Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023939.1 Corchorus olitorius cultivar O-4 contig23972, 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: 5946
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Found at i:4715 original size:115 final size:116
Alignment explanation
Indices: 4373--4784 Score: 709
Period size: 115 Copynumber: 3.6 Consensus size: 116
4363 CTTGAGTTTC
* * * *
4373 AGTTTTCAATACAAAATCTTATCTTGTTTTAAAATCTTGTTCAAGGTCTTTGTTAGAGAGTTTTC
1 AGTTTTCAATTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTC
* *
4438 AACTCAAAATCTTATCTTGTTTTCAAAATCCTATTCGAGGTCTCTGCTAGAG
66 AACTCAAAATCTTATCTTGTTTT-AAAATCCTGTTCGAGGTCTCTGTTAGAG
* * *
4490 AGTTTTCAATTTAAAATCTCATATTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTC
1 AGTTTTCAATTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTC
4555 AACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
66 AACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
*
4606 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTC-GTTAGAGAGTTTTC
1 AGTTTTCAATTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTC
4670 AACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
66 AACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
*
4721 AGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTT
1 AGTTTTCAATTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTT
4785 TAATTTAAAA
Statistics
Matches: 279, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
115 113 0.41
116 85 0.30
117 81 0.29
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (116 bp):
AGTTTTCAATTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTC
AACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
Found at i:4796 original size:58 final size:58
Alignment explanation
Indices: 4373--4784 Score: 693
Period size: 58 Copynumber: 7.1 Consensus size: 58
4363 CTTGAGTTTC
* * *
4373 AGTTTTCAA-TACAAAATCTTATCTTGTTTTAAAATCTTGTTCAAGGTCTTTGTTAGAG
1 AGTTTTCAACT-CAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
* *
4431 AGTTTTCAACTCAAAATCTTATCTTGTTTTCAAAATCCTATTCGAGGTCTCTGCTAGAG
1 AGTTTTCAACTCAAAATCTTATCTTGTTTT-AAAATCCTGTTCGAGGTCTCTGTTAGAG
* * * *
4490 AGTTTTCAATTTAAAATCTCATATTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
1 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
4548 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
1 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
4606 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTC-GTTAGAG
1 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
4663 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
1 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
* *
4721 AGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
1 AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
4779 AGTTTT
1 AGTTTT
4785 TAATTTAAAA
Statistics
Matches: 334, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
57 57 0.17
58 227 0.68
59 50 0.15
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (58 bp):
AGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAG
Found at i:4800 original size:98 final size:98
Alignment explanation
Indices: 4690--5010 Score: 390
Period size: 98 Copynumber: 3.1 Consensus size: 98
4680 CTTATCTTGT
4690 TTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAA
1 TTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAA
*
4755 TCCTGTTCGAGGTCTCTGTTAGAGAGTTTTTAA
66 TCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAA
* * *
4788 TTTAAAATCCTGTTCGAGGTCTCTGCTATAGAGTTTTCAATTTAAAATCTCATCTTGTTTTAAAA
1 TTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAA
*
4853 TCCTGTTTGAGGTCTCTGTTAGAGAGTTTTCAA
66 TCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAA
* * *
4886 TTTAAAATCTTATCTTGTTTTAAGATCCTGTTCGAGGTCTCTGTTAGAGAGTTTCCAGTTTAAAA
1 TTTAAAATC----C-TG---T----T-C-GA----GGTCTCTGTTAGAGAGTTTTCAATTTAAAA
*
4951 TCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAA
48 TCTTATCTTGTTTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAA
*
5002 TTCAAAATC
1 TTTAAAATC
5011 TTATTTTGGT
Statistics
Matches: 191, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
98 102 0.53
102 1 0.01
103 2 0.01
106 1 0.01
110 1 0.01
111 1 0.01
112 1 0.01
116 82 0.43
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (98 bp):
TTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAA
TCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAA
Found at i:4803 original size:40 final size:40
Alignment explanation
Indices: 4748--4836 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
4738 CTTATCTTGT
* *
4748 TTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTTAA
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAA
*
4788 TTTAAAATCCTGTTCGAGGTCTCTGCTATAGAGTTTTCAA
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAA
4828 TTTAAAATC
1 TTTAAAATC
4837 TCATCTTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (40 bp):
TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAA
Found at i:4858 original size:156 final size:155
Alignment explanation
Indices: 4633--4939 Score: 542
Period size: 156 Copynumber: 2.0 Consensus size: 155
4623 CTTATCTTGT
* *
4633 TTTAAAATCCTGTTCGAGGTCTCGTTAGAGAGTTTTCAACTCAAAATCTTATCTTGTTTTAAAAT
1 TTTAAAATCCTGTTCGAGGTCTCGCTAGAGAGTTTTCAACTCAAAATCTCATCTTGTTTTAAAAT
4698 CCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTC
66 CCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTC
4763 GAGGTCTCTGTTAGAGAGTTTTTAA
131 GAGGTCTCTGTTAGAGAGTTTTTAA
* * *
4788 TTTAAAATCCTGTTCGAGGTCTCTGCTATAGAGTTTTCAATTTAAAATCTCATCTTGTTTTAAAA
1 TTTAAAATCCTGTTCGAGGTCTC-GCTAGAGAGTTTTCAACTCAAAATCTCATCTTGTTTTAAAA
* *
4853 TCCTGTTTGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAGATCCTGTT
65 TCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTT
4918 CGAGGTCTCTGTTAGAGAGTTT
130 CGAGGTCTCTGTTAGAGAGTTT
4940 CCAGTTTAAA
Statistics
Matches: 144, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
155 23 0.16
156 121 0.84
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (155 bp):
TTTAAAATCCTGTTCGAGGTCTCGCTAGAGAGTTTTCAACTCAAAATCTCATCTTGTTTTAAAAT
CCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTC
GAGGTCTCTGTTAGAGAGTTTTTAA
Found at i:4951 original size:214 final size:213
Alignment explanation
Indices: 4575--5010 Score: 737
Period size: 214 Copynumber: 2.0 Consensus size: 213
4565 CTTATCTTGT
* *
4575 TTTAAAATCCTGTTCGAGGTCTCTGTTAGAGAGTTTTCAACTCAAAATCTTATCTTGTTTTAAAA
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAACTCAAAATCTCATCTTGTTTTAAAA
4640 TCCTGTTCGAGGTCTCGTTAGAGAGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTC
66 TCCTGTTCGAGGTCTCGTTAGAGAGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTC
*
4705 GAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCT
131 GAGGTCTCTGTTAGAGAGTTTCCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCT
* *
4770 CTGTTAGAGAGTTTTTAA
196 CTGCTAGAGAGTTTTCAA
* * *
4788 TTTAAAATCCTGTTCGAGGTCTCTGCTATAGAGTTTTCAATTTAAAATCTCATCTTGTTTTAAAA
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAACTCAAAATCTCATCTTGTTTTAAAA
* * * *
4853 TCCTGTTTGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGTTTTAAGATCCTGTT
66 TCCTGTTCGAGGTCTC-GTTAGAGAGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTT
*
4918 CGAGGTCTCTGTTAGAGAGTTTCCAGTTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTC
130 CGAGGTCTCTGTTAGAGAGTTTCCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTC
4983 TCTGCTAGAGAGTTTTCAA
195 TCTGCTAGAGAGTTTTCAA
*
5002 TTCAAAATC
1 TTTAAAATC
5011 TTATTTTGGT
Statistics
Matches: 208, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
213 75 0.36
214 133 0.64
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (213 bp):
TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAACTCAAAATCTCATCTTGTTTTAAAA
TCCTGTTCGAGGTCTCGTTAGAGAGTTTTCAACTCAAAATCTTATCTTGTTTTAAAATCCTGTTC
GAGGTCTCTGTTAGAGAGTTTCCAATTTAAAATCTTATCTTGTTTTAAAATCCTGTTCGAGGTCT
CTGCTAGAGAGTTTTCAA
Found at i:5033 original size:58 final size:58
Alignment explanation
Indices: 4788--5014 Score: 373
Period size: 58 Copynumber: 3.9 Consensus size: 58
4778 GAGTTTTTAA
* *
4788 TTTAAAATCCTGTTCGAGGTCTCTGCTATAGAGTTTTCAATTTAAAATCTCATCTTGT
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAATTTAAAATCTTATCTTGT
* *
4846 TTTAAAATCCTGTTTGAGGTCTCTGTTAGAGAGTTTTCAATTTAAAATCTTATCTTGT
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAATTTAAAATCTTATCTTGT
* * * *
4904 TTTAAGATCCTGTTCGAGGTCTCTGTTAGAGAGTTTCCAGTTTAAAATCTTATCTTGT
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAATTTAAAATCTTATCTTGT
*
4962 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAATTCAAAATCTTAT
1 TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAATTTAAAATCTTAT
5015 TTTGGTCGAG
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 156 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (58 bp):
TTTAAAATCCTGTTCGAGGTCTCTGCTAGAGAGTTTTCAATTTAAAATCTTATCTTGT
Found at i:5317 original size:29 final size:29
Alignment explanation
Indices: 5285--5656 Score: 313
Period size: 29 Copynumber: 12.8 Consensus size: 29
5275 TTGTGAATCC
5285 AGGGGCATTTTGGTCATTTTTGCACATCT
1 AGGGGCATTTTGGTCATTTTTGCACATCT
*
5314 AGGGGCATTTTGGTCA-TTTTGCACATCC
1 AGGGGCATTTTGGTCATTTTTGCACATCT
*
5342 AAGGGCATTTTGGTCATTTTTGCACAT-T
1 AGGGGCATTTTGGTCATTTTTGCACATCT
* ** * *
5370 CAGGAGCATTTTGGTCATTTACGCATATCC
1 -AGGGGCATTTTGGTCATTTTTGCACATCT
* * *
5400 ACGGGCATTTTGGTCATTTTCGCATAT-T
1 AGGGGCATTTTGGTCATTTTTGCACATCT
* *
5428 CAAGGGAATTTTGGTCATTTTTGCACATCT
1 -AGGGGCATTTTGGTCATTTTTGCACATCT
* * *
5458 AGGGGCATTTTTGTCA-TTTTGTACATCC
1 AGGGGCATTTTGGTCATTTTTGCACATCT
* *
5486 AAGGGCATTTTGGTCATTTCTGCACAT-T
1 AGGGGCATTTTGGTCATTTTTGCACATCT
* ** ** *
5514 CAGGAGCATTTTGGTCATTTACGCATGTCCA
1 -AGGGGCATTTTGGTCATTTTTGCACAT-CT
* *** * *
5545 AGGAGCATTTTGGTCATTTACACATATCC
1 AGGGGCATTTTGGTCATTTTTGCACATCT
** * * *
5574 AAAGGCATTTTGGTCGTATTTACACATCT
1 AGGGGCATTTTGGTCATTTTTGCACATCT
* * * *
5603 AGGGACATTTTGATCATTTTTTGCACGTCC
1 AGGGGCATTTTGGTCA-TTTTTGCACATCT
*
5633 AGGGGCATTTTGTTCATTTTTGCA
1 AGGGGCATTTTGGTCATTTTTGCA
5657 TACTCTGGGT
Statistics
Matches: 276, Mismatches: 57, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
28 50 0.18
29 177 0.64
30 49 0.18
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (29 bp):
AGGGGCATTTTGGTCATTTTTGCACATCT
Found at i:5361 original size:57 final size:57
Alignment explanation
Indices: 5281--5656 Score: 330
Period size: 57 Copynumber: 6.5 Consensus size: 57
5271 TCTTTTGTGA
*
5281 ATCCAGGGGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGGTCATTTTGCAC
1 ATCCAAGGGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGGTCATTTTGCAC
* * *
5338 ATCCAAGGGCATTTTGGTCATTTTTGCACAT-TCAGGAGCATTTTGGTCATTTACGCAT
1 ATCCAAGGGCATTTTGGTCATTTTTGCACATCT-AGGGGCATTTTGGTCATTT-TGCAC
* * * * *
5396 ATCCACGGGCATTTTGGTCATTTTCGCATAT-TCAAGGGAATTTTGGTCATTTTTGCAC
1 ATCCAAGGGCATTTTGGTCATTTTTGCACATCT-AGGGGCATTTTGGTCA-TTTTGCAC
* * * * * *
5454 ATCTAGGGGCATTTTTGTCA-TTTTGTACATCCAAGGGCATTTTGGTCATTTCTGCAC
1 ATCCAAGGGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGGTCATTT-TGCAC
* ** ** * * *
5511 ATTC-AGGAGCATTTTGGTCATTTACGCATGTCCAAGGAGCATTTTGGTCA-TTTACAC
1 ATCCAAGG-GCATTTTGGTCATTTTTGCACAT-CTAGGGGCATTTTGGTCATTTTGCAC
* * * * * *
5568 ATATCCAAAGGCATTTTGGTCGTATTTACACATCTAGGGACATTTTGATCATTTTTTGCAC
1 --ATCCAAGGGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGGTCA--TTTTGCAC
* * *
5629 GTCCAGGGGCATTTTGTTCATTTTTGCA
1 ATCCAAGGGCATTTTGGTCATTTTTGCA
5657 TACTCTGGGT
Statistics
Matches: 251, Mismatches: 54, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
56 6 0.02
57 92 0.37
58 87 0.35
59 58 0.23
60 2 0.01
61 6 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (57 bp):
ATCCAAGGGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGGTCATTTTGCAC
Found at i:5494 original size:115 final size:115
Alignment explanation
Indices: 5281--5658 Score: 372
Period size: 115 Copynumber: 3.3 Consensus size: 115
5271 TCTTTTGTGA
* * *
5281 ATCCAGGGGCATTTTGGTCATTTTTGCACA-TCTAGGGGCATTTTGGTCA-TTTTGCACATCCAA
1 ATCCA-GGGCATTTTGGTCATTTTCGCATATTC-AAGGGCATTTTGGTCATTTTTGCACATCCAA
* *
5344 GGGCATTTTGGTCATTTTTGCACATTCAGGAGCATTTTGGTCATTTAC-GCAT
64 GGGCATTTTGGTCATTTTTGCACATCCAGGAGCATTTTGGTCATTT-CTGCAC
* * *
5396 ATCCACGGGCATTTTGGTCATTTTCGCATATTCAAGGGAATTTTGGTCATTTTTGCACATCTAGG
1 ATCCA-GGGCATTTTGGTCATTTTCGCATATTCAAGGGCATTTTGGTCATTTTTGCACATCCAAG
* *
5461 GGCATTTTTGTCA-TTTTGTACATCCAAGG-GCATTTTGGTCATTTCTGCAC
65 GGCATTTTGGTCATTTTTGCACATCC-AGGAGCATTTTGGTCATTTCTGCAC
* * * * *** *
5511 ATTCAGGAGCATTTTGGTCATTTACGCATGTCCAAGGAGCATTTTGGTCATTTACACATATCCAA
1 ATCCAGG-GCATTTTGGTCATTTTCGCATATTCAAGG-GCATTTTGGTCATTTTTGCACATCCAA
* * * * * * *
5576 AGGCATTTTGGTCGTATTTACACATCTAGG-GACATTTTGATCATTTTTTGCAC
64 GGGCATTTTGGTCATTTTTGCACATCCAGGAG-CATTTTGGTCA-TTTCTGCAC
* * *
5629 GTCCAGGGGCATTTTGTTCATTTTTGCATA
1 ATCCA-GGGCATTTTGGTCATTTTCGCATA
5659 CTCTGGGTTC
Statistics
Matches: 216, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
114 3 0.01
115 99 0.46
116 65 0.30
117 18 0.08
118 29 0.13
119 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (115 bp):
ATCCAGGGCATTTTGGTCATTTTCGCATATTCAAGGGCATTTTGGTCATTTTTGCACATCCAAGG
GCATTTTGGTCATTTTTGCACATCCAGGAGCATTTTGGTCATTTCTGCAC
Found at i:5614 original size:144 final size:143
Alignment explanation
Indices: 5288--5656 Score: 540
Period size: 144 Copynumber: 2.5 Consensus size: 143
5278 TGAATCCAGG
5288 GGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGGTCATTTTGCACATCCAAGGGCATTTT
1 GGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTT-GTCATTTTGCACATCCAAGGGCATTTT
*
5353 GGTCATTTTTGCACATTCAGGAGCATTTTGGTCATTTACGCATATCCACGGGCATTTTGGTCATT
65 GGTCATTTTTGCACATTCAGGAGCATTTTGGTCATTTACGCATATCCAAGGGCATTTTGGTCATT
* * * *
5418 TTCGCATATTCAAG
130 TACACATATCCAAA
* *
5432 GGAATTTTGGTCATTTTTGCACATCTAGGGGCATTTTTGTCATTTTGTACATCCAAGGGCATTTT
1 GGCATTTTGGTCATTTTTGCACATCTAGGGGCA-TTTTGTCATTTTGCACATCCAAGGGCATTTT
* *
5497 GGTCATTTCTGCACATTCAGGAGCATTTTGGTCATTTACGCATGTCCAAGGAGCATTTTGGTCAT
65 GGTCATTTTTGCACATTCAGGAGCATTTTGGTCATTTACGCATATCCAAGG-GCATTTTGGTCAT
5562 TTACACATATCCAAA
129 TTACACATATCCAAA
* * * * * *
5577 GGCATTTTGGTCGTATTTACACATCTAGGGACATTTTGATCATTTTTTGCACGTCCAGGGGCATT
1 GGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTG-TCA--TTTTGCACATCCAAGGGCATT
*
5642 TTGTTCATTTTTGCA
63 TTGGTCATTTTTGCA
5657 TACTCTGGGT
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
144 111 0.55
145 59 0.29
147 31 0.15
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (143 bp):
GGCATTTTGGTCATTTTTGCACATCTAGGGGCATTTTGTCATTTTGCACATCCAAGGGCATTTTG
GTCATTTTTGCACATTCAGGAGCATTTTGGTCATTTACGCATATCCAAGGGCATTTTGGTCATTT
ACACATATCCAAA
Done.