Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012385.1 Corchorus capsularis cultivar CVL-1 contig12406, 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: 123429
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1062 original size:29 final size:29
Alignment explanation
Indices: 1011--1087 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
1001 CTTGTATTGT
* * *
1011 TTGGACATTTTGCCCTCTGAACTTCAATC
1 TTGGACATTTTACCCCCTAAACTTCAATC
* *
1040 TTGGATATTTTACCCCCTAAACTTCAATT
1 TTGGACATTTTACCCCCTAAACTTCAATC
* *
1069 TTGGGACGTTTTGCCCCCT
1 TT-GGACATTTTACCCCCT
1088 CAACCTAACG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.39
Consensus pattern (29 bp):
TTGGACATTTTACCCCCTAAACTTCAATC
Found at i:6766 original size:19 final size:21
Alignment explanation
Indices: 6720--6767 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
6710 TGTGGCACGT
*
6720 CACATGTACCAAAAAATCGTGC
1 CACATGTACCAAAAAA-CGTGA
6742 CACATGTACC-AAAAA-GTGA
1 CACATGTACCAAAAAACGTGA
6761 CACATGT
1 CACATGT
6768 CACGCCACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
21 5 0.20
22 10 0.40
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (21 bp):
CACATGTACCAAAAAACGTGA
Found at i:6786 original size:53 final size:53
Alignment explanation
Indices: 6687--6787 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
6677 GACGTGGCAC
* ** *
6687 GCCACGTGTACCAAAAAGTGACATGTGGCACGTCACATGTACCAAAAAATCGT
1 GCCACATGTACCAAAAAGTGACACATGGCACGCCACATGTACCAAAAAATCGT
* * *
6740 GCCACATGTACCAAAAAGTGACACATGTCACGCCACGTGTATCAAAAA
1 GCCACATGTACCAAAAAGTGACACATGGCACGCCACATGTACCAAAAA
6788 GTGACACGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.18
Consensus pattern (53 bp):
GCCACATGTACCAAAAAGTGACACATGGCACGCCACATGTACCAAAAAATCGT
Found at i:6806 original size:31 final size:31
Alignment explanation
Indices: 6739--6835 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 31
6729 CAAAAAATCG
* * *
6739 TGCCACATGTACCAAAAAGTGACACATGTCA
1 TGCCACATGTATCAAAAAGTGACACGTGGCA
* *
6770 CGCCACGTGTATCAAAAAGTGACACGTGGCA
1 TGCCACATGTATCAAAAAGTGACACGTGGCA
** *
6801 TGCCACATGT-TTTAAAA-TGGCACGTGGCA
1 TGCCACATGTATCAAAAAGTGACACGTGGCA
6830 TGCCAC
1 TGCCAC
6836 GTGCACAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.30
30 5 0.09
31 34 0.61
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (31 bp):
TGCCACATGTATCAAAAAGTGACACGTGGCA
Found at i:8812 original size:19 final size:20
Alignment explanation
Indices: 8780--8817 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
8770 ATCTGATAGC
8780 ATAAAAAAGAAGAA-AGATG
1 ATAAAAAAGAAGAACAGATG
8799 ATAAAAAA-ACAGAACAGAT
1 ATAAAAAAGA-AGAACAGAT
8818 ATATATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.06
19 12 0.71
20 4 0.24
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (20 bp):
ATAAAAAAGAAGAACAGATG
Found at i:14699 original size:2 final size:2
Alignment explanation
Indices: 14692--14719 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14682 TTTATTTTAT
14692 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
14720 AATCGAACAT
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
Found at i:19986 original size:2 final size:2
Alignment explanation
Indices: 19981--20007 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19971 GACGAGAACA
19981 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20008 CACTTAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23783 original size:22 final size:24
Alignment explanation
Indices: 23758--23802 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
23748 AGCAAGCAAC
23758 TGAAACAGAG-A-AAACAGAGCAT
1 TGAAACAGAGAAGAAACAGAGCAT
23780 TGAAACAGAGAAGAAACAGAGCA
1 TGAAACAGAGAAGAAACAGAGCA
23803 AAAAAAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 10 0.48
ACGTcount: A:0.56, C:0.13, G:0.24, T:0.07
Consensus pattern (24 bp):
TGAAACAGAGAAGAAACAGAGCAT
Found at i:31571 original size:15 final size:16
Alignment explanation
Indices: 31547--31580 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
31537 GAAGAATGCC
31547 AAAAGAAAAAA-AAAA
1 AAAAGAAAAAAGAAAA
*
31562 AAAAGGAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
31578 AAA
1 AAA
31581 TTCATTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAA
Found at i:44994 original size:35 final size:35
Alignment explanation
Indices: 44950--45028 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
44940 TATTAATTTA
*
44950 ATTAT-TACTATAGTTATAGCCCACTAATACCCTT
1 ATTATGTACTATAGTTATAGCCCACTAAAACCCTT
44984 ATTATGTACTATAGTTATAGCCCACTAAAACCCTT
1 ATTATGTACTATAGTTATAGCCCACTAAAACCCTT
*
45019 ATTAAGTACT
1 ATTATGTACT
45029 TGTATATTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 5 0.12
35 37 0.88
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (35 bp):
ATTATGTACTATAGTTATAGCCCACTAAAACCCTT
Found at i:53539 original size:31 final size:31
Alignment explanation
Indices: 53473--53620 Score: 107
Period size: 31 Copynumber: 5.1 Consensus size: 31
53463 TTTTGTGCAT
* * * ** *
53473 GTGGCATGCCATGTGCCATTTTTTGAAACAT
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
53504 GTGGCATGCCACGTGTCACTTTTTGGTACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
* ** *
53535 GTGGCCTGATATGTGTCACTTTTTGGTACA-
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
* *
53565 -T-G--TGGCAC--G--ACTTTTTGGTACAT
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
* *
53588 GTGGCGTGCCACATGTCACTTTTTGGTACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
53619 GT
1 GT
53621 AGCGTGCTAC
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
22 13 0.14
24 2 0.02
25 1 0.01
26 3 0.03
27 5 0.05
28 1 0.01
29 2 0.02
31 66 0.71
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (31 bp):
GTGGCATGCCACGTGTCACTTTTTGGTACAC
Found at i:53842 original size:27 final size:21
Alignment explanation
Indices: 53787--53831 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
53777 TTTATCTCAA
53787 TCTCAAATCATCTGAGCCTTT
1 TCTCAAATCATCTGAGCCTTT
53808 TCTCAAATCATCTGAGCCTTT
1 TCTCAAATCATCTGAGCCTTT
53829 TCT
1 TCT
53832 AGTTACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.40
Consensus pattern (21 bp):
TCTCAAATCATCTGAGCCTTT
Found at i:69457 original size:50 final size:50
Alignment explanation
Indices: 69394--69488 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
69384 TAGACATTCT
69394 GATTAGGAATTTGCTGCCTTGTTGCAGCTCAAAGTTTATATGAATATTTG
1 GATTAGGAATTTGCTGCCTTGTTGCAGCTCAAAGTTTATATGAATATTTG
*
69444 GATTAGGATTTTGCTGCCTTGTTGCAGCTCAAAGTTTATATGAAT
1 GATTAGGAATTTGCTGCCTTGTTGCAGCTCAAAGTTTATATGAAT
69489 GGTTAAGTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (50 bp):
GATTAGGAATTTGCTGCCTTGTTGCAGCTCAAAGTTTATATGAATATTTG
Found at i:85280 original size:2 final size:2
Alignment explanation
Indices: 85273--85304 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
85263 TTTTGAACAA
*
85273 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85305 GCATGATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91112 original size:2 final size:2
Alignment explanation
Indices: 91101--91134 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
91091 ACTATTAGCT
91101 TA TA TA -A 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 TA T
91135 TAACACTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:95277 original size:2 final size:2
Alignment explanation
Indices: 95266--95302 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
95256 GGAAAAATAG
95266 TA TA -A TA TA 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 TA TA TA TA TA
95303 GTAATACCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:99285 original size:109 final size:109
Alignment explanation
Indices: 99154--99427 Score: 408
Period size: 109 Copynumber: 2.5 Consensus size: 109
99144 AAAAAATTAG
* *
99154 ATAAA-ATATT-GAATTTAATTAAATGAAAATAGAGCTTTTAGTATAATAAAATTGTATATTAGA
1 ATAAAGATATTAG-ATTTAATTAAATGAAAATAAAGCTTTTAGTAGAATAAAATTGTATATTAGA
*
99217 AAAAATTTTAATATATCCAAATTTTTTGGTAAAAATAAAGTAATT
65 AAAAATTTTAATATATCCAAATTTTTTAGTAAAAATAAAGTAATT
*
99262 ATAAAGATATTAGATTTAATTAAATGAAAATAAAGTTTTTAGTAGAATAAAATTGTATATTAGAA
1 ATAAAGATATTAGATTTAATTAAATGAAAATAAAGCTTTTAGTAGAATAAAATTGTATATTAGAA
*
99327 AAAATTTTAGTATATCCAAATTTTTTAGTAAAAATAAAGTAATT
66 AAAATTTTAATATATCCAAATTTTTTAGTAAAAATAAAGTAATT
* * *
99371 ATAAAGATATTAGATTTAATTTAATTGAATAAAAATAGAGTTTCTAGTAGAATAAAA
1 ATAAAGATATTAGATTTAA-TTAAATGAA-AATAA-AG-CTTT-TAGTAGAATAAAA
99428 CTATAATAGT
Statistics
Matches: 151, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
108 5 0.03
109 115 0.76
110 9 0.06
111 4 0.03
112 2 0.01
113 3 0.02
114 13 0.09
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (109 bp):
ATAAAGATATTAGATTTAATTAAATGAAAATAAAGCTTTTAGTAGAATAAAATTGTATATTAGAA
AAAATTTTAATATATCCAAATTTTTTAGTAAAAATAAAGTAATT
Found at i:99613 original size:3 final size:3
Alignment explanation
Indices: 99607--99643 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
99597 TTTTAATCAT
99607 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
99644 ATTCGTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101396 original size:2 final size:2
Alignment explanation
Indices: 101389--101416 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101379 AAATATCTCA
101389 AT 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
101417 GCAGGTAAAT
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):
AT
Found at i:103124 original size:13 final size:13
Alignment explanation
Indices: 103103--103141 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
103093 TAATTCTCTA
103103 TGACCCTCTAATT
1 TGACCCTCTAATT
*
103116 TGTCCCTCTAATT
1 TGACCCTCTAATT
103129 TGACCCTCCTAAT
1 TGACCCT-CTAAT
103142 AATTAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (13 bp):
TGACCCTCTAATT
Found at i:103189 original size:41 final size:41
Alignment explanation
Indices: 103132--103217 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
103122 TCTAATTTGA
* *
103132 CCCTCCTAATAATTAAGGAAATAAATTAAATTCAGATTTAG
1 CCCTCCTAATAATTAAGGAAAGAAATTAAATCCAGATTTAG
* * * *
103173 CCCTCCTAATAATTAAGGTAAGAAGTTAAATCCGGGTTTAG
1 CCCTCCTAATAATTAAGGAAAGAAATTAAATCCAGATTTAG
103214 CCCT
1 CCCT
103218 TAGTTATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (41 bp):
CCCTCCTAATAATTAAGGAAAGAAATTAAATCCAGATTTAG
Found at i:105785 original size:31 final size:31
Alignment explanation
Indices: 105750--105844 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 31
105740 GCGGTAGACC
*
105750 TGCTTGATTGATTTAAATCCCGCTGTAATCA
1 TGCTTGATTGATTTAGATCCCGCTGTAATCA
* * * * * *
105781 TGCTTCAATCA--T-GATCCTGCGGTAGA-CC
1 TGCTTGATTGATTTAGATCCCGCTGTA-ATCA
*
105809 TGCTTGATTGATTTAGGTCCCGCTGTAATCA
1 TGCTTGATTGATTTAGATCCCGCTGTAATCA
105840 TGCTT
1 TGCTT
105845 CAATCATGAT
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
28 18 0.40
29 2 0.04
30 2 0.04
31 23 0.51
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (31 bp):
TGCTTGATTGATTTAGATCCCGCTGTAATCA
Found at i:105830 original size:59 final size:59
Alignment explanation
Indices: 105708--105880 Score: 285
Period size: 59 Copynumber: 2.9 Consensus size: 59
105698 TCAATCTTGG
* *
105708 ATCCCGCTGTAATCATGCTTCAATCAT-TTCTTGCGGTAGACCTGCTTGATTGATTTAA
1 ATCCCGCTGTAATCATGCTTCAATCATGATCCTGCGGTAGACCTGCTTGATTGATTTAA
*
105766 ATCCCGCTGTAATCATGCTTCAATCATGATCCTGCGGTAGACCTGCTTGATTGATTTAG
1 ATCCCGCTGTAATCATGCTTCAATCATGATCCTGCGGTAGACCTGCTTGATTGATTTAA
* * *
105825 GTCCCGCTGTAATCATGCTTCAATCATGATTCTACGGTAGACCTGCTTGATTGATT
1 ATCCCGCTGTAATCATGCTTCAATCATGATCCTGCGGTAGACCTGCTTGATTGATT
105881 CCATCAAACC
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
58 27 0.25
59 81 0.75
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (59 bp):
ATCCCGCTGTAATCATGCTTCAATCATGATCCTGCGGTAGACCTGCTTGATTGATTTAA
Found at i:110309 original size:2 final size:2
Alignment explanation
Indices: 110302--110339 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
110292 TCTTTCCATT
110302 TA TA TA TA TA 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 TA TA TA TA TA
110340 GACGCACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120548 original size:33 final size:33
Alignment explanation
Indices: 120511--120619 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
120501 AAAGCCGCCC
*
120511 CAGTGGGGAGGCTTCGCCGTGGTTGAGCCTCCT
1 CAGTGGGGAGGCTCCGCCGTGGTTGAGCCTCCT
*
120544 CAGTGGGGAGGCTCCGCCATGGTTGAGCCTCC-
1 CAGTGGGGAGGCTCCGCCGTGGTTGAGCCTCCT
*
120576 CTAGTGGGGAGGCTCCGCCGTGGCTGAGCCGTCCT
1 C-AGTGGGGAGGCTCCGCCGTGGTTGAGCC-TCCT
120611 -AGTGGGGAG
1 CAGTGGGGAG
120620 ACTCAGTGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.01
33 65 0.94
34 3 0.04
ACGTcount: A:0.11, C:0.28, G:0.41, T:0.20
Consensus pattern (33 bp):
CAGTGGGGAGGCTCCGCCGTGGTTGAGCCTCCT
Found at i:120598 original size:16 final size:16
Alignment explanation
Indices: 120513--120598 Score: 57
Period size: 16 Copynumber: 5.2 Consensus size: 16
120503 AGCCGCCCCA
*
120513 GTGGGGAGGCTTCGCC
1 GTGGGGAGGCTCCGCC
* * * *
120529 GTGGTTGAGCCTCCTCA
1 GTGG-GGAGGCTCCGCC
120546 GTGGGGAGGCTCCGCC
1 GTGGGGAGGCTCCGCC
* * * *
120562 ATGGTTGAGCCTCC-CTA
1 GTGG-GGAGGCTCCGC-C
120579 GTGGGGAGGCTCCGCC
1 GTGGGGAGGCTCCGCC
120595 GTGG
1 GTGG
120599 CTGAGCCGTC
Statistics
Matches: 49, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
16 27 0.55
17 22 0.45
ACGTcount: A:0.09, C:0.28, G:0.42, T:0.21
Consensus pattern (16 bp):
GTGGGGAGGCTCCGCC
Found at i:121713 original size:1 final size:1
Alignment explanation
Indices: 121709--121737 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
121699 CAAAAAAAGG
121709 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
121738 ATATACATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.