
Period size: 118 Copynumber: 1.9 Consensus size: 118
9478 TGGAAGAACA
*
9488 TCCACCACAACCATGAATATTGTTTTGAGGAATTTCAAGTCCTTAAATTTTCCACTTCAAACCAA
1 TCCACCACAACCATGAATATTGTTTTGAGGAATTCCAAGTCCTTAAATTTTCCACTTCAAACCAA
*
9553 CTCTTCCAATAAAAATAGTATAAATTACTCCTTACTTCTTAGATCCCAAGTAC
66 CTCTTCCAATAAAAATAGTATAAATTACTCCTTAATTCTTAGATCCCAAGTAC
* *
9606 TCCACCATAACCATGAATATTGTTTTGAGGAATTCCAAGTCCTTGAATTTTCCACTTCAAACCAA
1 TCCACCACAACCATGAATATTGTTTTGAGGAATTCCAAGTCCTTAAATTTTCCACTTCAAACCAA
*
9671 CTTTTCCAATAAAAATAGTATAAATTACTCCTTAATTCTTAGATC
66 CTCTTCCAATAAAAATAGTATAAATTACTCCTTAATTCTTAGATC
9716 TCAAACGCGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (118 bp):
TCCACCACAACCATGAATATTGTTTTGAGGAATTCCAAGTCCTTAAATTTTCCACTTCAAACCAA
CTCTTCCAATAAAAATAGTATAAATTACTCCTTAATTCTTAGATCCCAAGTAC
Found at i:10990 original size:22 final size:22
Alignment explanation
Indices: 10957--11233 Score: 138
Period size: 22 Copynumber: 12.3 Consensus size: 22
10947 TCAATCAAAC
*
10957 CAAAATTACATAGGAAGGTTAT
1 CAAAATTTCATAGGAAGGTTAT
* *
10979 CAAATTTTCATAGTG-TGGTTA-
1 CAAAATTTCATAG-GAAGGTTAT
11000 CTAAAATTTCATATGG-AGGTTAT
1 C-AAAATTTCATA-GGAAGGTTAT
** **
11023 CAAAACGTCATAGTG-TTGTTAT
1 CAAAATTTCATAG-GAAGGTTAT
* * * *
11045 CAAAATTCCATA-CAGACGTTAC
1 CAAAATTTCATAGGA-AGGTTAT
* **
11067 CAAAATTTTATAAAAAGGTTAT
1 CAAAATTTCATAGGAAGGTTAT
* * *
11089 CAAAATTTCTTA-GAGTGTCGTTAA
1 CAAAATTTCATAGGA-AG--GTTAT
* *
11113 CAAAATTTTATATGAAGGTTAT
1 CAAAATTTCATAGGAAGGTTAT
11135 CAAAATTTCATAGGGAGGGAGGTTAT
1 CAAAATTTCATA-GGA---AGGTTAT
* * * *
11161 CAAAGTTTCCTAGGGAGGTTAA
1 CAAAATTTCATAGGAAGGTTAT
*
11183 CAAAATTTCATAGGAAGGCTA-
1 CAAAATTTCATAGGAAGGTTAT
* *
11204 CAAAAATTTTAT-GGAGATGTTAT
1 C-AAAATTTCATAGGA-AGGTTAT
11227 CAAAATT
1 CAAAATT
11234 AAATAAAGAG
Statistics
Matches: 193, Mismatches: 43, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
21 7 0.04
22 143 0.74
23 7 0.04
24 15 0.08
25 4 0.02
26 17 0.09
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (22 bp):
CAAAATTTCATAGGAAGGTTAT
Found at i:11164 original size:26 final size:26
Alignment explanation
Indices: 11128--11178 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
11118 TTTTATATGA
11128 AGGTTATCAAAATTTCATAGGGAGGG
1 AGGTTATCAAAATTTCATAGGGAGGG
* *
11154 AGGTTATCAAAGTTTCCTAGGGAGG
1 AGGTTATCAAAATTTCATAGGGAGG
11179 TTAACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (26 bp):
AGGTTATCAAAATTTCATAGGGAGGG
Found at i:11349 original size:22 final size:22
Alignment explanation
Indices: 11278--11451 Score: 137
Period size: 22 Copynumber: 8.1 Consensus size: 22
11268 GAAGGGAAAC
*
11278 TTCATGGTGTGGTTATCAAAATT
1 TTCATAGTGTGGTTATCAAAA-T
* * *
11301 TTCATAATGCGGTTA-C-CAAT
1 TTCATAGTGTGGTTATCAAAAT
* *
11321 TTTATAGTGTGATTATCAAAAT
1 TTCATAGTGTGGTTATCAAAAT
* * *
11343 TTCATAGGGAGATTATCAAAAT
1 TTCATAGTGTGGTTATCAAAAT
11365 TTCATAGTGTGGTTATCAAAAT
1 TTCATAGTGTGGTTATCAAAAT
* * * *
11387 TTCACAGTGCGTTTATCAAATT
1 TTCATAGTGTGGTTATCAAAAT
*
11409 TTCATA----GGTTATCGAAAT
1 TTCATAGTGTGGTTATCAAAAT
* *
11427 TTCATAATGAT-GTTATCAAATT
1 TTCATAGTG-TGGTTATCAAAAT
11449 TTC
1 TTC
11452 GCATCATTAG
Statistics
Matches: 119, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
18 15 0.13
20 12 0.10
21 3 0.03
22 77 0.65
23 12 0.10
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (22 bp):
TTCATAGTGTGGTTATCAAAAT
Found at i:11412 original size:66 final size:65
Alignment explanation
Indices: 11290--11416 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 65
11280 CATGGTGTGG
* * * *
11290 TTATCAAAATTTTCATAATGCGGTTACCAATTTTATAGTGTGATTATCAAAATTTCATAGGGAGA
1 TTATCAAAATTTTCATAATGCGGTTACAAATTTCACAGTGCGATTATCAAAATTTCATAGGGAGA
* * * *
11355 TTATCAAAA-TTTCATAGTGTGGTTATCAAAATTTCACAGTGCGTTTATCAAATTTTCATAGG
1 TTATCAAAATTTTCATAATGCGGTTA-C-AAATTTCACAGTGCGATTATCAAAATTTCATAGG
11417 TTATCGAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
64 14 0.27
65 10 0.19
66 28 0.54
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (65 bp):
TTATCAAAATTTTCATAATGCGGTTACAAATTTCACAGTGCGATTATCAAAATTTCATAGGGAGA
Found at i:11908 original size:70 final size:70
Alignment explanation
Indices: 11831--11975 Score: 281
Period size: 70 Copynumber: 2.1 Consensus size: 70
11821 TGCATGTTTG
*
11831 TGTGTAGAACGTTGTTTTGGAGAAAATGTTTATTTCGAATGTGTTATTTGTGTAATCAATGCTCA
1 TGTGTAGAACGTTGTTTTGGAGAAAATATTTATTTCGAATGTGTTATTTGTGTAATCAATGCTCA
11896 TATGT
66 TATGT
11901 TGTGTAGAACGTTGTTTTGGAGAAAATATTTATTTCGAATGTGTTATTTGTGTAATCAATGCTCA
1 TGTGTAGAACGTTGTTTTGGAGAAAATATTTATTTCGAATGTGTTATTTGTGTAATCAATGCTCA
11966 TATGT
66 TATGT
11971 TGTGT
1 TGTGT
11976 TTTGGAGTTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.45
Consensus pattern (70 bp):
TGTGTAGAACGTTGTTTTGGAGAAAATATTTATTTCGAATGTGTTATTTGTGTAATCAATGCTCA
TATGT
Found at i:12512 original size:37 final size:37
Alignment explanation
Indices: 12462--12543 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
12452 GATACATATA
12462 TAACTATTTTCATAACCGTTATAGCTTTTTGAGTAAT
1 TAACTATTTTCATAACCGTTATAGCTTTTTGAGTAAT
* *
12499 TAACTTTTTTCATAACTGTTATAGCTTTTTGAGTAAT
1 TAACTATTTTCATAACCGTTATAGCTTTTTGAGTAAT
*
12536 TAAGTATT
1 TAACTATT
12544 GTAAATTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (37 bp):
TAACTATTTTCATAACCGTTATAGCTTTTTGAGTAAT
Found at i:12806 original size:13 final size:13
Alignment explanation
Indices: 12788--12812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12778 GTAAATTTGA
12788 TAATTACTGTAAC
1 TAATTACTGTAAC
12801 TAATTACTGTAA
1 TAATTACTGTAA
12813 ATTTGATAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TAATTACTGTAAC
Found at i:14567 original size:2 final size:2
Alignment explanation
Indices: 14560--14585 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14550 TTCCCTAGTT
14560 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
14586 AAAGTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15050 original size:24 final size:22
Alignment explanation
Indices: 15007--15050 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
14997 CTAATTTTTG
* *
15007 TAATATTTTTAATTTTACTTAT
1 TAATATTTTTAATATGACTTAT
15029 TAATATTTTTTAAATATGACTT
1 TAATA-TTTTT-AATATGACTT
15051 GAAATACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 5 0.28
24 8 0.44
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (22 bp):
TAATATTTTTAATATGACTTAT
Found at i:18565 original size:14 final size:15
Alignment explanation
Indices: 18546--18579 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18536 CTTAGATTTA
18546 AATTTTTT-ATAATT
1 AATTTTTTAATAATT
18560 AATTTTTTAATAATT
1 AATTTTTTAATAATT
*
18575 TATTT
1 AATTT
18580 AATTCAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
AATTTTTTAATAATT
Found at i:24582 original size:23 final size:23
Alignment explanation
Indices: 24545--24588 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24535 AAAAATTAAA
* *
24545 TATTTTTTAATAAAATAAAAATT
1 TATTTTTAAAAAAAATAAAAATT
24568 TATTTTTAAAAAAAATAAAAA
1 TATTTTTAAAAAAAATAAAAA
24589 GAAGAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TATTTTTAAAAAAAATAAAAATT
Found at i:25756 original size:24 final size:23
Alignment explanation
Indices: 25716--25760 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
25706 GATTTCTTCT
*
25716 TTTTTATTTTTTTAAAAAATAAA
1 TTTTTATTTTTTAAAAAAATAAA
25739 TTTTTATTTTATTAAAAAAATA
1 TTTTTATTTT-TTAAAAAAATA
25761 TATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTATTTTTTAAAAAAATAAA
Found at i:33959 original size:25 final size:26
Alignment explanation
Indices: 33921--33973 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
33911 ATGCAATCTC
*
33921 TCATAGAAAGACA-CATTTTCATGTT
1 TCATAAAAAGACACCATTTTCATGTT
* *
33946 TCATAAAAATACACCTTTTTCATGTT
1 TCATAAAAAGACACCATTTTCATGTT
33972 TC
1 TC
33974 TGCAGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.40
Consensus pattern (26 bp):
TCATAAAAAGACACCATTTTCATGTT
Found at i:42276 original size:31 final size:31
Alignment explanation
Indices: 42241--42339 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 31
42231 GAACCTAAAC
* *
42241 AGTCCCTGTACTATTGAAAAAAGATCATTTT
1 AGTCCCTCTACTATTGAAAAAAGATCAATTT
* * ***
42272 AGTCCCTCCATTA-TGAAATCTG-TCAATTT
1 AGTCCCTCTACTATTGAAAAAAGATCAATTT
* *
42301 AGTCCCTCTACTATTGGAAAGAGATCAATTT
1 AGTCCCTCTACTATTGAAAAAAGATCAATTT
42332 AGTCCCTC
1 AGTCCCTC
42340 CGTGAAACCA
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
29 17 0.32
30 11 0.21
31 25 0.47
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (31 bp):
AGTCCCTCTACTATTGAAAAAAGATCAATTT
Found at i:43552 original size:31 final size:30
Alignment explanation
Indices: 43517--43612 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 30
43507 TTCACGGAGA
* *
43517 GACTAAATTGATCTCTTTCCAATAGTAGAGG
1 GACTAAATTGATATATTT-CAATAGTAGAGG
* * *
43548 GACTAAATTGATAGATTTCAA-AATGGAGG
1 GACTAAATTGATATATTTCAATAGTAGAGG
* * *
43577 GACTAAAATGATATTTTTTCAATAGTACAGG
1 GACTAAATTGATA-TATTTCAATAGTAGAGG
43608 GACTA
1 GACTA
43613 TTTAGGTTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 18 0.35
30 9 0.17
31 25 0.48
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (30 bp):
GACTAAATTGATATATTTCAATAGTAGAGG
Found at i:45750 original size:25 final size:25
Alignment explanation
Indices: 45712--45762 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
45702 ATACAATCTC
* *
45712 TCATAGAAAGACACGTTTTCATGTT
1 TCATAAAAAGACACATTTTCATGTT
*
45737 TCATAAAAATACACATTTTCATGTT
1 TCATAAAAAGACACATTTTCATGTT
45762 T
1 T
45763 ATTCAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (25 bp):
TCATAAAAAGACACATTTTCATGTT
Found at i:48568 original size:13 final size:13
Alignment explanation
Indices: 48550--48575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48540 AAGGTAACAA
48550 CAAAAATCATCAC
1 CAAAAATCATCAC
48563 CAAAAATCATCAC
1 CAAAAATCATCAC
48576 TCATGCCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAAAATCATCAC
Found at i:62278 original size:15 final size:17
Alignment explanation
Indices: 62246--62282 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
62236 CATCAACAAC
*
62246 ATTATATATTATATATT
1 ATTATATATAATATATT
62263 ATTATA-ATAATA-ATT
1 ATTATATATAATATATT
62278 ATTAT
1 ATTAT
62283 TATTATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATATATAATATATT
Found at i:65252 original size:41 final size:41
Alignment explanation
Indices: 65205--65298 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
65195 GTTATCATTC
65205 TGGTTTTATCTCCGTTATCAAGGGTAACTCCTAAACGATTA
1 TGGTTTTATCTCCGTTATCAAGGGTAACTCCTAAACGATTA
*
65246 TGGTTTTATCTCCGTTATCAAGGGTAACTCCTAAACGATTC
1 TGGTTTTATCTCCGTTATCAAGGGTAACTCCTAAACGATTA
65287 TGGTTTTATCTC
1 TGGTTTTATCTC
65299 TGCTGCCTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (41 bp):
TGGTTTTATCTCCGTTATCAAGGGTAACTCCTAAACGATTA
Found at i:66170 original size:12 final size:12
Alignment explanation
Indices: 66153--66189 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
66143 GGGAGGTCGT
66153 ATTTCACCTCCA
1 ATTTCACCTCCA
*
66165 ATTTCACATCCA
1 ATTTCACCTCCA
*
66177 ATTTCAACTCCA
1 ATTTCACCTCCA
66189 A
1 A
66190 GCCAACTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTTCACCTCCA
Found at i:76509 original size:2 final size:2
Alignment explanation
Indices: 76502--76529 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
76492 AACAACAATT
76502 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
76530 ACATTCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.