Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 40 of 213
Found at i:10587338 original size:114 final size:114
Alignment explanation
Indices: 10587157--10587379 Score: 256
Period size: 114 Copynumber: 2.0 Consensus size: 114
10587147 CGCTAAATCC
* * * * *
10587157 CCGAATACTCAGAGAACGGTGTCGTTCGGCTTATGTTTATTTGCGGCGCTTCCATACAAACGCCG
1 CCGAATACTCAGAAAACGGCGTCGTTCGGCTTAGGTTTATTTGCGGCGATTCCATAAAAACGCCG
* *
10587222 CTAAAGTAC-TGAACATTAGCGGCGC-TACCTCAAAAACGCCGCTAGGTTA
66 CTAAA-TACTTGAACATTAGCGGCGCTTA-ATAAAAAACGCCGCTAGGTTA
* * * *
10587271 CCGAATGCTCAGAAAACGGCGTCGTT-GGTCTTAGGTTTCTTTGCGGCGATT-TATCAAAAATGC
1 CCGAATACTCAGAAAACGGCGTCGTTCGG-CTTAGGTTTATTTGCGGCGATTCCAT-AAAAACGC
* * *
10587334 CGCTAAATCCTTGATCTTTAGCGGCGCTTAATAAAAAACGCCGCTA
64 CGCTAAATACTTGAACATTAGCGGCGCTTAATAAAAAACGCCGCTA
10587380 AATCCCCGCA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
113 6 0.07
114 83 0.91
115 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (114 bp):
CCGAATACTCAGAAAACGGCGTCGTTCGGCTTAGGTTTATTTGCGGCGATTCCATAAAAACGCCG
CTAAATACTTGAACATTAGCGGCGCTTAATAAAAAACGCCGCTAGGTTA
Found at i:10587371 original size:41 final size:40
Alignment explanation
Indices: 10587308--10587384 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
10587298 GTCTTAGGTT
* * *
10587308 TCTTTGCGGCGATTTATCAAAAATGCCGCTAAATCCTTGA
1 TCTTTGCGGCGATTAATAAAAAACGCCGCTAAATCCTTGA
*
10587348 TCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAATCC
1 TCTTT-GCGGCGATTAATAAAAAACGCCGCTAAATCC
10587385 CCGCATGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (40 bp):
TCTTTGCGGCGATTAATAAAAAACGCCGCTAAATCCTTGA
Found at i:10588828 original size:41 final size:41
Alignment explanation
Indices: 10588744--10588860 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 41
10588734 TTGTATAAAA
* * *
10588744 CACCGGCAT-AATGCCTGCTAGGCACAAAGCCCG-A-TACATTT
1 CACCGGCATCAA-GCCTGCTAGACATAAAGCCTGAAGTA-A-TT
*
10588785 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCATC-AAGCCTGCTAGACATAAAGCCTGAAGTAATT
* * *
10588826 CACCGGCATCAAGCTTGCTAGGCATTAAGCCTGAA
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTGAA
10588861 AATCTCAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 56 0.89
42 5 0.08
43 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGCCTGAAGTAATT
Found at i:10595960 original size:13 final size:11
Alignment explanation
Indices: 10595925--10595954 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
10595915 GCCCATATTA
10595925 AATTTTTATAT
1 AATTTTTATAT
10595936 AATTTTTATAT
1 AATTTTTATAT
10595947 AATTTTTA
1 AATTTTTA
10595955 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:10595969 original size:22 final size:21
Alignment explanation
Indices: 10595919--10595969 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
10595909 TGGTCTGCCC
*
10595919 ATATTA-AATTTTTATATAAT
1 ATATTATAATTTTTAAATAAT
* *
10595939 TTTTATATAATTTTTAAATATAT
1 ATAT-TATAATTTTTAAATA-AT
10595962 ATATTATA
1 ATATTATA
10595970 TCAAAAATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.09
21 2 0.09
22 15 0.65
23 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTATAATTTTTAAATAAT
Found at i:10596110 original size:30 final size:30
Alignment explanation
Indices: 10596076--10596135 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10596066 ACTTAACAAG
*
10596076 TAAATTCCTCTAAAATAATAACAAAATTAA
1 TAAATACCTCTAAAATAATAACAAAATTAA
* *
10596106 TAAATACCTTTAAAATAATAACCAAATTAA
1 TAAATACCTCTAAAATAATAACAAAATTAA
10596136 CAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAATACCTCTAAAATAATAACAAAATTAA
Found at i:10613176 original size:12 final size:12
Alignment explanation
Indices: 10613159--10613184 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10613149 GTTTGGCATG
10613159 TACCTATCTAGT
1 TACCTATCTAGT
10613171 TACCTATCTAGT
1 TACCTATCTAGT
10613183 TA
1 TA
10613185 AGTCACTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
TACCTATCTAGT
Found at i:10615603 original size:25 final size:25
Alignment explanation
Indices: 10615575--10615637 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
10615565 ACAAGCACAT
* *
10615575 TAACGGAAAGCTCTTCTGAGCCATA
1 TAACGGGAAGCTCATCTGAGCCATA
* *
10615600 TAACGGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCATCTGAGCCATA
10615625 TAACGGGAAGCTC
1 TAACGGGAAGCTC
10615638 GCAAGAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (25 bp):
TAACGGGAAGCTCATCTGAGCCATA
Found at i:10619057 original size:6 final size:7
Alignment explanation
Indices: 10619042--10619066 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10619032 TTTTTCCTAG
10619042 AAAATAA
1 AAAATAA
10619049 AAAATAA
1 AAAATAA
10619056 AAAATAA
1 AAAATAA
10619063 AAAA
1 AAAA
10619067 GATACTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:10619540 original size:23 final size:23
Alignment explanation
Indices: 10619510--10619556 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10619500 ATTACAACTT
*
10619510 ATCTATACTTATATAGTAAAGTA
1 ATCTATACCTATATAGTAAAGTA
*
10619533 ATCTATACCTATATATTAAAGTA
1 ATCTATACCTATATAGTAAAGTA
10619556 A
1 A
10619557 GGTCCAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (23 bp):
ATCTATACCTATATAGTAAAGTA
Found at i:10619843 original size:29 final size:29
Alignment explanation
Indices: 10619801--10619856 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
10619791 GTTGGTTTTC
*
10619801 ATATTTGTATAATGTTATTAATTAGTTTA
1 ATATTTGTATAATGTAATTAATTAGTTTA
*
10619830 ATATTTTTATAATGTAATTAATTAGTT
1 ATATTTGTATAATGTAATTAATTAGTT
10619857 AAAATAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (29 bp):
ATATTTGTATAATGTAATTAATTAGTTTA
Found at i:10621007 original size:29 final size:29
Alignment explanation
Indices: 10620972--10621029 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
10620962 TCTTGGTTGA
*
10620972 TGTGTAATTTT-ATATAAAAACTTTGATTT
1 TGTGTAATTTTAACAT-AAAACTTTGATTT
*
10621001 TGTGTAATTTTAACATAAAATTTTGATTT
1 TGTGTAATTTTAACATAAAACTTTGATTT
10621030 GATTTTATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (29 bp):
TGTGTAATTTTAACATAAAACTTTGATTT
Found at i:10634247 original size:26 final size:25
Alignment explanation
Indices: 10634211--10634262 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
10634201 TTCTAAAAAC
* *
10634211 GGGATGCTAGAAAATTTATGTTATTT
1 GGGATACTAGAAAAATTA-GTTATTT
10634237 GGGATACTAGAAAAATTAGTTATTT
1 GGGATACTAGAAAAATTAGTTATTT
10634262 G
1 G
10634263 AGTATTTACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (25 bp):
GGGATACTAGAAAAATTAGTTATTT
Found at i:10643322 original size:15 final size:15
Alignment explanation
Indices: 10643299--10643331 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10643289 TTTTTATGTC
10643299 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
10643314 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
10643329 ATT
1 ATT
10643332 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:10645235 original size:30 final size:29
Alignment explanation
Indices: 10645198--10645292 Score: 104
Period size: 30 Copynumber: 3.3 Consensus size: 29
10645188 TATTCATAAC
*
10645198 AATAAAAA-CATATTAAAATTCTTAAAAACT
1 AATAAAAATCATA-TAAAATTATTAAAAA-T
*
10645228 TATAAAAATCATATAAAATTATTAAAAAT
1 AATAAAAATCATATAAAATTATTAAAAAT
* * *
10645257 AATAAAATTGATATAAACTTA-TAAAAAT
1 AATAAAAATCATATAAAATTATTAAAAAT
*
10645285 TATAAAAA
1 AATAAAAA
10645293 AAACATAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.23
29 18 0.32
30 21 0.38
31 4 0.07
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAAAAATCATATAAAATTATTAAAAAT
Found at i:10645292 original size:9 final size:9
Alignment explanation
Indices: 10645220--10645292 Score: 67
Period size: 10 Copynumber: 7.7 Consensus size: 9
10645210 TTAAAATTCT
10645220 TAAAAACTTA
1 TAAAAA-TTA
*
10645230 TAAAAATCA
1 TAAAAATTA
10645239 TATAAAATTA
1 TA-AAAATTA
*
10645249 TTAAAAATAA
1 -TAAAAATTA
10645259 T-AAAATTGA
1 TAAAAATT-A
*
10645268 TATAAACTTA
1 TA-AAAATTA
10645278 TAAAAATTA
1 TAAAAATTA
10645287 TAAAAA
1 TAAAAA
10645293 AAACATAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.10
9 19 0.37
10 21 0.40
11 7 0.13
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:10646559 original size:19 final size:20
Alignment explanation
Indices: 10646519--10646559 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
10646509 AAATAATATA
*
10646519 ATTTTTTGTCATAGAAAATT
1 ATTTTTTGTCATAAAAAATT
10646539 ATTTTTT-T-ATAAAAAAGTT
1 ATTTTTTGTCATAAAAAA-TT
10646558 AT
1 AT
10646560 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTTTTTGTCATAAAAAATT
Found at i:10646713 original size:22 final size:22
Alignment explanation
Indices: 10646688--10646730 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10646678 TAAAACACTT
10646688 TTATAACATATAG-ATTTTTTTC
1 TTATAAC-TATAGAATTTTTTTC
*
10646710 TTATAACTTTAGAATTTTTTT
1 TTATAACTATAGAATTTTTTT
10646731 AAGATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATAACTATAGAATTTTTTTC
Found at i:10646727 original size:21 final size:22
Alignment explanation
Indices: 10646688--10646729 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10646678 TAAAACACTT
*
10646688 TTATAACATATAGATTTTTTTC
1 TTATAACATATAGAATTTTTTC
*
10646710 TTATAAC-TTTAGAATTTTTT
1 TTATAACATATAGAATTTTTT
10646730 TAAGATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TTATAACATATAGAATTTTTTC
Found at i:10657738 original size:7 final size:7
Alignment explanation
Indices: 10657726--10657758 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10657716 TAAAATTTCA
10657726 TAATTTT
1 TAATTTT
10657733 TAATTTT
1 TAATTTT
10657740 TAATTTT
1 TAATTTT
10657747 TAATTTT
1 TAATTTT
10657754 TAATT
1 TAATT
10657759 GCTTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TAATTTT
Found at i:10662118 original size:2 final size:2
Alignment explanation
Indices: 10662111--10662139 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10662101 ATGATGAACA
10662111 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10662140 ATCTACCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10662285 original size:2 final size:2
Alignment explanation
Indices: 10662280--10662314 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10662270 AAAAGCTTTG
10662280 TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10662315 CTCCTCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:10674543 original size:34 final size:34
Alignment explanation
Indices: 10674505--10674618 Score: 142
Period size: 34 Copynumber: 3.4 Consensus size: 34
10674495 GCAATAATCC
10674505 ATTATAAGCATGTTAATTGCTACCGTATTGATCT
1 ATTATAAGCATGTTAATTGCTACCGTATTGATCT
* ** * *
10674539 ATTATAAGCATGATAATTGCTATTGTA-TCAACTT
1 ATTATAAGCATGTTAATTGCTACCGTATTGATC-T
*
10674573 ATTATAAGCATGTT-ATTGCTACCGTATTGATTT
1 ATTATAAGCATGTTAATTGCTACCGTATTGATCT
*
10674606 TTTATAAGCATGT
1 ATTATAAGCATGT
10674619 CATGTTGTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
33 26 0.39
34 40 0.61
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (34 bp):
ATTATAAGCATGTTAATTGCTACCGTATTGATCT
Found at i:10674751 original size:21 final size:23
Alignment explanation
Indices: 10674725--10674775 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
10674715 GCAGTTTATT
10674725 TACAAC-GATT-AGTGGTTCATC
1 TACAACAGATTAAGTGGTTCATC
*
10674746 TACAACATATTACAGTGGTTCATC
1 TACAACAGATTA-AGTGGTTCATC
*
10674770 CACAAC
1 TACAAC
10674776 CTACTAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
24 16 0.64
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (23 bp):
TACAACAGATTAAGTGGTTCATC
Found at i:10676334 original size:37 final size:40
Alignment explanation
Indices: 10676242--10676335 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
10676232 TACCAGTTTA
* **
10676242 GCACCTAGTGCCTCATCGGATAATTCAAAGTAATAAGTTG
1 GCACCCAGTGCCTCATCGGATAAACCAAAGTAATAAGTTG
* * * *
10676282 ACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA-TTG
1 GCACCCAGTGCCTCATCGGATAAACCAAAGTAATAAGTTG
10676319 GCACCCAGTGCCTCATC
1 GCACCCAGTGCCTCATC
10676336 AAATTAATCC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 18 0.40
38 2 0.04
39 1 0.02
40 24 0.53
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
GCACCCAGTGCCTCATCGGATAAACCAAAGTAATAAGTTG
Found at i:10676896 original size:13 final size:13
Alignment explanation
Indices: 10676878--10676902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10676868 TTCATATTAT
10676878 TATAATAATATAA
1 TATAATAATATAA
10676891 TATAATAATATA
1 TATAATAATATA
10676903 TAATATACTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:10676918 original size:15 final size:14
Alignment explanation
Indices: 10676878--10676932 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
10676868 TTCATATTAT
10676878 TATAAT-AATATAA
1 TATAATAAATATAA
10676891 TATAATAATATATAA
1 TATAATAA-ATATAA
*
10676906 TATACTTAAATATTAA
1 TATA-ATAAATA-TAA
*
10676922 T-TAATACATAT
1 TATAATAAATAT
10676933 TTTATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.20
14 6 0.17
15 15 0.43
16 7 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATAAATATAA
Found at i:10683525 original size:20 final size:20
Alignment explanation
Indices: 10683502--10683546 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10683492 TTCTTTCCTT
*
10683502 TTTCTTTCTTTCGTTCTCTG
1 TTTCTTTCTATCGTTCTCTG
* * *
10683522 TTTCGTTCTATCTTTCTCTT
1 TTTCTTTCTATCGTTCTCTG
10683542 TTTCT
1 TTTCT
10683547 ATTTCTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.24, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTCTTTCTATCGTTCTCTG
Found at i:10683623 original size:13 final size:13
Alignment explanation
Indices: 10683605--10683629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10683595 TTAATATTAT
10683605 TATAATAATATAA
1 TATAATAATATAA
10683618 TATAATAATATA
1 TATAATAATATA
10683630 TAATATATTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:10686313 original size:21 final size:21
Alignment explanation
Indices: 10686289--10686329 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10686279 TATAATTAAC
*
10686289 ATAATATTATTTATATTTATG
1 ATAATATTATATATATTTATG
* *
10686310 ATAATTTTATATATTTTTAT
1 ATAATATTATATATATTTAT
10686330 TTTCTTAGAT
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:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATAATATTATATATATTTATG
Found at i:10704148 original size:4 final size:4
Alignment explanation
Indices: 10704139--10704173 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
10704129 TTTTTCTACA
10704139 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
10704174 TAGTTTACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:10713463 original size:16 final size:16
Alignment explanation
Indices: 10713442--10713472 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10713432 CGCTGTATTA
10713442 GAATAGAGGCATAATG
1 GAATAGAGGCATAATG
*
10713458 GAATAGAGGCGTAAT
1 GAATAGAGGCATAAT
10713473 AGTAAACCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.19
Consensus pattern (16 bp):
GAATAGAGGCATAATG
Found at i:10713722 original size:26 final size:26
Alignment explanation
Indices: 10713693--10713824 Score: 80
Period size: 26 Copynumber: 5.1 Consensus size: 26
10713683 ATTTTAACAT
*
10713693 AATTATTATTAAATATAATTTAATAA
1 AATTACTATTAAATATAATTTAATAA
* * *
10713719 AATTCTTAATATTAAATATATTCTTATATGA
1 AA---TTACTATTAAATATAAT-TTA-ATAA
* *
10713750 ATTTACTA--AAATCATAA--T-ATAT
1 AATTACTATTAAAT-ATAATTTAATAA
* *
10713772 AA-TACTA-TAAATATAATTTAACAT
1 AATTACTATTAAATATAATTTAATAA
*
10713796 AATTATTATTAAATATAATTTAATAA
1 AATTACTATTAAATATAATTTAATAA
10713822 AAT
1 AAT
10713825 ATATAATTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
21 9 0.11
22 7 0.09
23 1 0.01
24 6 0.07
25 4 0.05
26 24 0.30
27 3 0.04
28 5 0.06
29 15 0.19
30 3 0.04
31 4 0.05
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (26 bp):
AATTACTATTAAATATAATTTAATAA
Found at i:10718710 original size:5 final size:5
Alignment explanation
Indices: 10718667--10718706 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
10718657 TTTCATATTC
* *
10718667 CAACA CAACA CAACA CAACA CAACA CAACA TAACA TAACA
1 CAACA CAACA CAACA CAACA CAACA CAACA CAACA CAACA
10718707 TAACCATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.60, C:0.35, G:0.00, T:0.05
Consensus pattern (5 bp):
CAACA
Found at i:10728051 original size:85 final size:85
Alignment explanation
Indices: 10727908--10728082 Score: 314
Period size: 85 Copynumber: 2.1 Consensus size: 85
10727898 GGGATAGCTT
*
10727908 ACACATAGTATGCTAACTCATATAACTATAATCTGTCAATTCCTGTACATGTATGCTCACACGAG
1 ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCCTGTACATGTATGCTCACACGAG
*
10727973 TTGTGAAAATAGGTCTGCTC
66 CTGTGAAAATAGGTCTGCTC
* *
10727993 ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCTTGTACATGTATGCTCATACGAG
1 ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCCTGTACATGTATGCTCACACGAG
10728058 CTGTGAAAATAGGTCTGCTC
66 CTGTGAAAATAGGTCTGCTC
10728078 ACACA
1 ACACA
10728083 AGCTGTGGGT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (85 bp):
ACACATAGTATGCTAACTCATATAACTATAATCCGTCAATTCCTGTACATGTATGCTCACACGAG
CTGTGAAAATAGGTCTGCTC
Found at i:10734489 original size:13 final size:13
Alignment explanation
Indices: 10734473--10734498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10734463 ATTAATTTAG
10734473 TTAATTTAATTAA
1 TTAATTTAATTAA
10734486 TTAATTTAATTAA
1 TTAATTTAATTAA
10734499 GTAAATAATA
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:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:10736112 original size:41 final size:41
Alignment explanation
Indices: 10736067--10736222 Score: 267
Period size: 41 Copynumber: 3.8 Consensus size: 41
10736057 ACTAGCTCTT
* * *
10736067 AGCCTGCTAGACATAATGTCTGAAATGTTTCACCAGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
10736108 AGCCTGCTAGACTTAAAGCCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
10736149 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
10736190 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCAC
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCAC
10736223 TGGCAATAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:10742229 original size:52 final size:52
Alignment explanation
Indices: 10742153--10742351 Score: 248
Period size: 52 Copynumber: 3.9 Consensus size: 52
10742143 CCATGGCAGC
* *
10742153 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
10742206 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * *
10742258 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * *
10742306 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
10742352 TATGTGATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
46 26 0.20
47 11 0.09
50 2 0.02
52 79 0.62
53 10 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:10751007 original size:7 final size:7
Alignment explanation
Indices: 10750995--10751019 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10750985 AAAGATTTTT
10750995 ATTTTGA
1 ATTTTGA
10751002 ATTTTGA
1 ATTTTGA
10751009 ATTTTGA
1 ATTTTGA
10751016 ATTT
1 ATTT
10751020 CTCGTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTTGA
Found at i:10753109 original size:17 final size:17
Alignment explanation
Indices: 10753084--10753117 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10753074 TGTTTACACT
*
10753084 CTTTTTTTTCAGTTTTA
1 CTTTATTTTCAGTTTTA
*
10753101 CTTTATTTTTAGTTTTA
1 CTTTATTTTCAGTTTTA
10753118 AAATTTGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.71
Consensus pattern (17 bp):
CTTTATTTTCAGTTTTA
Found at i:10754812 original size:22 final size:21
Alignment explanation
Indices: 10754795--10754840 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
10754785 TTAAAATTTG
10754795 AAATTTGAAATATAAAAATTAA
1 AAATTTGAAA-ATAAAAATTAA
* *
10754817 AAATTTTAAAAT-AAAATAAA
1 AAATTTGAAAATAAAAATTAA
10754837 AAAT
1 AAAT
10754841 AAATTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 2 0.09
22 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATTTGAAAATAAAAATTAA
Found at i:10771499 original size:40 final size:40
Alignment explanation
Indices: 10771444--10771523 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10771434 AAGCTGAAGA
10771444 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
1 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
10771484 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
1 AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
10771524 CAGCATTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (40 bp):
AGCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
Found at i:10798413 original size:22 final size:21
Alignment explanation
Indices: 10798372--10798413 Score: 50
Period size: 22 Copynumber: 1.9 Consensus size: 21
10798362 ATTAATTTAT
10798372 TAAATTTATAATTAAAAAATTA
1 TAAATTTATAA-TAAAAAATTA
10798394 TAAATTCTATAA-AAAGAAAT
1 TAAATT-TATAATAAA-AAAT
10798414 CAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.17
22 10 0.56
23 5 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATTTATAATAAAAAATTA
Found at i:10813372 original size:39 final size:37
Alignment explanation
Indices: 10813318--10813392 Score: 132
Period size: 39 Copynumber: 2.0 Consensus size: 37
10813308 AGCTGAAGAA
10813318 GCTTCAAGTTCTGCAACTCAATTATTGTTGGAACAATGG
1 GCTTCAAGTTCTGCAACT-AATTA-TGTTGGAACAATGG
10813357 GCTTCAAGTTCTGCAACTAATTATGTTGGAACAATG
1 GCTTCAAGTTCTGCAACTAATTATGTTGGAACAATG
10813393 CAGCATTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 13 0.36
38 5 0.14
39 18 0.50
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (37 bp):
GCTTCAAGTTCTGCAACTAATTATGTTGGAACAATGG
Found at i:10837807 original size:14 final size:14
Alignment explanation
Indices: 10837788--10837817 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10837778 GTTTAGTTTA
10837788 CTTTTTATCTCACG
1 CTTTTTATCTCACG
*
10837802 CTTTTTGTCTCACG
1 CTTTTTATCTCACG
10837816 CT
1 CT
10837818 ACGGTGTCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.30, G:0.10, T:0.50
Consensus pattern (14 bp):
CTTTTTATCTCACG
Found at i:10838366 original size:24 final size:24
Alignment explanation
Indices: 10838334--10838384 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
10838324 TATTAATTAT
*
10838334 AAACATGAATTAAAAAT-AAATAAA
1 AAACATGAAAT-AAAATGAAATAAA
* *
10838358 AAACTTGAAATAACATGAAATAAA
1 AAACATGAAATAAAATGAAATAAA
10838382 AAA
1 AAA
10838385 ATACATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (24 bp):
AAACATGAAATAAAATGAAATAAA
Found at i:10850713 original size:16 final size:16
Alignment explanation
Indices: 10850692--10850722 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10850682 TGCTTTGCTC
10850692 TGCCTCTTTTGCTTTG
1 TGCCTCTTTTGCTTTG
10850708 TGCCTCTTTTGCTTT
1 TGCCTCTTTTGCTTT
10850723 ACCGCTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.26, G:0.16, T:0.58
Consensus pattern (16 bp):
TGCCTCTTTTGCTTTG
Found at i:10856896 original size:23 final size:23
Alignment explanation
Indices: 10856858--10856906 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
10856848 TACTAATAGT
* *
10856858 TTAAATATTGAGTTACACTTTTA
1 TTAAATATTGAGTTACAATTTCA
10856881 TTAAATATTGTA-TTACAATTTCA
1 TTAAATATTG-AGTTACAATTTCA
10856904 TTA
1 TTA
10856907 GAAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (23 bp):
TTAAATATTGAGTTACAATTTCA
Found at i:10861524 original size:9 final size:9
Alignment explanation
Indices: 10861510--10861607 Score: 54
Period size: 9 Copynumber: 10.3 Consensus size: 9
10861500 AAACCAATAG
10861510 AAATTATAA
1 AAATTATAA
*
10861519 AAATTATTA
1 AAATTATAA
**
10861528 ATTTTAATAA
1 AAATT-ATAA
**
10861538 AAACAATAA
1 AAATTATAA
*
10861547 AAATGTTTAA
1 AAAT-TATAA
*
10861557 AATTTATTAA
1 AAATTA-TAA
10861567 AAATT-TAA
1 AAATTATAA
10861575 AAGATTATAA
1 AA-ATTATAA
* *
10861585 ATATCATAAAA
1 AAAT--TATAA
10861596 AAATTATAA
1 AAATTATAA
10861605 AAA
1 AAA
10861608 AATGTAAAAT
Statistics
Matches: 64, Mismatches: 18, Indels: 14
0.67 0.19 0.15
Matches are distributed among these distances:
8 5 0.08
9 31 0.48
10 21 0.33
11 7 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:10861618 original size:18 final size:19
Alignment explanation
Indices: 10861595--10861633 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10861585 ATATCATAAA
10861595 AAAATTATAAAAAAAT-GT
1 AAAATTATAAAAAAATAGT
* *
10861613 AAAATTTTATAAAAATAGT
1 AAAATTATAAAAAAATAGT
10861632 AA
1 AA
10861634 GAAATGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAAATAGT
Found at i:10861972 original size:30 final size:30
Alignment explanation
Indices: 10861932--10861989 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10861922 GTATTTTATA
*
10861932 AATTTTTTTATGA-TTTTTATAAAAATTTAC
1 AATTCTTTTAT-ATTTTTTATAAAAATTTAC
*
10861962 AATTCTTTTATATTTTTTATTAAAATTT
1 AATTCTTTTATATTTTTTATAAAAATTT
10861990 GATAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (30 bp):
AATTCTTTTATATTTTTTATAAAAATTTAC
Found at i:10865416 original size:67 final size:67
Alignment explanation
Indices: 10865336--10865484 Score: 194
Period size: 67 Copynumber: 2.2 Consensus size: 67
10865326 ATTTTTTTTC
* * * * *
10865336 TCAAAAGTACTTTTTTATAGTAATGCTAAACACTTAAATTTTAAATTAAA-CTTTTCAAAAGTAC
1 TCAAAAATACTTTTTTACAGCAATACTAAACACTTAAATTTTAAATTAAACCTTTT-AAAAATAC
10865400 TTA
65 TTA
* * *
10865403 TCAAAAATACTTTTTGACAGCAATACTGAACATTTAAATTTTAAATTAAACCTTTTAAAAATACT
1 TCAAAAATACTTTTTTACAGCAATACTAAACACTTAAATTTTAAATTAAACCTTTTAAAAATACT
*
10865468 TC
66 TA
10865470 TCAAAAATA-TTTTTT
1 TCAAAAATACTTTTTT
10865485 CACAACACAT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
66 5 0.07
67 61 0.86
68 5 0.07
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (67 bp):
TCAAAAATACTTTTTTACAGCAATACTAAACACTTAAATTTTAAATTAAACCTTTTAAAAATACT
TA
Found at i:10866821 original size:30 final size:30
Alignment explanation
Indices: 10866787--10866849 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
10866777 ACTTAACAAG
10866787 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTTTAAAATAATAACAAAATTAA
*
10866817 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTTTAAAATAATAACAAAATTAA
10866847 CAA
1 CAA
10866850 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTTTAAAATAATAACAAAATTAA
Found at i:10866892 original size:11 final size:11
Alignment explanation
Indices: 10866878--10866937 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
10866868 ATATCCAAAC
10866878 AATAATAATAA
1 AATAATAATAA
10866889 AATAATAATAA
1 AATAATAATAA
** *
10866900 AATGGTAGTAA
1 AATAATAATAA
** *
10866911 AATAGGAAGAA
1 AATAATAATAA
*
10866922 AATAATAAAAA
1 AATAATAATAA
10866933 AATAA
1 AATAA
10866938 CATTAGAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (11 bp):
AATAATAATAA
Found at i:10867059 original size:42 final size:43
Alignment explanation
Indices: 10866975--10867063 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
10866965 TGTCATTTAC
10866975 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
1 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
*
10867018 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACTTTTTT
1 TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
10867061 TTT
1 TTT
10867064 CAAGCCCATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.49
Consensus pattern (43 bp):
TTTAGTGCTTGAGATCTGGCCTATTTTTTAAACAAACCTTTTT
Found at i:10870155 original size:19 final size:18
Alignment explanation
Indices: 10870131--10870166 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
10870121 AAGGAGAGGG
10870131 AAAGGAGAAGAAAGAAAAA
1 AAAGGAGAAG-AAGAAAAA
10870150 AAAGGAGAAGAAGAAAA
1 AAAGGAGAAGAAGAAAA
10870167 GGGAATGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGGAGAAGAAGAAAAA
Found at i:10870710 original size:153 final size:154
Alignment explanation
Indices: 10870526--10870947 Score: 508
Period size: 153 Copynumber: 2.7 Consensus size: 154
10870516 AAAAATTGCA
* *
10870526 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACAAAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
10870591 AAATTAGAAAATATGATATTTTTCAAAGTAATAAAATGCGGAGAAAAAAATGCGAACAAATGA-C
66 AAATTAGAAAATATGATATTTTTCAAAGTAATAAAATTCGGAGAAAAAAATACGAACAAA-GAGC
* *
10870655 CGAAGTAAGGG-TTTTTTACTAAATT
130 CGAAATAAGGGTTTTTTTA-AAAATT
*
10870680 T-TTTAAAAAACAGAAAT-AATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 TATTTAAAAAACA-AAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * * *
10870743 AAAA-TACGAAAATAAT-ATATTTTTATTGAAATTAATAAAATTTGG-G--AAAAATACGAGCAA
65 AAAATTA-GAAAAT-ATGATA--TTT-TTCAAAGTAATAAAATTCGGAGAAAAAAATACGAACAA
10870803 AGAGCCGAAATAAGGGTTTTTTTAAAAATT
125 AGAGCCGAAATAAGGGTTTTTTTAAAAATT
* * * *
10870833 TATTTAAAAAACAAACTAAATTTATTTAAATTTCAAACATAATATACTAAAATAATGTAAAATAG
1 TATTTAAAAAACAAAATAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
10870898 TAAAATTAGAAAATA-G-TATTTTTTAAAGTAATACAATTCAGGA-AAAAAAA
64 TAAAATTAGAAAATATGATATTTTTCAAAGTAATAAAATTC-GGAGAAAAAAA
10870948 GGACTAAGTT
Statistics
Matches: 230, Mismatches: 20, Indels: 36
0.80 0.07 0.13
Matches are distributed among these distances:
151 14 0.06
152 9 0.04
153 102 0.44
154 32 0.14
155 8 0.03
156 63 0.27
157 2 0.01
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (154 bp):
TATTTAAAAAACAAAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATATGATATTTTTCAAAGTAATAAAATTCGGAGAAAAAAATACGAACAAAGAGCC
GAAATAAGGGTTTTTTTAAAAATT
Found at i:10871285 original size:50 final size:50
Alignment explanation
Indices: 10871182--10871423 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
10871172 GGGAATGAGA
* *
10871182 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTA---A-G--ATGAGAGG
* * *
10871238 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGG
** ** * * * **
10871288 TCCCCCGTAAGACCATGTCTACGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGG
* * * * * * **
10871338 TCTCATGTAAGACCATATCTGGGATATGGCATTTGCAGTATAG--GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTA-AGATGAGAGG
*
10871387 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10871424 TGTTATTATC
Statistics
Matches: 148, Mismatches: 37, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
49 35 0.24
50 75 0.51
51 1 0.01
52 1 0.01
53 1 0.01
56 35 0.24
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGG
Found at i:10872791 original size:20 final size:18
Alignment explanation
Indices: 10872741--10872792 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
10872731 CTACAAGATA
10872741 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
10872758 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
10872778 AATATTAAATTAATA
1 AATATTAAATTAATA
10872793 AAATACTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:10888308 original size:19 final size:18
Alignment explanation
Indices: 10888284--10888319 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
10888274 AAGGAGAGGG
10888284 AAAGGAGAAGAAAGAAAAA
1 AAAGGAGAAG-AAGAAAAA
10888303 AAAGGAGAAGAAGAAAA
1 AAAGGAGAAGAAGAAAA
10888320 GGGAATGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGGAGAAGAAGAAAAA
Found at i:10889304 original size:155 final size:153
Alignment explanation
Indices: 10888679--10889753 Score: 1270
Period size: 155 Copynumber: 7.0 Consensus size: 153
10888669 AAAAATTGCA
*
10888679 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * * * *
10888744 AAATTAGAAAAT-ATGATA-TTTTTCAAAGTAATAAAATGCGGAGAAAAAAATGCGAACAAATGA
66 AAA-TAGAAAATAAT-ATATTTTTTTAAAGTAATAAAATTCGG-GAAAAAAATACGAACAAAGGG
* *
10888807 CCGAAGTAAGGGTTTTTTACTAAATT
128 CCAAAATAAGGGTTTTTTACTAAATT
* *
10888833 T-TTTAAAAAACAGAA-ATAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 TATTTAAAAAACACAATA-AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * * *
10888896 AAAATACGAAAATAATATATTTTTATTGAAATTAATAAAATTTGGG--AAAAATACGAGCAAAGA
65 AAAATA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
* *
10888959 GCCGAAATAAGGGTTTTTTTA-AAAATT
127 GCCAAAATAAGGG-TTTTTTACTAAATT
* *
10888986 TATTTAAAAAACA-AACTAAATTTATTTAAATTTCAAACATAATATACTAAAATAATGTAAAATA
1 TATTTAAAAAACACAA-TAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATA
* * * *
10889050 GTAAAATTAGAAAAT-A-GTATTTTTTTAAAGTAATACAATTCAGGAAAAAAATACGAACAAAGG
63 ATAAAA-TAGAAAATAATATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
* *
10889113 GCCAAAATAAGGTTTTTTTACTAAAAT
127 GCCAAAATAAGGGTTTTTTACTAAATT
*** * * * * *
10889140 TAAAAAAAAAACAGAATTAATTAATACATTTTAAACATAATGTACTAAAATAAAGTAAAATAATA
1 TATTTAAAAAACACAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
10889205 AAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTC-GGAAAAAAATACGAGCAAAGGG
66 AAATA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGG
* * * **
10889269 CAAAAATAATGTTTTTTTTTTAAATT
128 CCAAAATAAGGGTTTTTTACTAAATT
* *
10889295 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAGAATAATA
1 TATTTAAAAAACACAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
10889360 AAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGGCC
66 AAA-TAGAAAATAATATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCC
*
10889425 GAAATAAGGGTTTTTTACT-AA--
130 AAAATAAGGGTTTTTTACTAAATT
* * * * * **
10889446 -A-TTAAAGAACAGAATTAATTAATACATTTTAAACATAATGTACTAAAATAAAATAAAATAATA
1 TATTTAAAAAACACAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * *
10889509 AAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCAGGAAAAAAATACGAGCAAAGGG
66 AAATA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGG
* *
10889574 CAAAAATAAGAGTTTTTT--TAAAATT
128 CCAAAATAAGGGTTTTTTACT-AAATT
*
10889599 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * * *
10889664 AAATAATAAAATAATAT-TTTTTTTAAAGTAATACAATTCGGGAAAAAAAATACAAACAAAGGAC
66 AAAT-AGAAAATAATATATTTTTTTAAAGTAATAAAATTCGGG-AAAAAAATACGAACAAAGGGC
*
10889728 CGAAATAAGGGTTTTTTACTAAATT
129 CAAAATAAGGGTTTTTTACTAAATT
10889753 T
1 T
10889754 TTTTGAAGTT
Statistics
Matches: 784, Mismatches: 100, Indels: 74
0.82 0.10 0.08
Matches are distributed among these distances:
148 2 0.00
149 72 0.09
150 3 0.00
151 54 0.07
152 78 0.10
153 165 0.21
154 134 0.17
155 196 0.25
156 78 0.10
157 2 0.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (153 bp):
TATTTAAAAAACACAATAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATAGAAAATAATATATTTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCA
AAATAAGGGTTTTTTACTAAATT
Found at i:10889508 original size:13 final size:13
Alignment explanation
Indices: 10889490--10889522 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
10889480 ATAATGTACT
10889490 AAAATAAAATA-A
1 AAAATAAAATACA
10889502 AATAATAAAATACA
1 AA-AATAAAATACA
10889516 AAAATAA
1 AAAATAA
10889523 TATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAATACA
Found at i:10889600 original size:304 final size:303
Alignment explanation
Indices: 10888679--10889752 Score: 1629
Period size: 304 Copynumber: 3.5 Consensus size: 303
10888669 AAAAATTGCA
10888679 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * * * *
10888744 AAATTAGAAAATA-TGATA-TTTTTCAAAGTAATAAAATGCGGAGAAAAAAATGCGAACAAATGA
66 AAATTAGAAAATAGT-ATATTTTTTTAAAGTAATACAATTCGG-GAAAAAAATACGAACAAAGGA
* * *
10888807 CCGAAGTAAGGGTTTTTTACTAAATTTTTTAAAAAACAGAAATAATTAATACATTTCAAACATAA
129 CCGAAATAAGGGTTTTTTACTAAA----TTAAAAAACAGAATTAATTAATACATTTTAAACATAA
* *
10888872 TGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAATTAATAAAAT
190 TGTACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAT
* * * ** *
10888937 TTGG-GAAAAATACGAGCAAAGAGCCGAAATAAGGGTTTTTTTAAAAATT
255 TCGGAAAAAAATACGAGCAAAGGGCAAAAATAAGAGTTTTTTT-AAAATT
* * * *
10888986 TATTTAAAAAACAAACTAAATTTATTTAAATTTCAAACATAATATACTAAAATAATGTAAAATAG
1 TATTTAAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
10889051 TAAAATTAGAAAATAG--TATTTTTTTAAAGTAATACAATTCAGGAAAAAAATACGAACAAAGGG
64 TAAAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGA
* *
10889114 CCAAAATAAGGTTTTTTTACTAAAATTAAAAAAAAAACAGAATTAATTAATACATTTTAAACATA
129 CCGAAATAAGGGTTTTTTACT-AAATT----AAAAAACAGAATTAATTAATACATTTTAAACATA
10889179 ATGTACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
189 ATGTACTAAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
** *
10889244 TTCGGAAAAAAATACGAGCAAAGGGCAAAAATAATGTTTTTTTTTTAAATT
254 TTCGGAAAAAAATACGAGCAAAGGGCAAAAATAA-GAGTTTTTTTAAAATT
*
10889295 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAGAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
10889360 AAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGGCC
66 AAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGACC
*
10889425 GAAATAAGGGTTTTTTACTAAATTAAAGAACAGAATTAATTAATACATTTTAAACATAATGTACT
131 GAAATAAGGGTTTTTTACTAAATTAAAAAACAGAATTAATTAATACATTTTAAACATAATGTACT
* *
10889490 AAAATAAAATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCAGGA
196 AAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTC-GGA
10889555 AAAAAATACGAGCAAAGGGCAAAAATAAGAGTTTTTTTAAAATT
260 AAAAAATACGAGCAAAGGGCAAAAATAAGAGTTTTTTTAAAATT
10889599 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * * *
10889664 AAATAATAAAATAATAT-TTTTTTTAAAGTAATACAATTCGGGAAAAAAAATACAAACAAAGGAC
66 AAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGG-AAAAAAATACGAACAAAGGAC
10889728 CGAAATAAGGGTTTTTTACTAAATT
130 CGAAATAAGGGTTTTTTACTAAATT
10889753 TTTTTGAAGT
Statistics
Matches: 706, Mismatches: 46, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
303 25 0.04
304 236 0.33
305 31 0.04
307 109 0.15
308 132 0.19
309 165 0.23
310 8 0.01
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (303 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATAGTATATTTTTTTAAAGTAATACAATTCGGGAAAAAAATACGAACAAAGGACC
GAAATAAGGGTTTTTTACTAAATTAAAAAACAGAATTAATTAATACATTTTAAACATAATGTACT
AAAATAAAGTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGAA
AAAAATACGAGCAAAGGGCAAAAATAAGAGTTTTTTTAAAATT
Found at i:10889667 original size:8 final size:8
Alignment explanation
Indices: 10889644--10889679 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
10889634 CATAATGTAC
10889644 TAAAATAA
1 TAAAATAA
10889652 TGTAAAATAA
1 --TAAAATAA
10889662 TAAAATAA
1 TAAAATAA
10889670 TAAAATAA
1 TAAAATAA
10889678 TA
1 TA
10889680 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (8 bp):
TAAAATAA
Found at i:10892122 original size:124 final size:124
Alignment explanation
Indices: 10891817--10892191 Score: 698
Period size: 124 Copynumber: 3.0 Consensus size: 124
10891807 ATATAATGTT
10891817 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
1 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
10891882 CTGAATTTAAGTTAATGGGTGTT-AAACAACATTGCAACATCCGAACATTACACATAAC
66 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
10891940 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
1 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
*
10892005 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACAGAAC
66 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
* *
10892064 AATTATTCCGAATGAATTATACTTTTTATAACTTAATTTGGATTCAATTTAAGCATAAGCATAAG
1 AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
* *
10892129 CTGAATTTACGTTAATGGGTGTTAAAACAACATTGCAACATTCGAACATTACACATAAC
66 CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
10892188 AATT
1 AATT
10892192 TGACAGCATT
Statistics
Matches: 245, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
123 88 0.36
124 157 0.64
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (124 bp):
AATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAG
CTGAATTTAAGTTAATGGGTGTTAAAACAACATTGCAACATCCGAACATTACACATAAC
Found at i:10894650 original size:12 final size:12
Alignment explanation
Indices: 10894633--10894661 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10894623 TTTCTCATGC
10894633 TCATAATTTAAA
1 TCATAATTTAAA
10894645 TCATAATTTAAA
1 TCATAATTTAAA
10894657 TCATA
1 TCATA
10894662 TCACTAGCAA
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:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
TCATAATTTAAA
Found at i:10895045 original size:37 final size:37
Alignment explanation
Indices: 10894988--10895139 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
10894978 TATGATCACT
*
10894988 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
10895023 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
10895060 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
10895105 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
10895140 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:10895123 original size:46 final size:46
Alignment explanation
Indices: 10895056--10895324 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
10895046 TAAGTGTAGC
* *
10895056 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
10895102 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
10895148 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
10895200 CACTTATCACTTTGTCGCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
10895246 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
10895298 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
10895325 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
46 110 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 81 0.42
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:10895175 original size:52 final size:52
Alignment explanation
Indices: 10895099--10895318 Score: 281
Period size: 52 Copynumber: 4.3 Consensus size: 52
10895089 TAGCTAAAGC
* *
10895099 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
10895152 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
10895204 TATCAC---T---TTGTCGCTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
10895250 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
10895302 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
10895319 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 41 0.28
49 1 0.01
52 84 0.58
53 18 0.12
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:10895221 original size:98 final size:98
Alignment explanation
Indices: 10895056--10895324 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
10895046 TAAGTGTAGC
* * *
10895056 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
10895121 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
10895155 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCGCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
10895220 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
10895253 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
10895318 GATCAGA
66 GATCAGA
10895325 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 152 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:10898113 original size:37 final size:38
Alignment explanation
Indices: 10898029--10898115 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 38
10898019 ACTAACACAA
* *
10898029 TAACAATAATAATAGTTTTATACTCAAAATTATACTAAC
1 TAACAATAATAATAGGTTTATACTCAAAA-TATAATAAC
10898068 TAACAATAATAATTAGGGTTT-TACT-AAAA-ATAATAAC
1 TAACAATAATAA-TA-GGTTTATACTCAAAATATAATAAC
10898105 TAACAATAATA
1 TAACAATAATA
10898116 TAATGTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 18 0.41
39 16 0.36
40 6 0.14
41 4 0.09
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (38 bp):
TAACAATAATAATAGGTTTATACTCAAAATATAATAAC
Found at i:10898224 original size:41 final size:40
Alignment explanation
Indices: 10898043--10898224 Score: 96
Period size: 41 Copynumber: 4.6 Consensus size: 40
10898033 AATAATAATA
* *
10898043 GTTTTATACTCAA-AATTATACTAACTAACAATAATAATTAGG
1 GTTTT-TACT-AACAATAATACTAACCAA-AATAATAATTAGG
*
10898085 G-TTTTACTAAAAATAATAACTAA-CAATAAT-ATAA-T---
1 GTTTTTACTAACAATAAT-ACTAACCAA-AATAATAATTAGG
**** * * *
10898120 GTAAAAACTAACAATCATACTAGCTAAAATAATAATTAGG
1 GTTTTTACTAACAATAATACTAACCAAAATAATAATTAGG
* *
10898160 GTTTTTACTAATC-CTAATAACTAACCATAATAATGATATTA-G
1 GTTTTTACTAA-CAATAAT-ACTAACCAAAATAAT-A-ATTAGG
*
10898202 TTTTTTACTAACAATAATACTAA
1 GTTTTTACTAACAATAATACTAA
10898225 GTAACAATAA
Statistics
Matches: 104, Mismatches: 22, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
35 8 0.08
36 16 0.15
37 1 0.01
38 1 0.01
39 6 0.06
40 24 0.23
41 27 0.26
42 17 0.16
43 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (40 bp):
GTTTTTACTAACAATAATACTAACCAAAATAATAATTAGG
Found at i:10906616 original size:41 final size:41
Alignment explanation
Indices: 10906558--10906662 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
10906548 TCTGATTCAA
* * * *
10906558 TTCACCGGCAATTAGCCTGCTAGACTTAAAGTCCGAATTAT
1 TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATAAC
10906599 TTCACCGGCACA-AAGCCTGCTAGACATAAAGTCCGAATAAC
1 TTCACCGGCA-ATAAGCCTGCTAGACATAAAGTCCGAATAAC
** *
10906640 TTCACCGGCCTTAAGCCTACTAG
1 TTCACCGGCAATAAGCCTGCTAG
10906663 GTTTTAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 54 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (41 bp):
TTCACCGGCAATAAGCCTGCTAGACATAAAGTCCGAATAAC
Found at i:10907399 original size:2 final size:2
Alignment explanation
Indices: 10907392--10907416 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10907382 ATTCATACAC
10907392 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10907417 CTAATTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10908367 original size:13 final size:13
Alignment explanation
Indices: 10908349--10908373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10908339 TCAAACTATC
10908349 AAATTTTCACACG
1 AAATTTTCACACG
10908362 AAATTTTCACAC
1 AAATTTTCACAC
10908374 ATATAACTTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:10910699 original size:56 final size:55
Alignment explanation
Indices: 10910612--10910720 Score: 164
Period size: 56 Copynumber: 2.0 Consensus size: 55
10910602 AAGAACTAAG
* * * *
10910612 GATGATACTGGATCGAACCAGAATCTGGGGGCTGAAACTGTAAATAAATAAGAAT
1 GATGATACCGGATCGAACCAAAATCTAGGGGCTGAAACTATAAATAAATAAGAAT
*
10910667 GATGATACCGGAATCGAACCAAAATTTAGGGGCTGAAACTATAAATAAATAAGA
1 GATGATACCGG-ATCGAACCAAAATCTAGGGGCTGAAACTATAAATAAATAAGA
10910721 GTCATTAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 10 0.21
56 38 0.79
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (55 bp):
GATGATACCGGATCGAACCAAAATCTAGGGGCTGAAACTATAAATAAATAAGAAT
Found at i:10911585 original size:20 final size:21
Alignment explanation
Indices: 10911552--10911599 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
10911542 GTCGTTATTC
10911552 TTTTTTGTCTTTTTCATTTGTT
1 TTTTTTGTCTTTTT-ATTTGTT
*
10911574 TTTTTTG-C-TTTTGTTTGTT
1 TTTTTTGTCTTTTTATTTGTT
10911593 TATTTTT
1 T-TTTTT
10911600 TTCTCTACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 9 0.38
21 1 0.04
22 7 0.29
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTTTGTCTTTTTATTTGTT
Found at i:10911806 original size:17 final size:19
Alignment explanation
Indices: 10911778--10911815 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10911768 CTGAATTTTT
10911778 TTTAGTTTTGGGCT-AGGG
1 TTTAGTTTTGGGCTGAGGG
10911796 TTTAG-TTTGGGCTGAGGG
1 TTTAGTTTTGGGCTGAGGG
10911814 TT
1 TT
10911816 AATTTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.11, C:0.05, G:0.39, T:0.45
Consensus pattern (19 bp):
TTTAGTTTTGGGCTGAGGG
Found at i:10911821 original size:17 final size:17
Alignment explanation
Indices: 10911784--10911821 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10911774 TTTTTTTAGT
*
10911784 TTTGGGCTAGGGTTTAG
1 TTTGGGCTAGGGTTTAA
10911801 TTTGGGCTGAGGG-TTAA
1 TTTGGGCT-AGGGTTTAA
10911818 TTTG
1 TTTG
10911822 TATTTGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.13, C:0.05, G:0.39, T:0.42
Consensus pattern (17 bp):
TTTGGGCTAGGGTTTAA
Found at i:10912773 original size:26 final size:27
Alignment explanation
Indices: 10912737--10912790 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
10912727 TTTATTTTTT
* *
10912737 ATTTTTTATTTTTATT-TATATAATTA
1 ATTTTTAATTTTTATTATATAAAATTA
10912763 ATTTTTAATTTTTATTATATAAAATTA
1 ATTTTTAATTTTTATTATATAAAATTA
10912790 A
1 A
10912791 ATATTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTTAATTTTTATTATATAAAATTA
Found at i:10921802 original size:18 final size:18
Alignment explanation
Indices: 10921750--10921808 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
10921740 CATTATCATC
*
10921750 ATCTTCATC-TCTATCTCT
1 ATCTTCATCTTC-ATCTTT
* *
10921768 ATCTCCAATGTT-ATCTTT
1 ATCTTC-ATCTTCATCTTT
*
10921786 ATCTTCATCTTCATCTTC
1 ATCTTCATCTTCATCTTT
10921804 ATCTT
1 ATCTT
10921809 GTTTTTCCGT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 4 0.12
18 25 0.78
19 2 0.06
20 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.51
Consensus pattern (18 bp):
ATCTTCATCTTCATCTTT
Found at i:10925077 original size:23 final size:24
Alignment explanation
Indices: 10925034--10925079 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
10925024 TTTGAAGTTG
*
10925034 AAAATATGTGTTTGTCTTGAAAAA
1 AAAATATGTGTTTATCTTGAAAAA
10925058 AAAATA-GTGTTTAT-TATGAAAA
1 AAAATATGTGTTTATCT-TGAAAA
10925080 CTTATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (24 bp):
AAAATATGTGTTTATCTTGAAAAA
Found at i:10925655 original size:27 final size:27
Alignment explanation
Indices: 10925612--10925676 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
10925602 AGCCGAGCTG
*
10925612 CCAGT-ACAGTATATGTGGCATAGCCA
1 CCAGTAACAGTATATGTGGCAGAGCCA
10925638 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAGCCA
* *
10925665 CAAGAAACAGTA
1 CCAGTAACAGTA
10925677 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.18
27 26 0.76
28 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAGCCA
Found at i:10925899 original size:26 final size:26
Alignment explanation
Indices: 10925845--10926198 Score: 362
Period size: 26 Copynumber: 13.6 Consensus size: 26
10925835 CCCTTCTGGA
*
10925845 GGTATTTCAATAATTTTACCC-TAC-AGG
1 GGTATTTCGATAA-TTTACCCAT-CGA-G
*
10925872 GGTATTTCGATAATTTACCCATCGGG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
10925898 GGTATTT-TAGTAATTTACCTATTGAG
1 GGTATTTCGA-TAATTTACCCATCGAG
* * *
10925924 AGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
10925950 GGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* **
10925976 GGTATTTTGGCAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
*
10926002 GGT-TTTCGATAATTTACCCATTGAG
1 GGTATTTCGATAATTTACCCATCGAG
*
10926027 GGTATTTCTG-TGATTTACCCATCGAG
1 GGTATTTC-GATAATTTACCCATCGAG
*
10926053 GGTATTTCGATAATTTACCCATCGAT
1 GGTATTTCGATAATTTACCCATCGAG
* *
10926079 GGTATTTC-AGTAATTTACCTATTGAG
1 GGTATTTCGA-TAATTTACCCATCGAG
*
10926105 GGTATTTCTG-TAATTTACCCATTGAG
1 GGTATTTC-GATAATTTACCCATCGAG
* * *
10926131 GGTATTTTGGTAATTTACACATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
10926157 GGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
10926183 GGTATTTTGGTAATTT
1 GGTATTTCGATAATTT
10926199 TTATTCGTGT
Statistics
Matches: 287, Mismatches: 29, Indels: 23
0.85 0.09 0.07
Matches are distributed among these distances:
25 25 0.09
26 248 0.86
27 14 0.05
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
GGTATTTCGATAATTTACCCATCGAG
Found at i:10925938 original size:52 final size:52
Alignment explanation
Indices: 10925871--10926198 Score: 414
Period size: 52 Copynumber: 6.3 Consensus size: 52
10925861 TACCCTACAG
* * * * * *
10925871 GGGTATTTCGATAATTTACCCATCGGGGGTATTTTAGTAATTTACCTATTGA
1 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTCGTAATTTACCCATCGA
* *
10925923 GAGTATTTTGGTAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTCGTAATTTACCCATCGA
* *
10925975 GGGTATTTTGGCAATTTACCCATCGAGGG--TTTTCGATAATTTACCCATTGA
1 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTCG-TAATTTACCCATCGA
*
10926026 GGGTATTTCT-GTGATTTACCCATCGAGGGTA-TTTCGATAATTTACCCATCGA
1 GGGTATTT-TGGTAATTTACCCATCGAGGGTATTTTCG-TAATTTACCCATCGA
* ** * * *
10926078 TGGTATTTCAGTAATTTACCTATTGAGGGTA-TTTCTGTAATTTACCCATTGA
1 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTC-GTAATTTACCCATCGA
* *
10926130 GGGTATTTTGGTAATTTACACATCGAGGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTCGTAATTTACCCATCGA
10926182 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
10926199 TTATTCGTGT
Statistics
Matches: 241, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
50 5 0.02
51 39 0.16
52 193 0.80
53 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTCGTAATTTACCCATCGA
Found at i:10925954 original size:78 final size:77
Alignment explanation
Indices: 10925871--10926198 Score: 415
Period size: 78 Copynumber: 4.2 Consensus size: 77
10925861 TACCCTACAG
* * * * * *
10925871 GGGTATTTCGATAATTTACCCATCGGGGGTATTTTAGTAATTTACCTATTGAGAGTATTTTGGTA
1 GGGTATTTCG-TAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATCGAGGGTATTTCGGTA
10925936 ATTTACCCATCGA
65 ATTTACCCATCGA
* * *
10925949 GGGTATTTTGGTAATTTACCCATCGAGGGTATTTTGGCAATTTACCCATCGAGGGT-TTTCGATA
1 GGGTA-TTTCGTAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATCGAGGGTATTTCGGTA
*
10926013 ATTTACCCATTGA
65 ATTTACCCATCGA
* * * * *
10926026 GGGTATTTCTGTGATTTACCCATCGAGGGTATTTCGATAATTTACCCATCGATGGTATTTCAGTA
1 GGGTATTTC-GTAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATCGAGGGTATTTCGGTA
* *
10926091 ATTTACCTATTGA
65 ATTTACCCATCGA
* * *
10926104 GGGTATTTCTGTAATTTACCCATTGAGGGTATTTTGGTAATTTACACATCGAGGGTATTTTGGTA
1 GGGTATTTC-GTAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATCGAGGGTATTTCGGTA
10926169 ATTTACCCATCGA
65 ATTTACCCATCGA
*
10926182 GGGTATTTTGGTAATTT
1 GGGTA-TTTCGTAATTT
10926199 TTATTCGTGT
Statistics
Matches: 216, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
76 3 0.01
77 64 0.30
78 142 0.66
79 7 0.03
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (77 bp):
GGGTATTTCGTAATTTACCCATCGAGGGTATTTTGGTAATTTACCCATCGAGGGTATTTCGGTAA
TTTACCCATCGA
Found at i:10928087 original size:25 final size:26
Alignment explanation
Indices: 10928059--10928138 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 26
10928049 GAAAGAGCCT
*
10928059 TTAATCGGGAAGCTCCGGAGAGCT-A
1 TTAATCGGGAAGCTCCGAAGAGCTAA
* **
10928084 TTAATCAGGAAGCTCATAAGAGCTAA
1 TTAATCGGGAAGCTCCGAAGAGCTAA
*
10928110 TT-ATCGGGAAGCTCCGAAGAGCCAA
1 TTAATCGGGAAGCTCCGAAGAGCTAA
10928135 TTAA
1 TTAA
10928139 CAGGACACTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
25 41 0.91
26 4 0.09
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
TTAATCGGGAAGCTCCGAAGAGCTAA
Found at i:10928124 original size:50 final size:50
Alignment explanation
Indices: 10928062--10928158 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 50
10928052 AGAGCCTTTA
* *
10928062 ATCGGGAAGCTCCGGAGAG-CTATTAATCAGGA-AGCTCATAAGAGCTAATT
1 ATCGGGAAGCTCCGAAGAGCCAATTAA-CAGGACA-CTCATAAGAGCTAATT
10928112 ATCGGGAAGCTCCGAAGAGCCAATTAACAGGACACTCATAAGAGCTA
1 ATCGGGAAGCTCCGAAGAGCCAATTAACAGGACACTCATAAGAGCTA
10928159 CGGTGTGTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 36 0.84
51 7 0.16
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (50 bp):
ATCGGGAAGCTCCGAAGAGCCAATTAACAGGACACTCATAAGAGCTAATT
Found at i:10928154 original size:25 final size:25
Alignment explanation
Indices: 10928083--10928156 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
10928073 CCGGAGAGCT
*
10928083 ATTAATCAGGAAGCTCATAAGAGCTA
1 ATTAA-CAGGAAGCTCATAAGAGCCA
* * **
10928109 ATTATCGGGAAGCTCCGAAGAGCCA
1 ATTAACAGGAAGCTCATAAGAGCCA
10928134 ATTAACAGGACA-CTCATAAGAGC
1 ATTAACAGGA-AGCTCATAAGAGC
10928157 TACGGTGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 33 0.87
26 5 0.13
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (25 bp):
ATTAACAGGAAGCTCATAAGAGCCA
Found at i:10932818 original size:12 final size:12
Alignment explanation
Indices: 10932798--10932831 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
10932788 ATGGAAGATA
10932798 TTCACAATTTCT
1 TTCACAATTTCT
*
10932810 TTCATAA-TTCT
1 TTCACAATTTCT
10932821 TTCACAATTTC
1 TTCACAATTTC
10932832 GATATAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCACAATTTCT
Found at i:10935774 original size:20 final size:20
Alignment explanation
Indices: 10935732--10935774 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
10935722 AATTCGGCCA
*
10935732 TCACATATTCATTTCACATT
1 TCACATATTCATTTCAAATT
*
10935752 TCACAT-TTCGTTTCAAATAT
1 TCACATATTCATTTCAAAT-T
10935772 TCA
1 TCA
10935775 TATCAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.44
Consensus pattern (20 bp):
TCACATATTCATTTCAAATT
Found at i:10940386 original size:20 final size:20
Alignment explanation
Indices: 10940344--10940386 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
10940334 AATTCAACCA
*
10940344 TCACATATTCATTTCACATT
1 TCACATATTCATTTCAAATT
*
10940364 TCACAT-TTCGTTTCAAATAT
1 TCACATATTCATTTCAAAT-T
10940384 TCA
1 TCA
10940387 TATCAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.44
Consensus pattern (20 bp):
TCACATATTCATTTCAAATT
Found at i:10946196 original size:17 final size:18
Alignment explanation
Indices: 10946174--10946207 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10946164 TATTCTGCTA
10946174 TTTCAA-ATTTCTTTTAC
1 TTTCAACATTTCTTTTAC
*
10946191 TTTCAACATTTTTTTTA
1 TTTCAACATTTCTTTTA
10946208 TTTTAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCAACATTTCTTTTAC
Found at i:10948553 original size:36 final size:36
Alignment explanation
Indices: 10948513--10948591 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
10948503 CGAGCCATTA
*
10948513 GTGTGTTATCAGGTAGATT-GCTCTTATGAGCATCTG
1 GTGTGTT-TCAGATAGATTAGCTCTTATGAGCATCTG
* *
10948549 GTGTGTTTCAGATGGATTAGCTCTTATGATCATCTG
1 GTGTGTTTCAGATAGATTAGCTCTTATGAGCATCTG
10948585 GTGTGTT
1 GTGTGTT
10948592 CCAGTTGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 9 0.23
36 30 0.77
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.42
Consensus pattern (36 bp):
GTGTGTTTCAGATAGATTAGCTCTTATGAGCATCTG
Found at i:10950860 original size:17 final size:19
Alignment explanation
Indices: 10950838--10950876 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10950828 TTTACAAAAC
10950838 TATAAT-TC-GTCAAATCA
1 TATAATATCTGTCAAATCA
*
10950855 TATAATATCTGTCAATTCA
1 TATAATATCTGTCAAATCA
10950874 TAT
1 TAT
10950877 TCAAGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAATATCTGTCAAATCA
Found at i:10950946 original size:25 final size:25
Alignment explanation
Indices: 10950885--10950990 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
10950875 ATTCAAGAAT
*
10950885 GCTCATGTGAG-CATATAAACGGGTA
1 GCTCATGTGAGCCATAT-AACGGGAA
* *
10950910 TCTC-TTTCGAGCCATATAACGGGAA
1 GCTCATGT-GAGCCATATAACGGGAA
* * *
10950935 GCTCATGTGAGCCATGTAAAGAGAA
1 GCTCATGTGAGCCATATAACGGGAA
*** *
10950960 GCTCAAAAGAGCCATAT-TCGGGAA
1 GCTCATGTGAGCCATATAACGGGAA
10950984 GCTCATG
1 GCTCATG
10950991 AAAGAGCCTT
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
24 11 0.18
25 43 0.70
26 7 0.11
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GCTCATGTGAGCCATATAACGGGAA
Found at i:10951238 original size:22 final size:22
Alignment explanation
Indices: 10951195--10951238 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10951185 TACACCAAAA
* **
10951195 TAGGTTTTTAGCGGCGTTTTTT
1 TAGGCTTTTAGCGGCGCCTTTT
*
10951217 TAGGCTTTTAGTGGCGCCTTTT
1 TAGGCTTTTAGCGGCGCCTTTT
10951239 AGCGCCACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (22 bp):
TAGGCTTTTAGCGGCGCCTTTT
Found at i:10951484 original size:42 final size:43
Alignment explanation
Indices: 10951325--10951484 Score: 196
Period size: 43 Copynumber: 3.7 Consensus size: 43
10951315 GGTCTTGTTC
* * *
10951325 TTTAGCGGCGCTTTCCCCACAAACGCTGCTAAAGGTCATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
* * * *
10951368 TTTAGCGGCTCTTTTCCCGCAAATGCCGCTATAGGTCATGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
* * *
10951411 TTTAGCGACGCTTTTCCCACAAATGCCGCTATAGATCATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
* * *
10951454 TTTAACGGTGC-TTTCCCACAAACGCTGCTAT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAT
10951485 TGTTTGGTGA
Statistics
Matches: 100, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 18 0.18
43 82 0.82
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACT
Found at i:10951502 original size:86 final size:86
Alignment explanation
Indices: 10951306--10951484 Score: 209
Period size: 86 Copynumber: 2.1 Consensus size: 86
10951296 GTCTATAAAT
* * ** * * *
10951306 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGCTTTCCCCACAAACGCTGCTAAAGGTCATGACTTTT
1 GCCGCTATAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGACTTTT
* * *
10951371 AGCGGCTCTTTTCCCGCAAAT
66 AACGGCTCTTTTCCCACAAAC
* * *
10951392 GCCGCTATAGGTCATGACCTTTAGCGACGCTTTTCCCACAAATGCCGCTATAGATCATGACTTTT
1 GCCGCTATAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGACTTTT
10951457 AACGG-TGC-TTTCCCACAAAC
66 AACGGCT-CTTTTCCCACAAAC
*
10951477 GCTGCTAT
1 GCCGCTAT
10951485 TGTTTGGTGA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
85 18 0.23
86 60 0.77
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (86 bp):
GCCGCTATAGGTCATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAGATCATGACTTTT
AACGGCTCTTTTCCCACAAAC
Found at i:10952204 original size:12 final size:12
Alignment explanation
Indices: 10952189--10952217 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10952179 TAAGTTATGC
10952189 AAGTTTATATAT
1 AAGTTTATATAT
10952201 AAGTTTATATAT
1 AAGTTTATATAT
10952213 AAGTT
1 AAGTT
10952218 ATGTAAGTTA
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:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:10952224 original size:21 final size:21
Alignment explanation
Indices: 10952200--10952243 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10952190 AGTTTATATA
10952200 TAAGTT-TATATATAAGTTATG
1 TAAGTTAT-TATATAAGTTATG
*
10952221 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
10952242 TA
1 TA
10952244 TTATGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:10952231 original size:12 final size:12
Alignment explanation
Indices: 10952216--10952240 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10952206 TATATATAAG
10952216 TTATGTAAGTTA
1 TTATGTAAGTTA
10952228 TTATGTAAGTTA
1 TTATGTAAGTTA
10952240 T
1 T
10952241 GTATTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:10952374 original size:19 final size:19
Alignment explanation
Indices: 10952352--10952392 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10952342 GATATGATTG
*
10952352 ATAAGTTTTGAAA-AAATAT
1 ATAAATTTT-AAATAAATAT
10952371 ATAAATTTTAAATAAATAT
1 ATAAATTTTAAATAAATAT
10952390 ATA
1 ATA
10952393 TATTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATAAATTTTAAATAAATAT
Found at i:10952402 original size:19 final size:19
Alignment explanation
Indices: 10952365--10952417 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
10952355 AGTTTTGAAA
* **
10952365 AAATATATAAATTTTAAAT
1 AAATATATATATTAAAAAT
10952384 AAATATATATATTAAAAAT
1 AAATATATATATTAAAAAT
** *
10952403 GTATATAAATATTAA
1 AAATATATATATTAA
10952418 TAAGTAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATATATATATTAAAAAT
Found at i:10953312 original size:38 final size:38
Alignment explanation
Indices: 10953261--10953337 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
10953251 TCCATATATA
10953261 TATTGAAAAGCTATGTAAGTGAACTCATAATCTAATTT
1 TATTGAAAAGCTATGTAAGTGAACTCATAATCTAATTT
10953299 TATTGAAAAGCTATGTAAGTGAACTCATAATCTAATTT
1 TATTGAAAAGCTATGTAAGTGAACTCATAATCTAATTT
10953337 T
1 T
10953338 CATGCGTACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (38 bp):
TATTGAAAAGCTATGTAAGTGAACTCATAATCTAATTT
Found at i:10953957 original size:16 final size:16
Alignment explanation
Indices: 10953938--10953988 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
10953928 CTCCGACGAC
10953938 AGAGGAGTGCGACGGT
1 AGAGGAGTGCGACGGT
**
10953954 AGAGGACAGCGACGGT
1 AGAGGAGTGCGACGGT
* * *
10953970 TGACGAGTGTGACGGT
1 AGAGGAGTGCGACGGT
10953986 AGA
1 AGA
10953989 TGAGCAACGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.45, T:0.14
Consensus pattern (16 bp):
AGAGGAGTGCGACGGT
Found at i:10954531 original size:41 final size:41
Alignment explanation
Indices: 10954447--10954591 Score: 184
Period size: 41 Copynumber: 3.5 Consensus size: 41
10954437 CTTTCGGGGA
* *
10954447 TTTAGCGGCATTTTTAAGG-AAAGCGCTGCCAATGCTCAGATC
1 TTTAGCGGCATTTTT--GGAAAAGCGCCGCTAATGCTCAGATC
* *
10954489 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCCCATATC
1 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCAGATC
* * *
10954530 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGATTAGATC
1 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCAGATC
* *
10954571 TTTAGCGGCGTTTTTGAAAAA
1 TTTAGCGGCATTTTTGGAAAA
10954592 AGTGCCGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
40 2 0.02
41 75 0.82
42 15 0.16
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCAGATC
Found at i:10954744 original size:26 final size:26
Alignment explanation
Indices: 10954696--10954746 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
10954686 AAAATGGATA
** * *
10954696 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
10954722 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
10954747 ATTATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:10955032 original size:14 final size:15
Alignment explanation
Indices: 10955004--10955036 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10954994 AAGGTTTATA
10955004 GATTATGGAATTAGG
1 GATTATGGAATTAGG
10955019 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
10955033 GATT
1 GATT
10955037 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:10955312 original size:87 final size:90
Alignment explanation
Indices: 10955132--10955315 Score: 266
Period size: 87 Copynumber: 2.1 Consensus size: 90
10955122 TGGTGTCGAG
* * *
10955132 TTAGGGGTTAGGGGTTAGAGGTCAAGAGTTAAGAGTTAGGGTTTAGGGTTTAAATTAATTAGTTT
1 TTAGGGGTTAGGGATTAGAGGTC-AGAGTTAAGAGTTAGGGTTTAGGATTTAAATTAATTAGTGT
*
10955197 GTTTTAATTTATATATTAAATAATGT
65 GTTTTAATTTATATATTAAATAAGGT
* * * *
10955223 TTAGGGGTTAGGGATTTGGGGTC-GAGTT-AGGGTTAGGGTTTAGGATTTAGATTAATTAGTGT-
1 TTAGGGGTTAGGGATTAGAGGTCAGAGTTAAGAGTTAGGGTTTAGGATTTAAATTAATTAGTGTG
10955285 TTTTAATTTATATATTAAATAAGGT
66 TTTTAATTTATATATTAAATAAGGT
10955310 TTAGGG
1 TTAGGG
10955316 ATAAGTTGCT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
87 30 0.35
88 30 0.35
89 5 0.06
91 20 0.24
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.42
Consensus pattern (90 bp):
TTAGGGGTTAGGGATTAGAGGTCAGAGTTAAGAGTTAGGGTTTAGGATTTAAATTAATTAGTGTG
TTTTAATTTATATATTAAATAAGGT
Found at i:10955542 original size:26 final size:26
Alignment explanation
Indices: 10955484--10955536 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
10955474 ATTATTAATT
10955484 TAAAATTAATATGCAATATACAAGAA
1 TAAAATTAATATGCAATATACAAGAA
*
10955510 TAAAATTGATATGCAATATACAAGAA
1 TAAAATTAATATGCAATATACAAGAA
10955536 T
1 T
10955537 TTAATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (26 bp):
TAAAATTAATATGCAATATACAAGAA
Found at i:10957289 original size:19 final size:19
Alignment explanation
Indices: 10957265--10957311 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
10957255 ATGGAATCTG
10957265 TTATAAATTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
*
10957284 TTATAAACTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
10957303 TTATAAATT
1 TTATAAATT
10957312 TTGGTTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATAAATTAGAATGCCTA
Found at i:10957742 original size:8 final size:8
Alignment explanation
Indices: 10957729--10957753 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10957719 TATATCCCCT
10957729 TGGTTAAA
1 TGGTTAAA
10957737 TGGTTAAA
1 TGGTTAAA
10957745 TGGTTAAA
1 TGGTTAAA
10957753 T
1 T
10957754 TTTTTTCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TGGTTAAA
Found at i:10960765 original size:43 final size:43
Alignment explanation
Indices: 10960643--10960882 Score: 270
Period size: 43 Copynumber: 5.6 Consensus size: 43
10960633 TAATTTATTT
* * * * * *
10960643 TAAAGATTAT-GTTTTTAGCGGCGTTTTTGCGAGAAGCGCCAC
1 TAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * **
10960685 AAAAGGT-TTGTTCTTTAGCGGCGTCTGTGAAAAAAGCGCCGC
1 TAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
10960727 TAAAGATCATGGTCTATAGCAGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
10960770 TAAAGGA-CATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAA-GATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * **
10960813 TAAAGGTCATGGTCTTTTGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
10960856 TAAAGGTCATGGTCTTTAGCGGCGTTT
1 TAAAGATCATGGTCTTTAGCGGCGTTT
10960883 ATTTCTAAAA
Statistics
Matches: 167, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 35 0.21
43 129 0.77
44 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:10961354 original size:25 final size:26
Alignment explanation
Indices: 10961326--10961378 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
10961316 AAAATTAAAA
*
10961326 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTTATTTCATTTCTT
* *
10961351 ATTTTTGTATTTTTATTTTATTTCTT
1 ATTTTAGTATTTTTATTTCATTTCTT
10961377 AT
1 AT
10961379 AATTTGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (26 bp):
ATTTTAGTATTTTTATTTCATTTCTT
Found at i:10961874 original size:15 final size:15
Alignment explanation
Indices: 10961839--10961876 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
10961829 AACCCTTAAT
10961839 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
10961853 T-AATCCATAATCCC
1 TAAATCCATAATCCC
10961867 TAAATCCATA
1 TAAATCCATA
10961877 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:10962138 original size:22 final size:22
Alignment explanation
Indices: 10962060--10962150 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 22
10962050 CCCTAACTCG
10962060 ACCCCTGAAACCTTAAA-CCCTA
1 ACCCCT-AAACCTTAAACCCCTA
** *
10962082 AATCCTTAACTCTT-AACCCCTA
1 ACCCCTAAAC-CTTAAACCCCTA
**** *
10962104 ATGTATAACCCTTAAACCCCTA
1 ACCCCTAAACCTTAAACCCCTA
*
10962126 ACCCCTAAACCTTAAATCCC-A
1 ACCCCTAAACCTTAAACCCCTA
10962147 ACCC
1 ACCC
10962151 TTAATTAAAT
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
21 13 0.25
22 38 0.75
ACGTcount: A:0.35, C:0.40, G:0.02, T:0.23
Consensus pattern (22 bp):
ACCCCTAAACCTTAAACCCCTA
Found at i:10962191 original size:15 final size:14
Alignment explanation
Indices: 10962156--10962193 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
10962146 AACCCTTAAT
10962156 TAAAT-CATAATCC
1 TAAATCCATAATCC
*
10962169 TTAATCCATAATCCC
1 TAAATCCATAAT-CC
10962184 TAAATCCATA
1 TAAATCCATA
10962194 TATACTCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 6 0.29
15 11 0.52
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATCCATAATCC
Found at i:10962524 original size:16 final size:15
Alignment explanation
Indices: 10962486--10962540 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
10962476 TTTTCTGAAG
10962486 ATTTTAAAT-ATTCA
1 ATTTTAAATAATTCA
**
10962500 ATTAGAAATAAGTTCA
1 ATTTTAAATAA-TTCA
10962516 ATTTTAAATAATT-A
1 ATTTTAAATAATTCA
*
10962530 A-TATAAATAAT
1 ATTTTAAATAAT
10962541 AAACCAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 9 0.26
14 9 0.26
15 3 0.09
16 13 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (15 bp):
ATTTTAAATAATTCA
Found at i:10962676 original size:41 final size:41
Alignment explanation
Indices: 10962567--10962937 Score: 333
Period size: 41 Copynumber: 9.1 Consensus size: 41
10962557 AATATTTTTT
* * *
10962567 GCGGCGCTTT-AAAAAGAACGACTCTAAAAACCC-GAGCA-TA
1 GCGGCGCTTTCACAAA-AACGCCGCT-AAAACCCAGAGCATTA
* * * *** * *
10962607 GTGGCGCTTTCTCAAAAATGCTATTAAAACCCCGACCATTA
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
* *
10962648 GCGGCGCTTTTTA-GAAAACGCCGCTAAAACCTC-GAGCATTA
1 GCGGCGC-TTTCACAAAAACGCCGCTAAAACC-CAGAGCATTA
* * * * *
10962689 GTGGCGCTTCTTA-AAAAATGCTGCTAAAACCTAGAGCATTA
1 GCGGCGCTT-TCACAAAAACGCCGCTAAAACCCAGAGCATTA
* *
10962730 GCAGCGCTTTAACAAAAACGCCGCTAAAACCCAGAGCATTA
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
** * * **
10962771 GCGATGCTTCCACAAAAACGCCGCTTAAACCTTGAGCATTA
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
10962812 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
* * * *
10962853 GCTGTGCTTCCACAAAAACGCCGTTAAAACCCAGAGCATTA
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
* * * *
10962894 GCGGCGCTTT-ATCAAAAACACCGCTAAAACTCTGATCATTA
1 GCGGCGCTTTCA-CAAAAACGCCGCTAAAACCCAGAGCATTA
10962935 GCG
1 GCG
10962938 ACACTAATCC
Statistics
Matches: 267, Mismatches: 55, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
39 7 0.03
40 22 0.08
41 234 0.88
42 4 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTA
Done.