Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2141
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: 80184
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:1526 original size:19 final size:19
Alignment explanation
Indices: 1502--1539 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1492 TGGCTTAGAA
1502 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
1521 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
1540 TTGGCTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
AATGACTCTTGAGTTGTCC
Found at i:4985 original size:15 final size:16
Alignment explanation
Indices: 4965--5000 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4955 AAACTAGCTC
*
4965 TTTTTTTTTACAATT-
1 TTTTTTTTCACAATTA
4980 TTTTTTTTCACAATTA
1 TTTTTTTTCACAATTA
4996 TTTTT
1 TTTTT
5001 CAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTTTCACAATTA
Found at i:5803 original size:11 final size:11
Alignment explanation
Indices: 5787--5812 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5777 GAAAATGACT
5787 CTTGAGTTGTC
1 CTTGAGTTGTC
5798 CTTGAGTTGTC
1 CTTGAGTTGTC
5809 CTTG
1 CTTG
5813 GCTAGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.46
Consensus pattern (11 bp):
CTTGAGTTGTC
Found at i:9220 original size:21 final size:22
Alignment explanation
Indices: 9172--9234 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
9162 ACCTCTTTGA
*
9172 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
9195 ACCATACCATTTCGTA-CAAAT
1 ACCATACCATTTCGTACCAAAT
* * *
9216 TCCATACTATTTCGAACCA
1 ACCATACCATTTCGTACCA
9235 GTTCCCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.51
22 13 0.37
23 4 0.11
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.29
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:9737 original size:4 final size:4
Alignment explanation
Indices: 9728--9754 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9718 AAGTTTTATT
9728 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
9755 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:17199 original size:15 final size:15
Alignment explanation
Indices: 17181--17217 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
17171 TCAAAATCAA
*
17181 AAAAAAATTGAAAGG
1 AAAAAAATTGAAAAG
17196 AAAAAAATTGAAAAG
1 AAAAAAATTGAAAAG
17211 AAAAAAA
1 AAAAAAA
17218 AAATTGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (15 bp):
AAAAAAATTGAAAAG
Found at i:17199 original size:16 final size:16
Alignment explanation
Indices: 17180--17218 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
17170 GTCAAAATCA
17180 AAAAAAAATTG-AAAG
1 AAAAAAAATTGAAAAG
*
17195 GAAAAAAATTGAAAAG
1 AAAAAAAATTGAAAAG
17211 AAAAAAAA
1 AAAAAAAA
17219 AATTGCATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAAAAAATTGAAAAG
Found at i:18918 original size:21 final size:21
Alignment explanation
Indices: 18892--18954 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
18882 TTGGTATTTG
18892 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
18913 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
18934 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
18955 ACGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:21093 original size:18 final size:19
Alignment explanation
Indices: 21033--21095 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
21023 CAAATGAGAG
21033 AAAAAGAAAAGAGCGAAAAT-A
1 AAAAAGAAAAGA---AAAATCA
* *
21054 CAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATCA
*
21073 AAAAAG-AAAGAAAATTCA
1 AAAAAGAAAAGAAAAATCA
21091 AAAAA
1 AAAAA
21096 AGATAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 20 0.54
19 6 0.16
21 11 0.30
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATCA
Found at i:30592 original size:21 final size:23
Alignment explanation
Indices: 30547--30593 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30537 TCACCTGCAA
* *
30547 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
30570 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
30591 TAA
1 TAA
30594 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:41883 original size:20 final size:20
Alignment explanation
Indices: 41836--41883 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
41826 AGTAAGCTCG
41836 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
41856 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
41876 GTTGAGCT
1 GTTGAGCT
41884 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:44939 original size:20 final size:21
Alignment explanation
Indices: 44904--44942 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
44894 CAGCTCGTTG
44904 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
44925 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
44943 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:45350 original size:13 final size:13
Alignment explanation
Indices: 45332--45357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45322 TGTGTCCTAA
45332 TATGAATTAAATT
1 TATGAATTAAATT
45345 TATGAATTAAATT
1 TATGAATTAAATT
45358 GCTTTCAGGT
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:50670 original size:23 final size:22
Alignment explanation
Indices: 50618--50670 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
50608 TCCACGTCTT
*
50618 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
50640 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
50663 TTTCTTTT
1 TTTCTTTT
50671 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:59069 original size:40 final size:40
Alignment explanation
Indices: 58986--59209 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
58976 TTGAATGATG
* * * *
58986 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59025 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59065 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59104 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59144 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59185 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59210 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
39 43 0.27
40 111 0.69
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59189 original size:80 final size:80
Alignment explanation
Indices: 58986--59215 Score: 272
Period size: 79 Copynumber: 2.9 Consensus size: 80
58976 TTGAATGATG
* * * * *
58986 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
59048 TTGTACGAGATACTAAT
64 TTGTACGAGATACTAAA
* * *
59065 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
* *
59128 TGTGCGAGTTACTAAA
65 TGTACGAGATACTAAA
* *
59144 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
*
59209 GAACGAG
66 GTACGAG
59216 GAGCTATATC
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 67 0.53
80 56 0.44
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTACGAGATACTAAA
Found at i:61057 original size:40 final size:40
Alignment explanation
Indices: 60983--61206 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
60973 GCTACTCGTT
*
60983 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61022 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61062 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
61102 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
61141 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61182 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61207 CATCATTCGA
Statistics
Matches: 164, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 43 0.26
40 106 0.65
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61125 original size:79 final size:79
Alignment explanation
Indices: 60983--61206 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
60973 GCTACTCGTT
* * *
60983 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
61047 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
61062 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
61126 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
61141 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
61205 GA
64 GA
61207 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 3 0.02
79 71 0.56
80 51 0.40
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:61190 original size:119 final size:119
Alignment explanation
Indices: 60985--61206 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 119
60975 TACTCGTTCA
* *
60985 AATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
*
61050 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
61104 AATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
61167 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
61207 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 77 0.87
120 8 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:63295 original size:29 final size:29
Alignment explanation
Indices: 63232--63299 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
63222 TAATCAACCA
63232 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
63261 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
63290 CGCACACTTA
1 CGCACACTTA
63300 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:63440 original size:29 final size:30
Alignment explanation
Indices: 63401--63479 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
63391 CTTAATAATC
63401 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
63431 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
63460 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
63480 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:71504 original size:29 final size:29
Alignment explanation
Indices: 71441--71508 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
71431 TAATCAACCA
71441 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
71470 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
71499 CGCACACTTA
1 CGCACACTTA
71509 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:71645 original size:177 final size:172
Alignment explanation
Indices: 71332--71660 Score: 525
Period size: 177 Copynumber: 1.9 Consensus size: 172
71322 AACTCAAGGT
* *
71332 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
71397 GAAAATATATATAGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCAC
66 GAAAATATATATAGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCAC
71462 TTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 TTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
71504 ACTTACCTTTTTCCGCTGTCC-AAATCGACTCGGTAAAGTCGCACCCCTTAATGTAAATAATTTA
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCA-CCCTTAATGTAAATAATTTA
* *
71568 TAGAAAATATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCC
64 TAGAAAATATATATA---GGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCC
* *
71633 ATGTACTTTAAACTCGCACACTTAGTGC
125 ATGCACTTTAAACTCACACACTTAGTGC
71661 TGTACAATTT
Statistics
Matches: 143, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
172 28 0.20
173 47 0.33
176 4 0.03
177 64 0.45
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (172 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATAGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCAC
TTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:71652 original size:29 final size:30
Alignment explanation
Indices: 71613--71691 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
71603 CTTAATAATC
71613 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
71643 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
71672 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
71692 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:73110 original size:11 final size:11
Alignment explanation
Indices: 73094--73118 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73084 CCTCACTAAG
73094 CCAACATGTTC
1 CCAACATGTTC
73105 CCAACATGTTC
1 CCAACATGTTC
73116 CCA
1 CCA
73119 CCCATAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.40, G:0.08, T:0.24
Consensus pattern (11 bp):
CCAACATGTTC
Done.