Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold468
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: 1127621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 7
Found at i:1076704 original size:19 final size:19
Alignment explanation
Indices: 1076677--1076764 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
1076667 TGTATCGATA
*
1076677 CATTCTATCGATACATGCT
1 CATTATATCGATACATGCT
1076696 CATTATATCGATACAT--T
1 CATTATATCGATACATGCT
1076713 C----TATCGATACATGCT
1 CATTATATCGATACATGCT
* *
1076728 CAATATATCGATACATACT
1 CATTATATCGATACATGCT
* *
1076747 CAATTGTGTCGATACATG
1 C-ATTATATCGATACATG
1076765 AAACTGGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 29 0.52
20 12 0.21
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
CATTATATCGATACATGCT
Found at i:1076710 original size:32 final size:32
Alignment explanation
Indices: 1076669--1076743 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
1076659 TTATGCTTTG
*
1076669 TATCGATACATTCTATCGATACATGCTCATTA
1 TATCGATACATTCTATCGATACATGCTCAATA
1076701 TATCGATACATTCTATCGATACATGCTCAATA
1 TATCGATACATTCTATCGATACATGCTCAATA
1076733 TATCGATACAT
1 TATCGATACAT
1076744 ACTCAATTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (32 bp):
TATCGATACATTCTATCGATACATGCTCAATA
Found at i:1076831 original size:13 final size:13
Alignment explanation
Indices: 1076813--1076839 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1076803 CATGGGACAT
1076813 TTGTATCAATACA
1 TTGTATCAATACA
1076826 TTGTATCAATACA
1 TTGTATCAATACA
1076839 T
1 T
1076840 GGAAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:1077275 original size:23 final size:23
Alignment explanation
Indices: 1077243--1077286 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1077233 GCATTCAACC
*
1077243 TTGGGTTACAATCTCTT-AAGAAT
1 TTGGGGTACAAT-TCTTGAAGAAT
1077266 TTGGGGTACAATTCTTGAAGA
1 TTGGGGTACAATTCTTGAAGA
1077287 GATTGTGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (23 bp):
TTGGGGTACAATTCTTGAAGAAT
Found at i:1079402 original size:20 final size:20
Alignment explanation
Indices: 1079377--1079430 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1079367 CTACCACAGT
*
1079377 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1079397 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
1079417 TTGTATCGATACAT
1 TTGTATCGATACAT
1079431 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1088684 original size:52 final size:52
Alignment explanation
Indices: 1088536--1088664 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1088526 TAAAATATGA
1088536 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
1088588 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1088640 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1088665 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:1088691 original size:13 final size:13
Alignment explanation
Indices: 1088673--1088697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1088663 CAAAGATCAG
1088673 TGTATCGATACAA
1 TGTATCGATACAA
1088686 TGTATCGATACA
1 TGTATCGATACA
1088698 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1088784 original size:32 final size:32
Alignment explanation
Indices: 1088742--1088812 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1088732 AGCTTCGTAG
1088742 CGATACATTGTATCGATACAAAACTGATGTAT
1 CGATACATTGTATCGATACAAAACTGATGTAT
* * *
1088774 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTGATGTAT
1088806 CGATACA
1 CGATACA
1088813 AATCATTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTGATGTAT
Found at i:1089269 original size:13 final size:13
Alignment explanation
Indices: 1089251--1089277 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1089241 ACAATATTCC
1089251 TTGTATCGATACA
1 TTGTATCGATACA
1089264 TTGTATCGATACA
1 TTGTATCGATACA
1089277 T
1 T
1089278 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1091879 original size:20 final size:20
Alignment explanation
Indices: 1091854--1091907 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1091844 CTACCACTGT
*
1091854 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1091874 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
1091894 TTGTATTGATACAT
1 TTGTATCGATACAT
1091908 TACTTCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1095664 original size:21 final size:21
Alignment explanation
Indices: 1095640--1095686 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1095630 TTTTTACTTC
*
1095640 TTTTTCTTTTTCCTTTTTTGT
1 TTTTTCTTTTTCCTTTTTTCT
* *
1095661 TTTTGCTTTTTGCTTTTTTCT
1 TTTTTCTTTTTCCTTTTTTCT
1095682 TTTTT
1 TTTTT
1095687 TTTCGTAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTTTCCTTTTTTCT
Found at i:1095686 original size:7 final size:7
Alignment explanation
Indices: 1095640--1095686 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
1095630 TTTTTACTTC
1095640 TTTTTCT
1 TTTTTCT
*
1095647 TTTTCCT
1 TTTTTCT
*
1095654 TTTTTGT
1 TTTTTCT
*
1095661 TTTTGCT
1 TTTTTCT
*
1095668 TTTTGCT
1 TTTTTCT
1095675 TTTTTCT
1 TTTTTCT
1095682 TTTTT
1 TTTTT
1095687 TTTCGTAGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:1097347 original size:20 final size:20
Alignment explanation
Indices: 1097300--1097354 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1097290 GATTTAAATT
* * *
1097300 AATATGTATCGACAC-CAAG
1 AATATGTATCGATACTAAAC
*
1097319 AACATGTATCGATACTAAAC
1 AATATGTATCGATACTAAAC
1097339 AATATGTATCGATACT
1 AATATGTATCGATACT
1097355 TTCTAGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (20 bp):
AATATGTATCGATACTAAAC
Found at i:1098308 original size:15 final size:16
Alignment explanation
Indices: 1098255--1098338 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 16
1098245 ACCTAAAACC
* *
1098255 AAATGATCCGAACACAA
1 AAATGACCCGAACTC-A
*
1098272 AAATGACCTGAACTCA
1 AAATGACCCGAACTCA
*
1098288 AAATGACCCGAAC-CT
1 AAATGACCCGAACTCA
* *
1098303 AAATGACCCAAACTCG
1 AAATGACCCGAACTCA
* *
1098319 AAATGACTCGAACCCA
1 AAATGACCCGAACTCA
1098335 AAAT
1 AAAT
1098339 AGCCCAAACA
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
15 13 0.24
16 30 0.55
17 12 0.22
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.14
Consensus pattern (16 bp):
AAATGACCCGAACTCA
Found at i:1098310 original size:31 final size:31
Alignment explanation
Indices: 1098272--1098332 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1098262 CCGAACACAA
**
1098272 AAATGACCTGAACTCAAAATGACCCGAACCT
1 AAATGACCCAAACTCAAAATGACCCGAACCT
* *
1098303 AAATGACCCAAACTCGAAATGACTCGAACC
1 AAATGACCCAAACTCAAAATGACCCGAACC
1098333 CAAAATAGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.30, G:0.13, T:0.15
Consensus pattern (31 bp):
AAATGACCCAAACTCAAAATGACCCGAACCT
Found at i:1099132 original size:22 final size:23
Alignment explanation
Indices: 1099093--1099145 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
1099083 CTAAAATGAC
*
1099093 TTAAACCCGATTTAACCCGAATG
1 TTAAACCCGATTTAACCCGAACG
*
1099116 TTAAACCCGA-TTAACCCGAGCG
1 TTAAACCCGATTTAACCCGAACG
1099138 TTAAACCC
1 TTAAACCC
1099146 ATTGACTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (23 bp):
TTAAACCCGATTTAACCCGAACG
Found at i:1099179 original size:16 final size:16
Alignment explanation
Indices: 1099158--1099199 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1099148 TGACTCACAT
1099158 TTGAAATGATTCAAAC
1 TTGAAATGATTCAAAC
*
1099174 TTGAAATAATTCAAAC
1 TTGAAATGATTCAAAC
*
1099190 CTGAAATGAT
1 TTGAAATGAT
1099200 CTGAACCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
TTGAAATGATTCAAAC
Found at i:1110314 original size:15 final size:15
Alignment explanation
Indices: 1110294--1110324 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1110284 TAAAAATGTC
*
1110294 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1110309 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1110324 C
1 C
1110325 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1112425 original size:13 final size:13
Alignment explanation
Indices: 1112407--1112431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1112397 CATTTTTCTT
1112407 TGTATCGATACAA
1 TGTATCGATACAA
1112420 TGTATCGATACA
1 TGTATCGATACA
1112432 GGGGTGTAGA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1112566 original size:1 final size:1
Alignment explanation
Indices: 1112560--1112598 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
1112550 AAAGTGTTTG
***
1112560 AAAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1112599 TTTAAATGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.92, C:0.00, G:0.03, T:0.05
Consensus pattern (1 bp):
A
Found at i:1112582 original size:20 final size:20
Alignment explanation
Indices: 1112557--1112596 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1112547 GATAAAGTGT
1112557 TTGAAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAAA
1112577 TTGAAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAAA
1112597 AATTTAAATG
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:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (20 bp):
TTGAAAAAAAAAAAAAAAAA
Found at i:1112627 original size:21 final size:21
Alignment explanation
Indices: 1112603--1112659 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1112593 AAAAAATTTA
1112603 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1112624 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1112645 AATGTATCGATACAT
1 AATGTATCGATACAT
1112660 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1112739 original size:19 final size:19
Alignment explanation
Indices: 1112715--1112782 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1112705 AATTCAACAA
1112715 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1112734 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1112749 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1112766 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1112783 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1112754 original size:13 final size:13
Alignment explanation
Indices: 1112736--1112760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1112726 ACATAAGTTT
1112736 TGTATCGATACAA
1 TGTATCGATACAA
1112749 TGTATCGATACA
1 TGTATCGATACA
1112761 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1112758 original size:32 final size:32
Alignment explanation
Indices: 1112717--1112779 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1112707 TTCAACAATT
*
1112717 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1112749 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1112780 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1112840 original size:13 final size:13
Alignment explanation
Indices: 1112822--1112847 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1112812 CATTTTTCTG
1112822 TGTATCGATACAT
1 TGTATCGATACAT
1112835 TGTATCGATACAT
1 TGTATCGATACAT
1112848 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1112844 original size:33 final size:33
Alignment explanation
Indices: 1112802--1112868 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1112792 GCCAAGGAAA
***
1112802 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1112835 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1112868 T
1 T
1112869 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1115389 original size:28 final size:28
Alignment explanation
Indices: 1115321--1115393 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
1115311 CTTCACAATC
*
1115321 GGGGACACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCATCA
* ** *
1115349 -GGGATACTCCAACCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTAATCATCA
1115376 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1115394 ACTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTAATCATCA
Found at i:1115438 original size:51 final size:51
Alignment explanation
Indices: 1115376--1115546 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1115366 TTATTTTTGA
* * *
1115376 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1115427 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1115480 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1115532 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1115547 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1115566 original size:28 final size:27
Alignment explanation
Indices: 1115534--1115610 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
1115524 TCACAATCGA
1115534 GGATACTCCAACCTCGTTATTTCATC-AG
1 GGATACTCCAACCTCGTTATTTC--CGAG
* *
1115562 GGATACTCCAACCCCGTTACTTCCGAG
1 GGATACTCCAACCTCGTTATTTCCGAG
*
1115589 GGAACACTCCAACCTCGTTATT
1 GG-ATACTCCAACCTCGTTATT
1115611 ATCTCCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 4 0.10
28 37 0.88
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
GGATACTCCAACCTCGTTATTTCCGAG
Done.