Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 374 of 433
Found at i:117131914 original size:19 final size:19
Alignment explanation
Indices: 117131873--117131917 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
117131863 TTATATTTCA
*
117131873 TTTTTATTTGTTATCCATG
1 TTTTTATTTGTTATCAATG
* *
117131892 TTTTTATTTATTTATCAATT
1 TTTTTATTT-GTTATCAATG
117131912 TTTTTA
1 TTTTTA
117131918 AATCTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTTATTTGTTATCAATG
Found at i:117132055 original size:14 final size:14
Alignment explanation
Indices: 117132012--117132221 Score: 68
Period size: 14 Copynumber: 14.9 Consensus size: 14
117132002 CTAATTAATC
117132012 TAAACCCTAAACCTT
1 TAAACCCTAAACC-T
* * *
117132027 TAATCCTTAATCCT
1 TAAACCCTAAACCT
117132041 TAAACCCTAAACCT
1 TAAACCCTAAACCT
* * * *
117132055 TGAATCCTAAAACA
1 TAAACCCTAAACCT
117132069 TAAACCCCT-AACTCT
1 TAAA-CCCTAAAC-CT
* * * * *
117132084 GAACCCCTGACCCC
1 TAAACCCTAAACCT
* *
117132098 TGACCCCTAAACCT
1 TAAACCCTAAACCT
* *
117132112 T-AACCCCAACCCT
1 TAAACCCTAAACCT
* * *
117132125 TAAACCATAATCCC
1 TAAACCCTAAACCT
* *
117132139 TAAACCCATAATCCA
1 TAAACCC-TAAACCT
* *
117132154 TAAACCTTAAA--A
1 TAAACCCTAAACCT
* *
117132166 TATTACTCATAAACCT
1 TA-AAC-CCTAAACCT
* *
117132182 TAAACCCTTAACCA
1 TAAACCCTAAACCT
* * *
117132196 TATACCCTAAATCG
1 TAAACCCTAAACCT
117132210 TAAACCCTAAAC
1 TAAACCCTAAAC
117132222 TATAATGATA
Statistics
Matches: 139, Mismatches: 47, Indels: 19
0.68 0.23 0.09
Matches are distributed among these distances:
12 3 0.02
13 12 0.09
14 90 0.65
15 32 0.23
16 2 0.01
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:117132079 original size:29 final size:29
Alignment explanation
Indices: 117132012--117132075 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
117132002 CTAATTAATC
* ** *
117132012 TAAACCCTAAACCTTTAATCCTTAATCCT
1 TAAACCCTAAACCTTGAATCCTTAAAACA
117132041 TAAACCCTAAACCTTGAATCC-TAAAACA
1 TAAACCCTAAACCTTGAATCCTTAAAACA
117132069 TAAACCC
1 TAAACCC
117132076 CTAACTCTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.41, C:0.31, G:0.02, T:0.27
Consensus pattern (29 bp):
TAAACCCTAAACCTTGAATCCTTAAAACA
Found at i:117132147 original size:15 final size:15
Alignment explanation
Indices: 117132125--117132159 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
117132115 CCCCAACCCT
*
117132125 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
117132139 TAAACCCATAATCCA
1 TAAACCCATAATCCA
117132154 TAAACC
1 TAAACC
117132160 TTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:117132197 original size:21 final size:21
Alignment explanation
Indices: 117132119--117132206 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
117132109 CCTTAACCCC
*
117132119 AACCCTTAAACCATAATCCCTA
1 AACCCTT-AACCATAAACCCTA
* *
117132141 AACCCATAATCCATAAACCTTA
1 AACCCTTAA-CCATAAACCCTA
*** *
117132163 AAATATT-ACTCATAAACCTTA
1 AACCCTTAAC-CATAAACCCTA
*
117132184 AACCCTTAACCATATACCCTA
1 AACCCTTAACCATAAACCCTA
117132205 AA
1 AA
117132207 TCGTAAACCC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.02
21 29 0.57
22 21 0.41
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTTAACCATAAACCCTA
Found at i:117132956 original size:155 final size:156
Alignment explanation
Indices: 117132646--117132930 Score: 410
Period size: 155 Copynumber: 1.8 Consensus size: 156
117132636 TGCAGCATTC
* * * *
117132646 TAGATCGAGTATTAGCGGCGTTTATTAAAAAGCACCACTAAAGGTGTACCTATAGCGGCATTTTT
1 TAGATCGAGTATTAGCGGCGTTTATCAAAAAGCACCACTAAAGGTGTACCCATAGAGGCAGTTTT
* *
117132711 TTAAAAAGCGCCGCTAAAGCCACTAATAGCTCAATATAGAACGACGGCGTTTTACAAAAATTTTT
66 TTAAAAAACGCCGCTAAAGCCACTAAAAGCTCAATATAGAACGACGGCGTTTTACAAAAATTTTT
117132776 ACGGTGTTTCTTGAAAAACGCCGCTA
131 ACGGTGTTTCTTGAAAAACGCCGCTA
* * * * *
117132802 TAGATCGAGTATTAGTGGTGTTTATCCAAAAGCGCCGCTAAAGGTGTACCCATAGAGGC-GTTTT
1 TAGATCGAGTATTAGCGGCGTTTATCAAAAAGCACCACTAAAGGTGTACCCATAGAGGCAGTTTT
* * * * * *
117132866 TTAAAAAACGCCGCTAAATCCACTAAAAGCTCAATTTAGGACGATGGCGTTTTGCAAAAGTTTTT
66 TTAAAAAACGCCGCTAAAGCCACTAAAAGCTCAATATAGAACGACGGCGTTTTACAAAAATTTTT
117132931 GCGGCATTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
155 61 0.54
156 51 0.46
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (156 bp):
TAGATCGAGTATTAGCGGCGTTTATCAAAAAGCACCACTAAAGGTGTACCCATAGAGGCAGTTTT
TTAAAAAACGCCGCTAAAGCCACTAAAAGCTCAATATAGAACGACGGCGTTTTACAAAAATTTTT
ACGGTGTTTCTTGAAAAACGCCGCTA
Found at i:117141538 original size:39 final size:39
Alignment explanation
Indices: 117141457--117141647 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
117141447 TATGGTAACC
* * * *
117141457 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
117141497 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
117141536 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
117141575 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
117141614 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
117141648 CTCGAACATT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:117143665 original size:4 final size:4
Alignment explanation
Indices: 117143656--117143680 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
117143646 AAACAAAAGA
117143656 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
117143681 TCTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:117145931 original size:11 final size:10
Alignment explanation
Indices: 117145899--117145952 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
117145889 CATGAGATTT
117145899 TGATAT-ACA
1 TGATATGACA
*
117145908 TGATTTGACA
1 TGATATGACA
117145918 TGATATGCACA
1 TGATATG-ACA
*
117145929 TGATATG-TA
1 TGATATGACA
117145938 TGATATGTACA
1 TGATATG-ACA
117145949 TGAT
1 TGAT
117145953 GTATTCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:117146027 original size:25 final size:25
Alignment explanation
Indices: 117145999--117146068 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
117145989 GAGGAAGTGC
* *
117145999 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
117146024 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
117146049 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
117146069 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:117146081 original size:24 final size:25
Alignment explanation
Indices: 117145998--117146081 Score: 95
Period size: 25 Copynumber: 3.4 Consensus size: 25
117145988 GGAGGAAGTG
* *
117145998 CAAAAG-GGCTATGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAGTTTAT
117146022 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAGTTTAT
117146047 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTTTGCCCCAGTTTAT
*
117146071 TAAAAGAGGCT
1 CAAAAGAGGCT
117146082 AGGCCTCCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 17 0.32
25 36 0.68
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:117157232 original size:53 final size:54
Alignment explanation
Indices: 117157118--117157274 Score: 190
Period size: 53 Copynumber: 2.9 Consensus size: 54
117157108 ATTACCAAAG
* * **
117157118 TACCCCCGATTTACATAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACCGTTT
* * * *
117157172 TACCCTCGATTTATAGAATTACTATTTTACCCTTG-TTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACCGTTT
*** * *
117157225 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTATAAAATTACC
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACC
117157275 AAAATACCCT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 46 0.53
54 41 0.47
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACCGTTT
Found at i:117157247 original size:27 final size:27
Alignment explanation
Indices: 117157118--117157247 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
117157108 ATTACCAAAG
* * *
117157118 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
117157145 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
117157172 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
117157199 TACCCTTG-TTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
117157225 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
117157248 AAAATACCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 23 0.26
27 66 0.74
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:117157255 original size:27 final size:27
Alignment explanation
Indices: 117157225--117157582 Score: 217
Period size: 27 Copynumber: 13.2 Consensus size: 27
117157215 ATTACTGTTT
* *
117157225 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
117157252 TACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
117157279 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
117157306 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * **
117157332 TACCC-CTGGTTTGTAAAATTACTGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
117157359 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
117157386 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
117157413 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
117157440 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
117157467 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
* * ***
117157494 TACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTCGA-TTTAT-AAAATTACCAAAA
* * * * *
117157523 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * * *
117157550 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
117157577 CACCCT
1 TACCCT
117157583 TGTAAGATGA
Statistics
Matches: 262, Mismatches: 54, Indels: 30
0.76 0.16 0.09
Matches are distributed among these distances:
26 27 0.10
27 211 0.81
28 8 0.03
29 16 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:117157283 original size:80 final size:81
Alignment explanation
Indices: 117157106--117157288 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 81
117157096 TTAGTTTACC
* * * * ***
117157106 AAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTTGATTTACAAAATTACCGTT
1 AAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAA
*
117157171 TTACCCTCGATTTATA
66 ATACCCTCGATTTATA
* * *** * * *
117157187 GAATTACTATTTTACCCTTG-TTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAA
1 AAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAA
* *
117157251 ATACCCTTGGTTTATA
66 ATACCCTCGATTTATA
117157267 AAATTACCAAAATACCCTCGAT
1 AAATTACCAAAATACCCTCGAT
117157289 CAGTAAAATT
Statistics
Matches: 78, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
80 64 0.82
81 14 0.18
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAA
ATACCCTCGATTTATA
Found at i:117157288 original size:54 final size:54
Alignment explanation
Indices: 117157225--117157583 Score: 271
Period size: 54 Copynumber: 6.6 Consensus size: 54
117157215 ATTACTGTTT
** * *
117157225 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
** * * * *
117157279 TACCCTCGATCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* ** * * *
117157332 TACCC-CTGGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * *
117157386 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTTAGTTTATAAAATTACCAAAA
* * * *
117157440 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAG-TTTATAAAATTACCA-AAA
* * *** * * * *
117157494 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * *
117157550 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTT
117157584 GTAAGATGAA
Statistics
Matches: 240, Mismatches: 53, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
52 1 0.00
53 44 0.18
54 145 0.60
55 11 0.05
56 37 0.15
57 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
Found at i:117157433 original size:81 final size:80
Alignment explanation
Indices: 117157239--117157473 Score: 337
Period size: 81 Copynumber: 2.9 Consensus size: 80
117157229 CTCGATTTAC
* * * **
117157239 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
117157304 AATA-CCCTAGTCTGT
65 AATACCCCTAGTCTGT
* *
117157319 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
117157384 AATACCCCTAGTTTGT
65 AATACCCCTAGTCTGT
* * *
117157400 AAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
117157465 AATACCCCT
65 AATACCCCT
117157474 GATTTACAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 60 0.43
81 79 0.57
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:117157706 original size:27 final size:27
Alignment explanation
Indices: 117157615--117157706 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
117157605 ACCCCTATTA
*
117157615 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
117157642 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
117157669 GGTAAAGTGACTGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
117157696 GGTAAAATGAC
1 GGTAAAATGAC
117157707 GAATATGCCT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:117158539 original size:26 final size:26
Alignment explanation
Indices: 117158509--117158657 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
117158499 GAGAAAGTGC
*
117158509 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
117158535 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
117158561 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
117158587 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
117158613 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
117158638 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
117158658 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 33 0.29
26 79 0.71
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:117158591 original size:52 final size:52
Alignment explanation
Indices: 117158509--117158657 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
117158499 GAGAAAGTGC
* *
117158509 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
117158561 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
117158613 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
117158658 ATTAAAGAGG
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 10 0.11
51 25 0.26
52 60 0.63
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:117158861 original size:42 final size:42
Alignment explanation
Indices: 117158802--117158893 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
117158792 TAGTCTCCCC
* ** * *
117158802 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
117158844 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
117158886 AAATGGGC
1 AAATGGGC
117158894 CTAAGGGCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:117158994 original size:31 final size:31
Alignment explanation
Indices: 117158917--117158995 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
117158907 CGTTTACAGT
*
117158917 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
117158948 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
117158979 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
117158996 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:117161427 original size:23 final size:23
Alignment explanation
Indices: 117161401--117161455 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
117161391 ATTGAAACGA
*
117161401 TAAGCTCTGACGAGCTAA-ATCAG
1 TAAGCTCT-ACGAGCTAAGAACAG
*
117161424 TAAGCTCATACGAGTTAAGAACAG
1 TAAGCTC-TACGAGCTAAGAACAG
117161448 TAAGCTCT
1 TAAGCTCT
117161456 TTTGATCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (23 bp):
TAAGCTCTACGAGCTAAGAACAG
Found at i:117163256 original size:13 final size:13
Alignment explanation
Indices: 117163238--117163263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117163228 TTGAGCTGAT
117163238 TACTTTTCCTTTA
1 TACTTTTCCTTTA
117163251 TACTTTTCCTTTA
1 TACTTTTCCTTTA
117163264 CAAGTGATAA
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:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (13 bp):
TACTTTTCCTTTA
Found at i:117164276 original size:20 final size:20
Alignment explanation
Indices: 117164253--117164439 Score: 174
Period size: 20 Copynumber: 9.8 Consensus size: 20
117164243 GTGGACCTAC
117164253 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
** **
117164273 TGATGGCTCAGTGCTACTAT
1 TGATGGCTTTGTGCCGCTAT
* * *
117164293 TGACGGCTTTATGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
117164313 TGATAGCTTTGTGCTGC---
1 TGATGGCTTTGTGCCGCTAT
117164330 T-A----TTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
117164345 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
117164365 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
117164385 TGATGTCTTTGTACCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* * *
117164405 TGAAGGCTTCGTGCCGCTAC
1 TGATGGCTTTGTGCCGCTAT
*
117164425 TCATGGCTTTGTGCC
1 TGATGGCTTTGTGCC
117164440 ATATACTGAT
Statistics
Matches: 132, Mismatches: 27, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
12 9 0.07
15 1 0.01
16 2 0.02
17 1 0.01
20 119 0.90
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:117164354 original size:32 final size:32
Alignment explanation
Indices: 117164304--117164365 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
117164294 GACGGCTTTA
*
117164304 TGCCACTATTGATAGCTTTGTGCTGCTATTTG
1 TGCCACTATTGATAGCTTTGTGCCGCTATTTG
* *
117164336 TGCCGCTATTGATGGCTTTGTGCCGCTATT
1 TGCCACTATTGATAGCTTTGTGCCGCTATT
117164366 GATGGCTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.42
Consensus pattern (32 bp):
TGCCACTATTGATAGCTTTGTGCCGCTATTTG
Found at i:117164380 original size:72 final size:72
Alignment explanation
Indices: 117164260--117164405 Score: 204
Period size: 72 Copynumber: 2.0 Consensus size: 72
117164250 TACTGATGGC
*
117164260 TTTGTGCCGCTATTGATGGCTCAGTGCTACTATTGACGGCTTTATGCCACTATTGATAG-CTTTG
1 TTTGTGCCGCTATTGATGGCTCAGTGCCACTATTGACGGCTTTATGCCACTATTGAT-GTCTTTG
* *
117164324 TGCTGCTA
65 TACCGCTA
** * * *
117164332 TTTGTGCCGCTATTGATGGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATTGATGTCTTTGT
1 TTTGTGCCGCTATTGATGGCTCAGTGCCACTATTGACGGCTTTATGCCACTATTGATGTCTTTGT
117164397 ACCGCTA
66 ACCGCTA
117164404 TT
1 TT
117164406 GAAGGCTTCG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
71 1 0.02
72 64 0.98
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (72 bp):
TTTGTGCCGCTATTGATGGCTCAGTGCCACTATTGACGGCTTTATGCCACTATTGATGTCTTTGT
ACCGCTA
Found at i:117164485 original size:26 final size:26
Alignment explanation
Indices: 117164449--117164511 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
117164439 CATATACTGA
* * *
117164449 TACTGGTAGCTTTGTTACGTTATTGT
1 TACTGGCAGCTTTGTTACGATATTAT
**
117164475 TACTGGCAGCTTTGTTGTGATATTAT
1 TACTGGCAGCTTTGTTACGATATTAT
117164501 TACTGGCAGCT
1 TACTGGCAGCT
117164512 ATGCTGCGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.44
Consensus pattern (26 bp):
TACTGGCAGCTTTGTTACGATATTAT
Found at i:117174558 original size:42 final size:43
Alignment explanation
Indices: 117174466--117174566 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
117174456 CAATGCTAAC
* * *
117174466 GTCCCAGAC-GTGGTCTTACATGTAATTCAATATCGATGCATCT
1 GTCCCAGACAG-GGTCTAACATGTAAATCAATATCGATGCATAT
117174509 GTCCCAGACAGGGTCTAACATG-AAATCAGATA-CGATGC-TGAT
1 GTCCCAGACAGGGTCTAACATGTAAATCA-ATATCGATGCAT-AT
*
117174551 GTCCCAGACATGGTCT
1 GTCCCAGACAGGGTCT
117174567 TATACGTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.53
43 22 0.43
44 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTAACATGTAAATCAATATCGATGCATAT
Found at i:117187520 original size:3 final size:3
Alignment explanation
Indices: 117187512--117187569 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
117187502 AATCTATGTT
117187512 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
117187560 ATA ATA ATA A
1 ATA ATA ATA A
117187570 ATAAAAGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:117190937 original size:41 final size:40
Alignment explanation
Indices: 117190767--117190960 Score: 162
Period size: 40 Copynumber: 4.8 Consensus size: 40
117190757 GGATATAGCG
* * * ***
117190767 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGGA
* *
117190807 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGA
* * **
117190847 ACTCGCACAAATTTCCCTC-GGATCTTATTCCGGATTTGGGA
1 ACTCGCACAAA-TGCCTTCGGGA-CTTAGCCCGGATTTGGGA
* * **
117190888 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTGGGA
*
117190928 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
117190961 CATCATTCGA
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
40 83 0.65
41 45 0.35
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGGA
Found at i:117192841 original size:33 final size:33
Alignment explanation
Indices: 117192777--117192846 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
117192767 TCTAGGACAA
* * ** *
117192777 TAAACATGGAATAGAGTAAGTCTGTTAGGATAG
1 TAAACATGGAATAAAGTAAGCCCATCAGGATAG
*
117192810 TAAACATGGAATAAAGTAAGCCCATCGGGATAG
1 TAAACATGGAATAAAGTAAGCCCATCAGGATAG
117192843 TAAA
1 TAAA
117192847 TATGAAACAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.23
Consensus pattern (33 bp):
TAAACATGGAATAAAGTAAGCCCATCAGGATAG
Found at i:117195256 original size:32 final size:32
Alignment explanation
Indices: 117195215--117195276 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
117195205 TGGCTCTTTA
117195215 GTACCAAAATTTTCATTATCACACACACTATG
1 GTACCAAAATTTTCATTATCACACACACTATG
*
117195247 GTACCAAAATTTTCATTATCACACATACTA
1 GTACCAAAATTTTCATTATCACACACACTA
117195277 ACATTTAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (32 bp):
GTACCAAAATTTTCATTATCACACACACTATG
Found at i:117196885 original size:15 final size:16
Alignment explanation
Indices: 117196867--117196899 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
117196857 TATATTTTTT
117196867 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
117196882 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
117196899 T
1 T
117196900 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:117196985 original size:22 final size:22
Alignment explanation
Indices: 117196946--117197004 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
117196936 GTTTTAAGAA
*
117196946 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
117196967 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
117196989 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
117197005 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:117197021 original size:26 final size:24
Alignment explanation
Indices: 117196975--117197023 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
117196965 ATTTGTTTTA
*
117196975 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
117196999 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
117197024 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:117197034 original size:25 final size:26
Alignment explanation
Indices: 117196978--117197035 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
117196968 TGTTTTAATA
*
117196978 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
117197003 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
117197028 TTTATTTA
1 TTTATTTA
117197036 ATGAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:117211648 original size:15 final size:15
Alignment explanation
Indices: 117211607--117211637 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
117211597 GTTGCTAAAT
*
117211607 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
117211622 ATAATAATAATAGTA
1 ATAATAATAATAGTA
117211637 A
1 A
117211638 ATATGATAAT
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:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:117213312 original size:44 final size:44
Alignment explanation
Indices: 117213259--117213402 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
117213249 ACCTATTACC
*
117213259 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
* * * * * *
117213303 CTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTC-ATCTTCGATCTGCT-CCA
* * *
117213345 CTACTGCTTAGGGGTTTAAGGTTCTTCTTCTTCGATCTACACCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
117213389 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
117213403 GATAAGATCT
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
41 1 0.01
42 22 0.29
43 18 0.24
44 34 0.45
45 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
Found at i:117213359 original size:86 final size:85
Alignment explanation
Indices: 117213165--117213450 Score: 317
Period size: 86 Copynumber: 3.3 Consensus size: 85
117213155 TAATTTTCAG
* * * * *
117213165 CCTGTTACCCTACTGCTTAAGGGATTAAGGCTT-GTCATCTTTGATCTGTTTCC-CTACTGCTTA
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGG-TTCTTCATCTTCGATCTG-CTCCACTACTGCTTA
** * * * *
117213228 GGGTTTTAGAT-TGTATACTCAA
64 GGGGATAAGATCTGCA-ATTTAA
* *
117213250 CCTATTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGG
117213315 GAGATAAGATCTGCAATTTAA
66 G-GATAAGATCTGCAATTTAA
* * *
117213336 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCTTCTTCGATCTACACCACTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTA-G
* **
117213401 GGGATAAGATCTACAATTTGG
65 GGGATAAGATCTGCAATTTAA
* *
117213422 TCTGTTTCCCTACTGCTTAGGGGTTTAAG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAG
117213451 ATCCTATGAA
Statistics
Matches: 174, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
84 5 0.03
85 52 0.30
86 111 0.64
87 6 0.03
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (85 bp):
CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGG
GGATAAGATCTGCAATTTAA
Found at i:117213849 original size:43 final size:42
Alignment explanation
Indices: 117213740--117214198 Score: 309
Period size: 43 Copynumber: 10.5 Consensus size: 42
117213730 CAGCCTATTA
** * * *
117213740 CCCTACTGCTTAGGGGGTTAAGGCCCATCTTCTTTGATCTGTTT
1 CCCTACTGCTTA-GGGGTTAA-GATCTTCATCTTCGATCTGTTT
117213784 CCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTT
1 CCCTACTGCTTAGG-GGTTAAGATCTTCATCTTCGATCTGTTT
* * * * * *
117213827 CCCTACTGCCTAGGGAGATAAGATCTGCA-ATTCGGTCTGTTA
1 CCCTACTGCTTAGGG-GTTAAGATCTTCATCTTCGATCTGTTT
* * * *
117213869 CCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGG-TTAAGA-TCTTCATCTTCGATCTGTTT
* * *
117213913 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTA
1 CCCTACTGCTTA-GGGGTTAAGATCT-T-CATCTTCGA-TCTGTTT
* * * * * *
117213958 CCCTACTGCTCAGGGGGTTAA-AGCTTGTAAAT-TTGGCT-TGTTA
1 CCCTACTGCTTA-GGGGTTAAGATC-T-T-CATCTTCGATCTGTTT
* ** * *
117214001 CCCTACTGCATAGGGGGTTAAAGCCCATCATCTTTGATCTGTTT
1 CCCTACTGCTTA-GGGGTT-AAGATCTTCATCTTCGATCTGTTT
*
117214045 CCCTACTGCTTAAGGGGTTAAGATTTTCATCTTCGATCTGTTT
1 CCCTACTGCTT-AGGGGTTAAGATCTTCATCTTCGATCTGTTT
* * * * * * *
117214088 CCCTACTGCTTAGAGAGATAGGATCTGCA-ATTCGGTCTGTTA
1 CCCTACTGCTTAG-GGGTTAAGATCTTCATCTTCGATCTGTTT
* * * *
117214130 CCCTACTCGATTAGGGGTTTAAGACCCTTCGTCTTCGATTTGTTT
1 CCCTACT-GCTTAGGGG-TTAAGA-TCTTCATCTTCGATCTGTTT
117214175 CCCTACTGCTTAGGGGATTAAGAT
1 CCCTACTGCTTAGGGG-TTAAGAT
117214199 TTGTAAATCT
Statistics
Matches: 324, Mismatches: 70, Indels: 43
0.74 0.16 0.10
Matches are distributed among these distances:
41 1 0.00
42 51 0.16
43 124 0.38
44 89 0.27
45 59 0.18
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGTTT
Found at i:117214179 original size:87 final size:84
Alignment explanation
Indices: 117213777--117214241 Score: 355
Period size: 87 Copynumber: 5.3 Consensus size: 84
117213767 TCTTCTTTGA
* * * *
117213777 TCTGTTTCCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGGG
1 TCTGTTACCCTACTGCTTAGG-GGTTAAGACCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
117213842 AGATAAGATCTGCAATTCGG
65 AGATAAGATCTGCAATTCGG
* *
117213862 TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
1 TCTGTTACCCTACTGCTTAGGGG-TTAAGA-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
* * * *
117213927 GGGTTAAGATCTGTAAATCTTCAG
64 GAGATAAGATCTG-CAA--TTCGG
* * * * * * * *
117213951 CCTGTTACCCTACTGCTCAGGGGGTTAA-AGCTT-GTAAATTTG-GCTTGTTACCCTACTGCATA
1 TCTGTTACCCTACTGCTTA-GGGGTTAAGACCTTCGT--CTTCGATC-TGTTTCCCTACTGCTTA
* * ** * * *
117214013 GGGGGTTAAAGCCCAT-CATCTTTGA
62 GGGAGAT-AAGATC-TGCA-ATTCGG
* ** * *
117214038 TCTGTTTCCCTACTGCTTAAGGGGTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGAG
1 TCTGTTACCCTACTGCTT-AGGGGTTAAGACCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
*
117214103 AGATAGGATCTGCAATTCGG
65 AGATAAGATCTGCAATTCGG
* *
117214123 TCTGTTACCCTACTCGATTAGGGGTTTAAGACCCTTCGTCTTCGATTTGTTTCCCTACTGCTTAG
1 TCTGTTACCCTACT-GCTTAGGGG-TTAAGA-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAG
* * *
117214188 GG-GATTAAGATTTGTAAATCTTCAG
63 GGAGA-TAAGATCTG-CAA--TTCGG
* *
117214213 CCTGCTACCCTACTGCTTAGGGGGTTAAG
1 TCTGTTACCCTACTGCTTA-GGGGTTAAG
117214242 GCTTATGAAT
Statistics
Matches: 294, Mismatches: 61, Indels: 46
0.73 0.15 0.11
Matches are distributed among these distances:
84 2 0.01
85 46 0.16
86 60 0.20
87 90 0.31
88 34 0.12
89 37 0.13
90 25 0.09
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (84 bp):
TCTGTTACCCTACTGCTTAGGGGTTAAGACCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGA
GATAAGATCTGCAATTCGG
Found at i:117226920 original size:15 final size:15
Alignment explanation
Indices: 117226879--117226909 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
117226869 GTTGCTAAAT
*
117226879 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
117226894 ATAATAATAATAGTA
1 ATAATAATAATAGTA
117226909 A
1 A
117226910 ATATGATAAT
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:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:117231787 original size:13 final size:13
Alignment explanation
Indices: 117231769--117231793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117231759 TTGAAACCGA
117231769 AATTAACTAAATT
1 AATTAACTAAATT
117231782 AATTAACTAAAT
1 AATTAACTAAAT
117231794 AACACGACAA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAACTAAATT
Found at i:117233280 original size:17 final size:17
Alignment explanation
Indices: 117233257--117233298 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
117233247 AAAGTTGCAC
117233257 ATATTTTAT-TTTCTAGT
1 ATATTTTATATTT-TAGT
*
117233274 TTATTTTATATTTTAGT
1 ATATTTTATATTTTAGT
117233291 ATATTTTA
1 ATATTTTA
117233299 CATCTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (17 bp):
ATATTTTATATTTTAGT
Found at i:117234590 original size:13 final size:13
Alignment explanation
Indices: 117234572--117234596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117234562 GTTTCAAGTT
117234572 TTTTTAATTAATG
1 TTTTTAATTAATG
117234585 TTTTTAATTAAT
1 TTTTTAATTAAT
117234597 AAATATTTTT
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:117235168 original size:44 final size:45
Alignment explanation
Indices: 117235120--117235211 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
117235110 ATAAGCCAAA
* * *
117235120 TAATATT-AAAATAACCTACACTAATCAGTGTTTAAGTGAGGAAC
1 TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGAGGAAC
*
117235164 TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGGGGAAC
1 TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGAGGAAC
117235209 TAA
1 TAA
117235212 AAATAGAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 7 0.16
45 36 0.84
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (45 bp):
TAATATTAAAAAAAACCTACACTAATCAGAGTTTAAATGAGGAAC
Found at i:117237400 original size:13 final size:13
Alignment explanation
Indices: 117237382--117237406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117237372 AAAATATATT
117237382 ATTAATTAAAAAC
1 ATTAATTAAAAAC
117237395 ATTAATTAAAAA
1 ATTAATTAAAAA
117237407 AATTTGAAAC
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:117239116 original size:26 final size:26
Alignment explanation
Indices: 117239087--117239168 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
117239077 TGATACAAAT
117239087 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117239113 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117239139 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117239165 TGAT
1 TGAT
117239169 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117242255 original size:65 final size:63
Alignment explanation
Indices: 117242173--117242293 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 63
117242163 GAGAATCATT
* *
117242173 AGAAAAGTTGGTGTTATTTT-AGCA-TTTTATGTTGTTTTTAAGTATGTTTCATTTTCTGTCATA
1 AGAAAAGTTGGTGTTATTTTGA-CATTTTTATGTT-ATTTTAAGTATATTT-ATTTTCTGTCATA
117242236 A
63 A
117242237 AGAATAAGTTGGTGTTATTTTGACATTTTTATGTTATTTTAAGTATATTTATTTTCT
1 AGAA-AAGTTGGTGTTATTTTGACATTTTTATGTTATTTTAAGTATATTTATTTTCT
117242294 TGATTAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
64 11 0.21
65 31 0.60
66 10 0.19
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.54
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTGACATTTTTATGTTATTTTAAGTATATTTATTTTCTGTCATAA
Found at i:117242663 original size:15 final size:16
Alignment explanation
Indices: 117242643--117242675 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
117242633 TATATATTTT
117242643 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
117242658 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
117242675 T
1 T
117242676 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:117242761 original size:22 final size:22
Alignment explanation
Indices: 117242722--117242780 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
117242712 GTTTTAAGAA
*
117242722 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
117242743 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
117242765 AT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
117242781 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:117242778 original size:24 final size:25
Alignment explanation
Indices: 117242751--117242810 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
117242741 ATTTGTTTTA
117242751 ATATTTATTT-TTATATTTTTAAAT
1 ATATTTATTTATTATATTTTTAAAT
117242775 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTTATTATATTTTTAAAT
*
117242801 -TTTTTATTTA
1 ATATTTATTTA
117242811 ATGAAATAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 11 0.33
25 8 0.24
26 14 0.42
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
ATATTTATTTATTATATTTTTAAAT
Found at i:117245240 original size:48 final size:48
Alignment explanation
Indices: 117245169--117245265 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
117245159 TGATGGTCGC
117245169 TAAACTAACTAAAAATTCAACTAAGGCAAACTCACCTATCGAACAGTA
1 TAAACTAACTAAAAATTCAACTAAGGCAAACTCACCTATCGAACAGTA
117245217 TAAACTAACTAAAAATTCAACTAAGGCAAACTCACCTATCGAACAGTA
1 TAAACTAACTAAAAATTCAACTAAGGCAAACTCACCTATCGAACAGTA
117245265 T
1 T
117245266 TATAGTTATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.22
Consensus pattern (48 bp):
TAAACTAACTAAAAATTCAACTAAGGCAAACTCACCTATCGAACAGTA
Found at i:117246035 original size:58 final size:59
Alignment explanation
Indices: 117245937--117246055 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
117245927 ACGATGGGGG
117245937 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
1 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
117245996 AAAACATCTCAAAATTGGGAAAACAAC-AAACATAAAGAAACCCAAAAACTTCGGTAGA
1 AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
117246054 AA
1 AA
117246056 CTGAATGGAG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 33 0.55
59 27 0.45
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.13
Consensus pattern (59 bp):
AAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAAACTTCGGTAGA
Found at i:117248790 original size:25 final size:23
Alignment explanation
Indices: 117248762--117248830 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
117248752 ACAGGAAAAC
117248762 AAAATAAACATAGAAAGA-AAAATAA
1 AAAATAAACATA-AAA-ATAAAAT-A
*
117248787 AAAATAAAAAATAAAAATAAAATA
1 AAAAT-AAACATAAAAATAAAATA
*
117248811 AAAATAAACATAAAGATAAA
1 AAAATAAACATAAAAATAAA
117248831 TGGACTCAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 13 0.33
24 7 0.18
25 13 0.33
26 6 0.15
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.14
Consensus pattern (23 bp):
AAAATAAACATAAAAATAAAATA
Found at i:117248791 original size:7 final size:7
Alignment explanation
Indices: 117248779--117248808 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
117248769 ACATAGAAAG
117248779 AAAAATA
1 AAAAATA
117248786 AAAAATA
1 AAAAATA
117248793 AAAAAT-
1 AAAAATA
117248799 AAAAATA
1 AAAAATA
117248806 AAA
1 AAA
117248809 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:117248795 original size:6 final size:6
Alignment explanation
Indices: 117248762--117248830 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
117248752 ACAGGAAAAC
* * *
117248762 AAAATA AACATA GAAAGA AAAATAA AAAATAA AAAATA AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAAT-A AAAAT-A AAAATA AAAATA AAAATA
* *
117248811 AAAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AA
117248831 TGGACTCAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.09
6 35 0.66
7 13 0.25
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:117248802 original size:12 final size:12
Alignment explanation
Indices: 117248762--117248824 Score: 58
Period size: 13 Copynumber: 5.1 Consensus size: 12
117248752 ACAGGAAAAC
117248762 AAAATAAACATAGA
1 AAAATAAA-ATA-A
*
117248776 AAGA-AAAATAA
1 AAAATAAAATAA
*
117248787 AAAATAAAAAATA
1 AAAATAAAATA-A
117248800 AAAATAAAAT-A
1 AAAATAAAATAA
117248811 AAAATAAACATAA
1 AAAATAAA-ATAA
117248824 A
1 A
117248825 GATAAATGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
11 13 0.32
12 10 0.24
13 15 0.37
14 3 0.07
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:117248829 original size:12 final size:11
Alignment explanation
Indices: 117248757--117248830 Score: 71
Period size: 11 Copynumber: 6.7 Consensus size: 11
117248747 TCACAACAGG
*
117248757 AAAACAAAATA
1 AAAATAAAATA
* *
117248768 AACATAGAAAGA
1 AAAATA-AAATA
117248780 AAAATAAAA-A
1 AAAATAAAATA
*
117248790 ATAA-AAAATA
1 AAAATAAAATA
117248800 AAAATAAAATA
1 AAAATAAAATA
117248811 AAAATAAACATA
1 AAAATAAA-ATA
*
117248823 AAGATAAA
1 AAAATAAA
117248831 TGGACTCAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
9 4 0.08
10 8 0.15
11 21 0.40
12 19 0.37
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:117251062 original size:20 final size:21
Alignment explanation
Indices: 117251037--117251088 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
117251027 TCACTTCTCT
**
117251037 CACGCCCGTGTGGTCT-CCCA
1 CACGCCCGTGTGGTCTGAACA
117251057 CACGCCCGTGT-GTCTGAACA
1 CACGCCCGTGTGGTCTGAACA
117251077 CACGCCCGTGTG
1 CACGCCCGTGTG
117251089 CCTTGCCCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.13, C:0.40, G:0.27, T:0.19
Consensus pattern (21 bp):
CACGCCCGTGTGGTCTGAACA
Found at i:117252205 original size:46 final size:48
Alignment explanation
Indices: 117252138--117252237 Score: 150
Period size: 46 Copynumber: 2.1 Consensus size: 48
117252128 AAATGGCCGA
*
117252138 CCTAGAATTAAAGGTAAGTCACTATC-CTC-ATCCATGAAACCTCAAG
1 CCTAGAATTAAAGGTAAGTCACTATCTCTCAATCCAAGAAACCTCAAG
117252184 CCTAGAATTAAAGGTAAGTCACTATCTCTCAAGAATCCAAGAAACCTCAAG
1 CCTAGAATTAAAGGTAAGTCACTATCTCTC---AATCCAAGAAACCTCAAG
117252235 CCT
1 CCT
117252238 TACTTACAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
46 26 0.54
47 3 0.06
51 19 0.40
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (48 bp):
CCTAGAATTAAAGGTAAGTCACTATCTCTCAATCCAAGAAACCTCAAG
Found at i:117252784 original size:15 final size:15
Alignment explanation
Indices: 117252764--117252792 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
117252754 TTGTTTGGCT
117252764 CAATTTCCAAATTTC
1 CAATTTCCAAATTTC
117252779 CAATTTCCAAATTT
1 CAATTTCCAAATTT
117252793 TCATGTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (15 bp):
CAATTTCCAAATTTC
Found at i:117256193 original size:16 final size:16
Alignment explanation
Indices: 117256162--117256205 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
117256152 TTTAAAAATT
* *
117256162 ATAAAAATATTTAAAA
1 ATAAAAAAATTCAAAA
117256178 ATAAAAAAATTCAAAA
1 ATAAAAAAATTCAAAA
*
117256194 TTCAAAAAAATT
1 AT-AAAAAAATT
117256206 ATAAGAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAAAATTCAAAA
Found at i:117257214 original size:29 final size:29
Alignment explanation
Indices: 117257182--117257332 Score: 171
Period size: 29 Copynumber: 5.2 Consensus size: 29
117257172 TGCACCACTG
* *
117257182 TTTTACAGATTTTATAGTTTTGTCACTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* **
117257211 TTTTCCAGATTTTACAGTTTTGCCACTGG
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* * *
117257240 TTTTCCAGATTTTATAATTCTGCCATTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
* * *
117257269 TTTT-CAGATATTACTA-TTTTGCTACTAG
1 TTTTCCAGATTTTA-TAGTTTTGCCACTAT
117257297 TTTTCCAGATTTTATAGTTTTGCCACTAT
1 TTTTCCAGATTTTATAGTTTTGCCACTAT
*
117257326 TCTTCCA
1 TTTTCCA
117257333 AAAAAAATTA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
28 22 0.22
29 77 0.78
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (29 bp):
TTTTCCAGATTTTATAGTTTTGCCACTAT
Found at i:117257303 original size:57 final size:58
Alignment explanation
Indices: 117257176--117257332 Score: 203
Period size: 57 Copynumber: 2.7 Consensus size: 58
117257166 TGACCATGCA
* * *
117257176 CCACT-GTTTTACAGATTTTATAGTTTTGTCACTATTTTTCCAGATTTTACAGTTTTG
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTACAGTTTTG
* * * *
117257233 CCACTGGTTTTCCAGATTTTATAATTCTGCCATTATTTTT-CAGATATTACTA-TTTTG
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTAC-AGTTTTG
* *
117257290 CTACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTCTTCCA
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCA
117257333 AAAAAAATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 53 0.62
58 32 0.38
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (58 bp):
CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTACAGTTTTG
Found at i:117258009 original size:135 final size:135
Alignment explanation
Indices: 117257767--117258026 Score: 344
Period size: 135 Copynumber: 1.9 Consensus size: 135
117257757 GCAAAAGCAT
* * *
117257767 ATTCCAACTGCGTCCATTTTACCGTGCAAGCACAACCCTTTGACAGCTTTTATCTGTGAGTATGT
1 ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTTTATCTGCGAGTATGT
* * *
117257832 TGTGCTTCCACGGCAATTGACAGATTTTATCTGCATTATATGTGTGTGTTGTGTATCCACTGAAA
66 TGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACTGAAA
117257897 AATAG
131 AATAG
* * ** * * *
117257902 ATTCCAACTGCATCTATTTTATCGTGTGAGCACAACCTTTTAATAGCTTTGT-TTTGCGAGTATG
1 ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTT-TATCTGCGAGTATG
* * *
117257966 TTGTGCTTCCATGGCTATT-AGTAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC
65 TTGTGCTTCCACGGCAATTGA-CAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC
117258027 AACAAAAGCA
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
134 1 0.01
135 105 0.98
136 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (135 bp):
ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTTTATCTGCGAGTATGT
TGTGCTTCCACGGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACTGAAA
AATAG
Found at i:117258506 original size:37 final size:37
Alignment explanation
Indices: 117258422--117258507 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
117258412 TTTATCGTAT
* * * **
117258422 TGAATTGATTGATATGCAAGAGTGTTTGTTATTATGT
1 TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
* * *
117258459 TAAATAGATTGATATGCAAAACTGTTTGTCATTGTAC
1 TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
117258496 TGAATTGATTGA
1 TGAATTGATTGA
117258508 CATGTGAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (37 bp):
TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
Found at i:117259640 original size:3 final size:3
Alignment explanation
Indices: 117259632--117259657 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
117259622 ATATAACTGA
117259632 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
117259658 AAGAAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:117262341 original size:29 final size:29
Alignment explanation
Indices: 117262299--117262356 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
117262289 ATACCTAAAA
117262299 ATTGAATAAAAAAATCAATTCATTTCTAT
1 ATTGAATAAAAAAATCAATTCATTTCTAT
117262328 ATTGAATAAAAAAATCAATTCATTTCTAT
1 ATTGAATAAAAAAATCAATTCATTTCTAT
117262357 CTTTTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTGAATAAAAAAATCAATTCATTTCTAT
Found at i:117271236 original size:15 final size:15
Alignment explanation
Indices: 117271216--117271245 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
117271206 TATTCATAAG
117271216 TAAACAATAAATTCA
1 TAAACAATAAATTCA
117271231 TAAACAATAAATTCA
1 TAAACAATAAATTCA
117271246 AGATAATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACAATAAATTCA
Found at i:117272734 original size:19 final size:20
Alignment explanation
Indices: 117272681--117272735 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
117272671 TAGGCCTTAA
* *
117272681 CCCATATCAACACAGTTGGG
1 CCCATAACAAAACAGTTGGG
* *
117272701 CCCATTTA-AATACAGTT-GG
1 CCCA-TAACAAAACAGTTGGG
117272720 CCCATAACAAAACAGT
1 CCCATAACAAAACAGT
117272736 CTCATATGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 12 0.43
21 1 0.04
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (20 bp):
CCCATAACAAAACAGTTGGG
Found at i:117277312 original size:19 final size:19
Alignment explanation
Indices: 117277288--117277348 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
117277278 AATCTTTAAG
117277288 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
117277307 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
117277326 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
117277343 GATATG
1 GATATG
117277349 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:117281491 original size:26 final size:26
Alignment explanation
Indices: 117281455--117281557 Score: 170
Period size: 26 Copynumber: 4.0 Consensus size: 26
117281445 AAATGTCCGC
* *
117281455 CATGGAACATTTACGTAAACCATTAT
1 CATGGAACATTTACCTAACCCATTAT
117281481 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
* *
117281507 CATGGAATATTTACCTAATCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
117281533 CATGGAACATTTACCTAACCCATTA
1 CATGGAACATTTACCTAACCCATTA
117281558 CAATTTGTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (26 bp):
CATGGAACATTTACCTAACCCATTAT
Found at i:117286390 original size:25 final size:25
Alignment explanation
Indices: 117286362--117286419 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
117286352 AATTTGATAT
117286362 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
*
117286387 TTCAGCAGAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
117286412 TTC-GCAAA
1 TTCAGCAAA
117286420 CTCAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGGCATTGTTGAGA
Found at i:117287196 original size:63 final size:61
Alignment explanation
Indices: 117287124--117287291 Score: 202
Period size: 63 Copynumber: 2.7 Consensus size: 61
117287114 TGTACTATTT
* *
117287124 TTAATATTATATATTATGATTTTTATT-CATTCATATTTTAATAATAATTATATT-AAGAATGTT
1 TTAA-ATTATATATTATGATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAGAATG--
117287187 A
61 A
* *
117287188 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAGTATGA
1 TTAAATTATATATTATGATCTTTATTAAATTATATTTAATAATAATTATATTAAAGAATGA
*
117287249 TTAAATTATTTATTAT--T-TATTATTAAATTATATTTAATAATAA
1 TTAAATTATATATTATGATCT-TTATTAAATTATATTTAATAATAA
117287292 CCCTATTATA
Statistics
Matches: 96, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
58 1 0.01
59 25 0.26
61 16 0.17
62 18 0.19
63 29 0.30
64 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (61 bp):
TTAAATTATATATTATGATCTTTATTAAATTATATTTAATAATAATTATATTAAAGAATGA
Found at i:117287236 original size:24 final size:23
Alignment explanation
Indices: 117287169--117287236 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
117287159 TTTTAATAAT
* *
117287169 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
117287191 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
117287215 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
117287237 ATTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:117287491 original size:16 final size:16
Alignment explanation
Indices: 117287470--117287524 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
117287460 TGAATTACTG
117287470 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
117287486 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
*
117287502 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
117287518 ATTACAG
1 ATTACAG
117287525 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:117290007 original size:18 final size:18
Alignment explanation
Indices: 117289986--117290020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
117289976 ATTCTGTAAT
*
117289986 TAGTTTGAATTTAATTTC
1 TAGTTTAAATTTAATTTC
*
117290004 TAGTTTAAATTTGATTT
1 TAGTTTAAATTTAATTT
117290021 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (18 bp):
TAGTTTAAATTTAATTTC
Found at i:117290921 original size:14 final size:15
Alignment explanation
Indices: 117290899--117290927 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
117290889 ATTTATCCAT
117290899 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
117290914 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
117290928 AATCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:117313085 original size:13 final size:13
Alignment explanation
Indices: 117313062--117313102 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
117313052 GCTCGACAAG
*
117313062 GACACGGCCGTGT
1 GACACGTCCGTGT
*
117313075 GCCACGTCCGTGT
1 GACACGTCCGTGT
117313088 GACACGTCCGTGT
1 GACACGTCCGTGT
117313101 GA
1 GA
117313103 AGGTGCTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.20
Consensus pattern (13 bp):
GACACGTCCGTGT
Found at i:117316086 original size:40 final size:40
Alignment explanation
Indices: 117315988--117316136 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
117315978 TTCGAATGGT
* * * *
117315988 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
117316029 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
117316069 AACCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
117316109 ATCCGAGCTAATTCCCGAAGGCAATTGT
1 ATCCGGGCTAATTCCCGAAGGCATTTGT
117316137 ACGAATCACT
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
40 66 0.71
41 27 0.29
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:117316165 original size:80 final size:81
Alignment explanation
Indices: 117315992--117316168 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 81
117315982 AATGGTATCC
* * *
117315992 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGCTCAATTCCCGAAGGCAATTGT
* * * *
117316057 GCGAGTTACCAAAACC
66 ACGAATCACCAAAACA
* * * *
117316073 GGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGAGCT-AATTCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCG-GCTCAATTCCCGAAGGCAATTG
* *
117316136 TACGAATCACTATAACA
65 TACGAATCACCAAAACA
*
117316153 GGGCTATGTCCCGAAG
1 GGGCTAAGTCCCGAAG
117316169 ACAATCGAGC
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
80 54 0.68
81 25 0.32
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGCTCAATTCCCGAAGGCAATTGT
ACGAATCACCAAAACA
Found at i:117324170 original size:39 final size:40
Alignment explanation
Indices: 117324022--117324200 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
117324012 TTCGAATGGT
* * *
117324022 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
117324063 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
117324103 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
117324143 ATCCGGGCTAA-TCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
117324183 A-CCGGGCT-TGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
117324201 ACAATCGAGC
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 39 0.32
40 54 0.45
41 27 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:117324188 original size:79 final size:81
Alignment explanation
Indices: 117324024--117324200 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 81
117324014 CGAATGGTAT
* * *
117324024 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
117324089 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* *
117324105 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAA-TCCCGAAGGCAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
117324167 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
117324184 CCGGGCTT--GTCCCGAAG
1 CCGGG-TTAAGTCCCGAAG
117324201 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 9 0.11
79 31 0.36
80 19 0.22
81 26 0.31
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (81 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:117324221 original size:39 final size:39
Alignment explanation
Indices: 117324145--117324226 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
117324135 GTTACTAAAT
* * *
117324145 CCGGGCTAATCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATCCCGAAGACAATCGAGCGAATCACTATAA
** * * *
117324184 CCGGGCTTGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAATCCCGAAGACAATCGAGCGAATCACTATAA
117324223 CCGG
1 CCGG
117324227 TTAAATTCCG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.27, T:0.20
Consensus pattern (39 bp):
CCGGGCTAATCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:117332101 original size:41 final size:40
Alignment explanation
Indices: 117332056--117332192 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
117332046 CCGGGCTAAG
* * *
117332056 TCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGAGTCAAT
1 TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGAGTCAAT
* * * * * *
117332097 TCCCGAAGGCATTTGTTCGAGTTACCAAAACCGGGTTAAA
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTCAAT
117332137 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAG-CTAAT
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTC-AAT
*
117332177 TCCCGAAGGCAATTGT
1 TCCCGAAGGCATTTGT
117332193 ACGAATCACT
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 63 0.80
41 16 0.20
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTCAAT
Found at i:117332221 original size:80 final size:81
Alignment explanation
Indices: 117332048--117332224 Score: 214
Period size: 80 Copynumber: 2.2 Consensus size: 81
117332038 AATGGTATCC
* *
117332048 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGAGTCAATTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGAGTCAATTCCCGAAGGCAATTGT
* * * *
117332113 TCGAGTTACCAAAACC
66 ACGAATCACCAAAACA
* * * *
117332129 GGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGAG-CTAATTCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGAGTC-AATTCCCGAAGGCAATTG
* *
117332192 TACGAATCACTATAACA
65 TACGAATCACCAAAACA
*
117332209 GGGCTATGTCCCGAAG
1 GGGCTAAGTCCCGAAG
117332225 ACAATCGAGC
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 56 0.70
81 23 0.29
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGAGTCAATTCCCGAAGGCAATTGT
ACGAATCACCAAAACA
Found at i:117332237 original size:80 final size:80
Alignment explanation
Indices: 117332080--117332264 Score: 176
Period size: 80 Copynumber: 2.3 Consensus size: 80
117332070 GTGCTAAGTG
* * * * * *
117332080 ACTAAATCCGAGTCAATTCCCGAAGGCATTTGTTCGAGTTACCAAAACCGGGTTAAATCCCGAAG
1 ACTAAATCCGAGTCAATTCCCGAAGGCAATTGTACGAATCACCAAAACAGGGCTAAATCCCGAAG
* * * *
117332145 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * **
117332160 ACTAAATCCGAG-CTAATTCCCGAAGGCAATTGTACGAATCACTATAACAGGGCTATGTCCCGAA
1 ACTAAATCCGAGTC-AATTCCCGAAGGCAATTGTACGAATCACCAAAACAGGGCTAAATCCCGAA
*
117332224 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
117332240 GCTATATCCGATTAAATT-CCGAAGG
1 ACTAAATCCGAGTCAATTCCCGAAGG
117332265 TACGTGATTC
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
79 8 0.10
80 76 0.90
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGAGTCAATTCCCGAAGGCAATTGTACGAATCACCAAAACAGGGCTAAATCCCGAAG
ACAATCGAGCGAGTT
Found at i:117339417 original size:12 final size:12
Alignment explanation
Indices: 117339400--117339442 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
117339390 CGAAAAGTCA
117339400 TCCATAAATACC
1 TCCATAAATACC
*
117339412 TCCAT-AATAGTCA
1 TCCATAAATA--CC
117339425 TCCATAAATACC
1 TCCATAAATACC
117339437 TCCATA
1 TCCATA
117339443 GTGTCTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 6 0.23
14 4 0.15
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (12 bp):
TCCATAAATACC
Found at i:117339423 original size:25 final size:25
Alignment explanation
Indices: 117339395--117339442 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
117339385 AATATCGAAA
117339395 AGTCATCCATAAATACCTCCATAAT
1 AGTCATCCATAAATACCTCCATAAT
117339420 AGTCATCCATAAATACCTCCATA
1 AGTCATCCATAAATACCTCCATA
117339443 GTGTCTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.29, G:0.04, T:0.27
Consensus pattern (25 bp):
AGTCATCCATAAATACCTCCATAAT
Found at i:117342904 original size:12 final size:12
Alignment explanation
Indices: 117342887--117342915 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
117342877 AGCCTAAGAA
117342887 TTAAAGGATGTT
1 TTAAAGGATGTT
117342899 TTAAAGGATGTT
1 TTAAAGGATGTT
117342911 TTAAA
1 TTAAA
117342916 CTAAGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TTAAAGGATGTT
Found at i:117351243 original size:23 final size:24
Alignment explanation
Indices: 117351196--117351239 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
117351186 TAACTAAGTC
117351196 TACTTACTTTTCTAACTTAATTCT
1 TACTTACTTTTCTAACTTAATTCT
117351220 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
117351240 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCT
Found at i:117351678 original size:29 final size:26
Alignment explanation
Indices: 117351630--117351704 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 26
117351620 TTATATTATA
*
117351630 ATTAATTTAATTAATAAATATCT-TTT
1 ATTAA-TTAAATAATAAATATCTATTT
117351656 AACTTAATAATAAATAATAAATATCTATTT
1 -A-TTAAT--TAAATAATAAATATCTATTT
117351686 ATTAATTAAATAA-AAATAT
1 ATTAATTAAATAATAAATAT
117351705 GAAAAATGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
25 6 0.14
26 7 0.16
27 2 0.05
28 9 0.21
29 16 0.37
30 3 0.07
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTAATTAAATAATAAATATCTATTT
Found at i:117356105 original size:35 final size:35
Alignment explanation
Indices: 117356066--117356138 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
117356056 GGTATGTGAT
* * *
117356066 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTCATGTGAGAGTGATCTGACAAGA
117356101 ATATATATTATTCATGTGAGAGTGATCTGACAAGA
1 ATATATATTATTCATGTGAGAGTGATCTGACAAGA
117356136 ATA
1 ATA
117356139 AAGAATGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (35 bp):
ATATATATTATTCATGTGAGAGTGATCTGACAAGA
Found at i:117357347 original size:13 final size:13
Alignment explanation
Indices: 117357310--117357358 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
117357300 AAGTCAGATC
*
117357310 TAAAAAAATAAAA
1 TAAAAAATTAAAA
* *
117357323 GAAAGTAATTAAAA
1 TAAA-AAATTAAAA
*
117357337 TAAAAAATTAAGA
1 TAAAAAATTAAAA
117357350 TAAAAAATT
1 TAAAAAATT
117357359 TAATTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:117360450 original size:78 final size:78
Alignment explanation
Indices: 117360354--117360497 Score: 218
Period size: 78 Copynumber: 1.8 Consensus size: 78
117360344 GAATCACAAA
* *
117360354 ATTTAAACTAGAGTTTCCTCAAATAATGCAGATCTAATAT-GAAAAGTTTTGGCACAAAATTCAA
1 ATTTAAACTAGAGCTTCCTCAAATAATGCAGAACTAATATAG-AAAGTTTTGGCACAAAATTCAA
117360418 CCACTAGAATGTTT
65 CCACTAGAATGTTT
* * * *
117360432 ATTTAAATTGGAGCTTCCTCAAATAATGTAGAACTAATCTAGAAAGTTTTGGCACAAAATTCAAC
1 ATTTAAACTAGAGCTTCCTCAAATAATGCAGAACTAATATAGAAAGTTTTGGCACAAAATTCAAC
117360497 C
66 C
117360498 CACAAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 58 0.98
79 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (78 bp):
ATTTAAACTAGAGCTTCCTCAAATAATGCAGAACTAATATAGAAAGTTTTGGCACAAAATTCAAC
CACTAGAATGTTT
Found at i:117363924 original size:14 final size:14
Alignment explanation
Indices: 117363889--117363961 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 14
117363879 TGAGTATTTG
*
117363889 TATCTGTATTTATA
1 TATCTGTATCTATA
* * *
117363903 TTTTTGTATCTGTA
1 TATCTGTATCTATA
*
117363917 TATCTGTATCCATA
1 TATCTGTATCTATA
*
117363931 TACCTGTATCTATA
1 TATCTGTATCTATA
* * *
117363945 TTTCTATATCTGTA
1 TATCTGTATCTATA
117363959 TAT
1 TAT
117363962 GGGGTGGGAT
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (14 bp):
TATCTGTATCTATA
Found at i:117366364 original size:13 final size:13
Alignment explanation
Indices: 117366346--117366370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117366336 AACCCTAAAT
117366346 TTTCCTTTCTTTC
1 TTTCCTTTCTTTC
117366359 TTTCCTTTCTTT
1 TTTCCTTTCTTT
117366371 TTCCTCTATT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCCTTTCTTTC
Found at i:117376021 original size:17 final size:19
Alignment explanation
Indices: 117375999--117376034 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
117375989 CATGTATAGT
117375999 CGAATTTAT-TTG-CATTA
1 CGAATTTATATTGACATTA
117376016 CGAATTTATATTGACATTA
1 CGAATTTATATTGACATTA
117376035 TTAATATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (19 bp):
CGAATTTATATTGACATTA
Found at i:117381942 original size:18 final size:20
Alignment explanation
Indices: 117381919--117381956 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
117381909 ACGTGGCAGT
117381919 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
117381937 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
117381957 GGATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:117381993 original size:17 final size:17
Alignment explanation
Indices: 117381973--117382006 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117381963 AAATAGATTT
117381973 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
117381990 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
117382007 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:117382881 original size:31 final size:29
Alignment explanation
Indices: 117382812--117382885 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
117382802 ACAAAATAAT
**
117382812 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
117382841 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
117382872 AACAAAAGTGACTA
1 AACATAAGTGACTA
117382886 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:117384568 original size:20 final size:21
Alignment explanation
Indices: 117384543--117384582 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
117384533 AGTCTTTATC
*
117384543 AATTTT-TATATAAATTTTAA
1 AATTTTCTAAATAAATTTTAA
*
117384563 AATTTTCTAAATAATTTTTA
1 AATTTTCTAAATAAATTTTA
117384583 CTAATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTCTAAATAAATTTTAA
Found at i:117386621 original size:22 final size:23
Alignment explanation
Indices: 117386579--117386621 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
117386569 ACCAAAGAAT
*
117386579 AAAATGAATAATATAAACAATTC
1 AAAATGAATAATAGAAACAATTC
117386602 AAAATGAATAAT-GAAACAAT
1 AAAATGAATAATAGAAACAAT
117386622 ATTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATGAATAATAGAAACAATTC
Found at i:117387075 original size:24 final size:23
Alignment explanation
Indices: 117386964--117387129 Score: 81
Period size: 22 Copynumber: 7.0 Consensus size: 23
117386954 ATAGATAATA
* * *
117386964 TATATATAAAAGTGTAAAATAAG
1 TATATAAAAAAATTTAAAATAAG
* * *
117386987 TAATATATGAAAAGAACTTAAAACAAA
1 T-ATATA--AAAA-AATTTAAAATAAG
* *
117387014 TAATAATAAAATAATTTTAAATAA-
1 T-AT-ATAAAAAAATTTAAAATAAG
* *
117387038 -ATA-AAAAGAGTTTAAAATAAGG
1 TATATAAAAAAATTTAAAATAA-G
117387060 TATATAAAAAAATTTAAAATAAG
1 TATATAAAAAAATTTAAAATAAG
* * *
117387083 TAT-TAGAACAATTTAAAATAAA
1 TATATAAAAAAATTTAAAATAAG
117387105 TA-ATACATGAAAGAATTTAAAATAA
1 TATATA-A--AAA-AATTTAAAATAA
117387130 ATAATATAGA
Statistics
Matches: 109, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
20 14 0.13
21 1 0.01
22 22 0.20
23 8 0.07
24 20 0.18
25 11 0.10
26 18 0.17
27 12 0.11
28 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (23 bp):
TATATAAAAAAATTTAAAATAAG
Found at i:117387098 original size:22 final size:24
Alignment explanation
Indices: 117387038--117387103 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 24
117387028 TTTTAAATAA
*
117387038 ATAAAAAGAGTTTAAAATAAGGTAT
1 ATAAAAA-AATTTAAAATAAGGTAT
117387063 ATAAAAAAATTTAAAATAA-GTAT
1 ATAAAAAAATTTAAAATAAGGTAT
* *
117387086 -TAGAACAATTTAAAATAA
1 ATAAAAAAATTTAAAATAA
117387104 ATAATACATG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.42
23 4 0.11
24 11 0.29
25 7 0.18
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (24 bp):
ATAAAAAAATTTAAAATAAGGTAT
Found at i:117387106 original size:26 final size:24
Alignment explanation
Indices: 117387048--117387174 Score: 84
Period size: 26 Copynumber: 5.2 Consensus size: 24
117387038 ATAAAAAGAG
* * *
117387048 TTTAAAATAAGGT-ATATAAAAAAA
1 TTTAAAATAA-ATAATATAGAACAA
*
117387072 TTTAAAATAAGT-AT-TAGAACAA
1 TTTAAAATAAATAATATAGAACAA
* *
117387094 TTTAAAATAAATAATACATGAAAGAA
1 TTTAAAATAAATAATATA-G-AACAA
**
117387120 TTTAAAATAAATAATATAGAAAGCGC
1 TTTAAAATAAATAATATAG-AA-CAA
*
117387146 TTTAAAATAAAATAATA-A-AACAG
1 TTTAAAAT-AAATAATATAGAACAA
117387169 TTTAAA
1 TTTAAA
117387175 TTGTAGGGTT
Statistics
Matches: 86, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
22 17 0.20
23 13 0.15
24 13 0.15
25 5 0.06
26 30 0.35
27 8 0.09
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (24 bp):
TTTAAAATAAATAATATAGAACAA
Found at i:117388817 original size:45 final size:45
Alignment explanation
Indices: 117388768--117389013 Score: 180
Period size: 45 Copynumber: 5.5 Consensus size: 45
117388758 GTTTGACTAT
**
117388768 AACTTCAGGGAGATAAGGTTTGTAATCTTTAGTCTACTCCACTGC
1 AACTTCAGGGAGATAAGACTTGTAATCTTTAGTCTACTCCACTGC
* * *
117388813 AACTTCAGGGAGATAAGACTTGTTATCTTTAGTCTGCTCCTCTGC
1 AACTTCAGGGAGATAAGACTTGTAATCTTTAGTCTACTCCACTGC
* * * ** *** *
117388858 AACTTCAGAGAGATAAGACTTGTTTATTTTTA-TCCTGTTTTTCTGT
1 AACTTCAGGGAGATAAGACTTG-TAATCTTTAGT-CTACTCCACTGC
* * * * ** * *
117388904 AATTTTAGAGAGATAAGGA-TGGT-GGC-TTCGATCTGCTCCACTGC
1 AACTTCAGGGAGATAA-GACTTGTAATCTTTAG-TCTACTCCACTGC
*
117388948 AACTTCAGGGAGATAAGA-TCTGCT-ATCTTCAGTCTACTCCACTGC
1 AACTTCAGGGAGATAAGACT-TG-TAATCTTTAGTCTACTCCACTGC
*
117388993 AACTTCAAGGAGATAAGACTT
1 AACTTCAGGGAGATAAGACTT
117389014 TAACTTCAAC
Statistics
Matches: 159, Mismatches: 33, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
43 5 0.03
44 21 0.13
45 96 0.60
46 35 0.22
47 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (45 bp):
AACTTCAGGGAGATAAGACTTGTAATCTTTAGTCTACTCCACTGC
Found at i:117389041 original size:43 final size:45
Alignment explanation
Indices: 117388936--117389042 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
117388926 TGGCTTCGAT
* * **
117388936 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTCAAC
* *
117388981 CTACTCCACTGCAACTTCAAGGAGATAAGA-CT-TTAACTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTCAAC
* *
117389024 CTGCTCTACTGCTACTTCA
1 CTGCTCCACTGCAACTTCA
117389043 GCCAGATAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 23 0.43
44 2 0.04
45 28 0.53
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTCAAC
Found at i:117396726 original size:11 final size:11
Alignment explanation
Indices: 117396705--117396753 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
117396695 CCATTTATTA
117396705 ATTTTTATTTT
1 ATTTTTATTTT
117396716 A-TTTTATTTTT
1 ATTTTTA-TTTT
*
117396727 GTTTTTATTTT
1 ATTTTTATTTT
117396738 -TGTTTTA-TTT
1 AT-TTTTATTTT
117396748 ATTTTT
1 ATTTTT
117396754 CTTAAGACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
10 13 0.39
11 15 0.45
12 5 0.15
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:117396734 original size:12 final size:11
Alignment explanation
Indices: 117396707--117396747 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
117396697 ATTTATTAAT
*
117396707 TTTTA-TTTTA
1 TTTTATTTTTG
117396717 TTTTATTTTTG
1 TTTTATTTTTG
117396728 TTTTTATTTTTG
1 -TTTTATTTTTG
117396740 TTTTATTT
1 TTTTATTT
117396748 ATTTTTCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 12 0.43
12 11 0.39
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTG
Found at i:117399922 original size:43 final size:43
Alignment explanation
Indices: 117399861--117399947 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
117399851 AAGCTTTTAC
117399861 CATCCATCACGGCTAGAATCAGTGCTCCTCCGAAAAAGACTTT
1 CATCCATCACGGCTAGAATCAGTGCTCCTCCGAAAAAGACTTT
*
117399904 CATCCATCACGGCTAGAATTAGTGCTCCTCCGAAAAAGACTTT
1 CATCCATCACGGCTAGAATCAGTGCTCCTCCGAAAAAGACTTT
117399947 C
1 C
117399948 TTTACCACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
CATCCATCACGGCTAGAATCAGTGCTCCTCCGAAAAAGACTTT
Found at i:117400756 original size:33 final size:33
Alignment explanation
Indices: 117400709--117400778 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
117400699 CACATAGAGA
* *
117400709 AAGGCCATGAGGAAGTCATGACATGCAGAGGTG
1 AAGGCCATGAGGAAGTCATGACATACAAAGGTG
* *
117400742 AAGGTCATGGGGAAGTCATGACATACAAAGGTG
1 AAGGCCATGAGGAAGTCATGACATACAAAGGTG
117400775 AAGG
1 AAGG
117400779 AGTTTGTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.36, T:0.16
Consensus pattern (33 bp):
AAGGCCATGAGGAAGTCATGACATACAAAGGTG
Found at i:117406205 original size:43 final size:42
Alignment explanation
Indices: 117406154--117406305 Score: 191
Period size: 43 Copynumber: 3.6 Consensus size: 42
117406144 CACTAAAGAC
* * *
117406154 AACGCCGCTAAAGAACATAACCTTTAGCGACACTTTCCCCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCG-CGCTTTTCCCACA
* * *
117406197 AATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCGCACA
1 AACGCCGCTAAAGAACATGACCTTTAGC-GCGCTTTTCCCACA
* *
117406240 AACGCCGCTATAGAACA-GACCTTTAG-GCGCTTTTCTCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCGCGCTTTTCCCACA
*
117406280 AACGCCGCTAAAGAACATGACATTTA
1 AACGCCGCTAAAGAACATGACCTTTA
117406306 AAAAATTATT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.29
41 7 0.07
42 9 0.09
43 50 0.53
44 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (42 bp):
AACGCCGCTAAAGAACATGACCTTTAGCGCGCTTTTCCCACA
Found at i:117410533 original size:8 final size:8
Alignment explanation
Indices: 117410522--117410602 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 8
117410512 ATATTAAATA
117410522 TTAAATTT
1 TTAAATTT
*
117410530 TTAAGTTT
1 TTAAATTT
*
117410538 TT-TATTT
1 TTAAATTT
*
117410545 TTTAATTT
1 TTAAATTT
117410553 TT-AATTT
1 TTAAATTT
117410560 TTAAA-TT
1 TTAAATTT
117410567 TTAAATTTTT
1 TTAAA--TTT
117410577 TTGAAGATTT
1 TT-AA-ATTT
117410587 TTATAATTT
1 TTA-AATTT
117410596 TTAAATT
1 TTAAATT
117410603 AACATATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
7 19 0.31
8 21 0.34
9 8 0.13
10 10 0.16
11 2 0.03
12 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:117410533 original size:15 final size:15
Alignment explanation
Indices: 117410515--117410576 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
117410505 GACTAAAATA
*
117410515 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
117410530 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
* *
117410545 TTTAATTTTTAATTT
1 TTAAATTTTAAATTT
117410560 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
117410575 TT
1 TT
117410577 TTGAAGATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:117410538 original size:7 final size:7
Alignment explanation
Indices: 117410525--117410576 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
117410515 TTAAATATTA
117410525 AATTTTT
1 AATTTTT
117410532 AAGTTTTTT
1 AA--TTTTT
*
117410541 ATTTTTT
1 AATTTTT
117410548 AATTTTT
1 AATTTTT
117410555 AATTTTT
1 AATTTTT
*
117410562 AAATTTTA
1 -AATTTTT
117410570 AATTTTT
1 AATTTTT
117410577 TTGAAGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 26 0.68
8 6 0.16
9 6 0.16
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:117411235 original size:21 final size:21
Alignment explanation
Indices: 117411211--117411257 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
117411201 CACTAAAAAT
117411211 TAAACCCCAAATCCTAGACCA
1 TAAACCCCAAATCCTAGACCA
**
117411232 TAAACCTTAAATCCTAGACCA
1 TAAACCCCAAATCCTAGACCA
117411253 TAAAC
1 TAAAC
117411258 ATATACCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.19
Consensus pattern (21 bp):
TAAACCCCAAATCCTAGACCA
Found at i:117411480 original size:21 final size:21
Alignment explanation
Indices: 117411447--117411487 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
117411437 ACAATAAATT
* *
117411447 ATAAACCCCAAACTCTAAACC
1 ATAAACCACAAACTCAAAACC
*
117411468 ATAAACCATAAACTCAAAAC
1 ATAAACCACAAACTCAAAAC
117411488 TCTGATCACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (21 bp):
ATAAACCACAAACTCAAAACC
Done.