Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 34 of 328
Found at i:9840141 original size:40 final size:40
Alignment explanation
Indices: 9840104--9840367 Score: 326
Period size: 40 Copynumber: 6.7 Consensus size: 40
9840094 GCTACTCGTT
* *
9840104 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
9840144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
9840184 CCAATGCCTTCGAG-CTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
9840223 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
9840262 CAAATGCCTTC-GGATCTTAGTCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAACTCGCA
* * *
9840302 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
9840343 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9840368 CATCATTCGA
Statistics
Matches: 202, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 71 0.35
40 117 0.58
41 12 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:9840207 original size:79 final size:80
Alignment explanation
Indices: 9840106--9840367 Score: 329
Period size: 79 Copynumber: 3.3 Consensus size: 80
9840096 TACTCGTTCA
* * * *
9840106 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGAGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
9840170 TTTAGTAACTCGCACC
65 TTTAGTAACTCGCACC
* *
9840186 AATGCCTTCGAG-CTTAGCCCGGAATTAGTAACTTGCACAAATGCCTTCGGG-CTTAGCCCGGAA
1 AATGCCTTCGAGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
9840249 TTAGTAACTCGCACA
66 TTAGTAACTCGCACC
* *
9840264 AATGCCTTCG-GATCTTAGTCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGAGA-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
9840327 ATATAGTCACTTAGCA-C
64 ATTTAGTAAC-TCGCACC
*
9840344 AAAGCCTTCGAGACTTAGCCCGGA
1 AATGCCTTCGAGACTTAGCCCGGA
9840368 CATCATTCGA
Statistics
Matches: 158, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 36 0.23
79 68 0.43
80 47 0.30
81 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGAGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCACC
Found at i:9848266 original size:40 final size:40
Alignment explanation
Indices: 9848229--9848492 Score: 344
Period size: 40 Copynumber: 6.7 Consensus size: 40
9848219 GCTACTCGTT
* *
9848229 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
9848269 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
9848309 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
9848348 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
9848387 CAAATGCCTTC-GGATCTTAGTCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAACTCGCA
* * *
9848427 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
9848468 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9848493 CATCATTCGA
Statistics
Matches: 205, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 72 0.35
40 118 0.58
41 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:9848340 original size:79 final size:80
Alignment explanation
Indices: 9848231--9848492 Score: 338
Period size: 79 Copynumber: 3.3 Consensus size: 80
9848221 TACTCGTTCA
* * *
9848231 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
9848295 TTTAGTAACTCGCACC
65 TTTAGTAACTCGCACC
* *
9848311 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCACAAATGCCTTCGGG-CTTAGCCCGGAA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
9848374 TTAGTAACTCGCACA
66 TTAGTAACTCGCACC
* *
9848389 AATGCCTTC-GGATCTTAGTCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGA-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
9848452 ATATAGTCACTTAGCA-C
64 ATTTAGTAAC-TCGCACC
*
9848469 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
9848493 CATCATTCGA
Statistics
Matches: 159, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
77 2 0.01
78 35 0.22
79 68 0.43
80 47 0.30
81 7 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCACC
Found at i:9853632 original size:27 final size:25
Alignment explanation
Indices: 9853579--9853738 Score: 85
Period size: 25 Copynumber: 6.4 Consensus size: 25
9853569 TTCATATTCG
* *
9853579 GGGAATGCTCATATGA-CCACATAAAC
1 GGGAA-GCTCATCTGAGCCATAT-AAC
*
9853605 GGGAAGCTCTCTCTCGAGCCATATAAC
1 GGGAAGCTC-ATCT-GAGCCATATAAC
* * *
9853632 GAGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATCTGAGCCATATAAC
** * * **
9853657 GGGAAGCTTGTTTGGGCTGTATAAC
1 GGGAAGCTCATCTGAGCCATATAAC
* *
9853682 GAGAAGCTCAT-TAGAGCCATA-ATC
1 GGGAAGCTCATCT-GAGCCATATAAC
* *
9853706 AGGAAGCTCATGTGAGCCA-ATAAC
1 GGGAAGCTCATCTGAGCCATATAAC
* *
9853730 AGGTAGCTC
1 GGGAAGCTC
9853739 CGAAGAGCTA
Statistics
Matches: 102, Mismatches: 26, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
23 1 0.01
24 28 0.27
25 46 0.45
26 9 0.09
27 13 0.13
28 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (25 bp):
GGGAAGCTCATCTGAGCCATATAAC
Found at i:9853656 original size:25 final size:25
Alignment explanation
Indices: 9853620--9853729 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 25
9853610 GCTCTCTCTC
9853620 GAGCCATATAACGAGAAGCTCATGT
1 GAGCCATATAACGAGAAGCTCATGT
* * ** *
9853645 GAGCCATGTAACGGGAAGCTTGTTT
1 GAGCCATATAACGAGAAGCTCATGT
* **
9853670 GGGCTGTATAACGAGAAGCTCAT-T
1 GAGCCATATAACGAGAAGCTCATGT
*
9853694 AGAGCCATA-ATC-AGGAAGCTCATGT
1 -GAGCCATATAACGA-GAAGCTCATGT
9853719 GAGCCA-ATAAC
1 GAGCCATATAAC
9853730 AGGTAGCTCC
Statistics
Matches: 64, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
23 2 0.03
24 20 0.31
25 42 0.66
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACGAGAAGCTCATGT
Found at i:9853713 original size:24 final size:24
Alignment explanation
Indices: 9853684--9853738 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
9853674 TGTATAACGA
9853684 GAAGCTCAT-TAGAGCC-ATAATCAG
1 GAAGCTCATGT-GAGCCAATAA-CAG
9853708 GAAGCTCATGTGAGCCAATAACAG
1 GAAGCTCATGTGAGCCAATAACAG
*
9853732 GTAGCTC
1 GAAGCTC
9853739 CGAAGAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
GAAGCTCATGTGAGCCAATAACAG
Found at i:9856683 original size:93 final size:93
Alignment explanation
Indices: 9856510--9856895 Score: 355
Period size: 93 Copynumber: 4.2 Consensus size: 93
9856500 ACATCACTTA
** ** * ** *
9856510 CTATTAAACTTACCGAGCAGTTTACCTTTTAGG-GTGTCTATTTTATAACTTTTGAATTTTGCTA
1 CTATTAAACTTAGTGAATAGTTTACCTCTT-GGAGTGTCTGCTTTATAACTTGTGAATTTTGCTA
* * *
9856574 AGCGCCTTGAGTGGCTAGTAGTTCATCTG
65 AGCGCCTTAAGAGGCTAGCAGTTCATCTG
* * * *
9856603 CTATTAAACATAGTGAATAGTTTATCTCTTGGAGTGTCTGTTTTATAACTTGTGAATTTTGCTGA
1 CTATTAAACTTAGTGAATAGTTTACCTCTTGGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAA
* * *
9856668 GCGTCTTAAAAGGCTAGCAGTTTATCTG
66 GCGCCTTAAGAGGCTAGCAGTTCATCTG
** * * * * * * *
9856696 CTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGCTTTATAACATATGAA-TTTGTCTA
1 CTATTAAACTTAGTGAATAGTTTACCTCTTGGAGTGTCTGCTTTATAACTTGTGAATTTTG-CTA
* * * *
9856760 AGTGCCTTAAGAGGATAGCAATTCATCTA
65 AGCGCCTTAAGAGGCTAGCAGTTCATCTG
* * * *
9856789 CTATTAAACTTAGTGACTAGTTTACCTCCTAGG-GTGTTTGCTTTATAACTTGTGAATTTTTCTA
1 CTATTAAACTTAGTGAATAGTTTACCT-CTTGGAGTGTCTGCTTTATAACTTGTGAATTTTGCTA
* * ** * *
9856853 AGTGCCTTAACAGTTTAGTAGTTCATTTG
65 AGCGCCTTAAGAGGCTAGCAGTTCATCTG
9856882 CTATTAAACTTAGT
1 CTATTAAACTTAGT
9856896 CACATGATAG
Statistics
Matches: 234, Mismatches: 55, Indels: 8
0.79 0.19 0.03
Matches are distributed among these distances:
92 6 0.03
93 223 0.95
94 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (93 bp):
CTATTAAACTTAGTGAATAGTTTACCTCTTGGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAA
GCGCCTTAAGAGGCTAGCAGTTCATCTG
Found at i:9856893 original size:186 final size:186
Alignment explanation
Indices: 9856551--9856895 Score: 415
Period size: 186 Copynumber: 1.9 Consensus size: 186
9856541 GGGTGTCTAT
* * * * * * * *
9856551 TTTATAACTTTTGAATTTTGCTAAGCGCCTTGAGTGGCTAGTAGTTCATCTGCTATTAAACATAG
1 TTTATAACATATGAATTTTGCTAAGCGCCTTAAGAGGATAGCAATTCATCTACTATTAAACATAG
* * * * *
9856616 TGAATAGTTTATCTCTTGGAGTGTCTGTTTTATAACTTGTGAATTTTGCTGAGCGTCTTAAAAGG
66 TGAATAGTTTACCTCTAGGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAAGCGCCTTAAAAGG
*
9856681 CTAGCAGTTTATCTGCTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGC
131 CTAGCAGTTCATCTGCTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGC
* *
9856737 TTTATAACATATGAA-TTTGTCTAAGTGCCTTAAGAGGATAGCAATTCATCTACTATTAAACTTA
1 TTTATAACATATGAATTTTG-CTAAGCGCCTTAAGAGGATAGCAATTCATCTACTATTAAACATA
* * * * *
9856801 GTGACTAGTTTACCTCCTAGG-GTGTTTGCTTTATAACTTGTGAATTTTTCTAAGTGCCTTAACA
65 GTGAATAGTTTACCT-CTAGGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAAGCGCCTTAAAA
** * * **
9856865 GTTTAGTAGTTCATTTGCTATTAAACTTAGT
129 GGCTAGCAGTTCATCTGCTAGCAAACTTAGT
9856896 CACATGATAG
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
185 4 0.03
186 122 0.94
187 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (186 bp):
TTTATAACATATGAATTTTGCTAAGCGCCTTAAGAGGATAGCAATTCATCTACTATTAAACATAG
TGAATAGTTTACCTCTAGGAGTGTCTGCTTTATAACTTGTGAATTTTGCTAAGCGCCTTAAAAGG
CTAGCAGTTCATCTGCTAGCAAACTTAGTGAGTAATTTACCTTTTGAAATGTCTGC
Found at i:9858953 original size:59 final size:59
Alignment explanation
Indices: 9858879--9859012 Score: 214
Period size: 59 Copynumber: 2.3 Consensus size: 59
9858869 AAATTATGGA
* *
9858879 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGATTTTTAAAATTGGTCAAT
1 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
* * *
9858938 TTTAGTCATTGTACTTAATTTGATCAATTTTGGCCCTTGGACTTTTAAAATTGATCAAT
1 TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
*
9858997 TTTAGTCCTTATACTT
1 TTTAGTCATTATACTT
9859013 TTCAAAATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (59 bp):
TTTAGTCATTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGATCAAT
Found at i:9858966 original size:28 final size:28
Alignment explanation
Indices: 9858879--9858968 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
9858869 AAATTATGGA
*
9858879 TTTAGTCATTATACTTAATTTGATCAAT
1 TTTAGTCATTGTACTTAATTTGATCAAT
* * * ** * *
9858907 TGTAGCCCTTGGATTTTTAAAATTGGTCAAT
1 TTTAGTCATT-G-TACTT-AATTTGATCAAT
9858938 TTTAGTCATTGTACTTAATTTGATCAAT
1 TTTAGTCATTGTACTTAATTTGATCAAT
9858966 TTT
1 TTT
9858969 GGCCCTTGGA
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
28 20 0.45
29 3 0.07
30 4 0.09
31 17 0.39
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (28 bp):
TTTAGTCATTGTACTTAATTTGATCAAT
Found at i:9858995 original size:31 final size:31
Alignment explanation
Indices: 9858898--9859036 Score: 124
Period size: 31 Copynumber: 4.6 Consensus size: 31
9858888 TATACTTAAT
* *
9858898 TTGATCAATTGTAGCCCTTGGATTTTTAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
* * * * *
9858929 TTGGTCAATTTTAGTCATTGTAC--TT-AAT
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
*
9858957 TTGATCAATTTTGGCCCTTGGACTTTTAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTTAAAA
* **
9858988 TTGATCAATTTTAGTCCTTATACTTTTCAAAA
1 TTGATCAATTTTAGCCCTTGGACTTTT-AAAA
* *
9859020 TTTA-AAATTTTAGCCCT
1 TTGATCAATTTTAGCCCT
9859037 GACCGAAACA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
28 20 0.24
29 2 0.02
30 2 0.02
31 53 0.63
32 7 0.08
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.45
Consensus pattern (31 bp):
TTGATCAATTTTAGCCCTTGGACTTTTAAAA
Found at i:9862822 original size:3 final size:3
Alignment explanation
Indices: 9862814--9862841 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9862804 AATTCTCCAT
9862814 CAC CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC C
9862842 TCCTCCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:9863280 original size:6 final size:6
Alignment explanation
Indices: 9863269--9863294 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9863259 AGGTGGAGCA
9863269 CCACCT CCACCT CCACCT CCACCT CC
1 CCACCT CCACCT CCACCT CCACCT CC
9863295 TGGAGGCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (6 bp):
CCACCT
Found at i:9863323 original size:36 final size:36
Alignment explanation
Indices: 9863278--9863364 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
9863268 ACCACCTCCA
9863278 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
1 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
*
9863314 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCTAGGC
1 CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
9863350 CCTCCACCTCCACCT
1 CCTCCACCTCCACCT
9863365 AGAGCTCCCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.14, C:0.52, G:0.18, T:0.16
Consensus pattern (36 bp):
CCTCCACCTCCACCTCCTGGAGGCCGAGCTCCAGGC
Found at i:9871942 original size:7 final size:8
Alignment explanation
Indices: 9871922--9871948 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9871912 TATAAACTAT
9871922 TAAAAAGG
1 TAAAAAGG
9871930 TAAAAAGG
1 TAAAAAGG
9871938 TAAAAAGG
1 TAAAAAGG
9871946 TAA
1 TAA
9871949 TTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (8 bp):
TAAAAAGG
Found at i:9875950 original size:15 final size:15
Alignment explanation
Indices: 9875923--9875956 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9875913 AAATAAAATA
9875923 AAATAAGTAATGTAT
1 AAATAAGTAATGTAT
9875938 GAAATAA-TAATGTAT
1 -AAATAAGTAATGTAT
9875953 AAAT
1 AAAT
9875957 GAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAATAAGTAATGTAT
Found at i:9876927 original size:18 final size:18
Alignment explanation
Indices: 9876895--9876929 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9876885 CGTGGATTCG
* *
9876895 AATGAAAAGGGAGAAAAA
1 AATGAAAAAGAAGAAAAA
9876913 AATGAAAAAGAAGAAAA
1 AATGAAAAAGAAGAAAA
9876930 CGGAATAAAA
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:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (18 bp):
AATGAAAAAGAAGAAAAA
Found at i:9877868 original size:177 final size:178
Alignment explanation
Indices: 9877658--9878142 Score: 581
Period size: 177 Copynumber: 2.7 Consensus size: 178
9877648 GGAAATATGG
* *
9877658 CTGGTGACTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCAATCTGCTC
1 CTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
* *
9877723 TACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCC-TTGCTA-TCTCAGGAAGA
66 TACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCCACTGCAACT-TCAGGAAGA
* *
9877786 TAAGACTTGTATCTTCAACCTACTCTC-TTGCTACTTCA-GAGAGATAAGA
130 TAAGACTTGTATCTTCAACCTACTC-CACTGCAACTTCAGGA-AGATAAGA
* * * * * *
9877835 CTGGTGGCTAAAATTTACCCCATTGCCGATACATGGAGATAAGATTCACCGTCTTTGATCTGTTC
1 CTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
* * ** * * * *
9877900 CACTACTGCTTAGGGAGATAAGATCCATAATCTTCAGTCTGC-TCCACTGCAACTTTAGGGAGAT
66 TACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCCACTGCAACTTCAGGAAGAT
* * *
9877964 AAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAGGAAGATAAGG
131 AAGACTTGTATCTTCAACCTACTCCACTGCAACTTCAGGAAGATAAGA
* * **
9878012 CTAGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATT-TGTCGTCTTCGATCTGCT
1 CTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACT-GTCTTCGATCTGCT
* * * * *
9878076 CTACTACTT-CTTAGGGAGATAAAATCTGCAATTTTCAGTCTAC-TCCAGTGTAACTTCAGGGAG
65 CTACTA-TTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCCACTGCAACTTCAGGAAG
9878139 ATAA
129 ATAA
9878143 AGCTGGTGGC
Statistics
Matches: 258, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
176 4 0.02
177 250 0.97
178 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (178 bp):
CTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACTGTCTTCGATCTGCTC
TACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTACTTCCACTGCAACTTCAGGAAGAT
AAGACTTGTATCTTCAACCTACTCCACTGCAACTTCAGGAAGATAAGA
Found at i:9877967 original size:45 final size:44
Alignment explanation
Indices: 9877909--9878010 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
9877899 CCACTACTGC
**
9877909 TTAGGGAGATAAGATCCAT-AATCTTCAGTCTGCTCCACTGCAACT
1 TTAGGGAGATAAGA--CATGAATCTTCAACCTGCTCCACTGCAACT
* * *
9877954 TTAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACT
1 TTAGGGAGATAAGACATGAATCTTCAACCTGCTCCACTGCAACT
* *
9877998 TCAGGAAGATAAG
1 TTAGGGAGATAAG
9878011 GCTAGTGGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.04
44 33 0.67
45 14 0.29
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TTAGGGAGATAAGACATGAATCTTCAACCTGCTCCACTGCAACT
Found at i:9878030 original size:44 final size:44
Alignment explanation
Indices: 9877937--9878033 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
9877927 TAATCTTCAG
* * * * *
9877937 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTAGCTTAAA
* * *
9877981 CCTGCTCCACTGCAACTTCAGGAAGATAAGGCTAGTGGCTTAAA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTAGCTTAAA
9878025 TCTGCTCCA
1 TCTGCTCCA
9878034 TTGCCGATAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTAGCTTAAA
Found at i:9878122 original size:133 final size:133
Alignment explanation
Indices: 9877985--9878274 Score: 415
Period size: 133 Copynumber: 2.2 Consensus size: 133
9877975 CTTGAACCTG
* * * *
9877985 CTCCACTGCAACTTCAGGAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGA-TACATGGA
1 CTCCACTGTAACTTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTCCATAGCC-ACTACATGGA
* * *
9878049 GATAAGATTTG-TCGTCTTCGATCTGC-TCTACTACTTCTTAGGGAGATAAAATCTGCAATTTTC
65 GATAAGATTTGCT-GTCTTCGATCTACTTC-ACTACTGCTTAAGGAGATAAAATCTGCAATTTTC
9878112 AGTCTA
128 AGTCTA
* * *
9878118 CTCCAGTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATAGCCACTACATGGAG
1 CTCCACTGTAACTTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTCCATAGCCACTACATGGAG
*
9878183 ATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGT
66 ATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAAATCTGCAATTTTCAGT
*
9878248 CTG
131 CTA
*
9878251 CTCCACTGTAACTTTAGGGAGATA
1 CTCCACTGTAACTTCAGGGAGATA
9878275 CGACTTGTAT
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
132 1 0.01
133 136 0.97
134 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (133 bp):
CTCCACTGTAACTTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTCCATAGCCACTACATGGAG
ATAAGATTTGCTGTCTTCGATCTACTTCACTACTGCTTAAGGAGATAAAATCTGCAATTTTCAGT
CTA
Found at i:9878229 original size:177 final size:176
Alignment explanation
Indices: 9878086--9878423 Score: 419
Period size: 177 Copynumber: 1.9 Consensus size: 176
9878076 CTACTACTTC
* ** * * *
9878086 TTAGGGAGATAAAA-TCTGCAATTTTCAGTCTACTCCAGTGTAACTTCAGGGAGATAAAGCTGGT
1 TTAGGGAGATAAAACT-TG-AATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAAGCTGGT
** *
9878150 GGCTTAAATCTGC-TCTATAGCCACTACATGGAGATAAGATTTGCTGTCTTCGATCTACTTCACT
64 GGCTTAAATCTGCTTC-ATAGCCACTACATGGAGATAAGATTTGCCCTCTTCGATCTACTCCACT
* *
9878214 ACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGTAACT
128 ACTACTTAAGGAGATAAGATCTGCAATCTTCAGTCTGCTCCAC-GTAACT
** * * * *
9878264 TTAGGGAGATACGACTTGTATCTTGAACCTACTCCACTGCAACTTCAAGGAGATAAGGCTTGTGG
1 TTAGGGAGATAAAACTTGAATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAAGCTGGTGG
* * * *
9878329 CTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTTGCCCTCTTCGATCTGCTCCACTATT
66 CTTAAATCTGCTTCATAGCCACTACATGGAGATAAGATTTGCCCTCTTCGATCTACTCCACTACT
* *
9878394 ACTTAGGGAGATAAGATCTGCAATCATCAG
131 ACTTAAGGAGATAAGATCTGCAATCTTCAG
9878424 CCAGTTCTAC
Statistics
Matches: 135, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
177 118 0.87
178 16 0.12
179 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (176 bp):
TTAGGGAGATAAAACTTGAATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAAGCTGGTGG
CTTAAATCTGCTTCATAGCCACTACATGGAGATAAGATTTGCCCTCTTCGATCTACTCCACTACT
ACTTAAGGAGATAAGATCTGCAATCTTCAGTCTGCTCCACGTAACT
Found at i:9878316 original size:133 final size:133
Alignment explanation
Indices: 9877985--9878320 Score: 340
Period size: 133 Copynumber: 2.5 Consensus size: 133
9877975 CTTGAACCTG
* * * * * * * * * *
9877985 CTCCACTGCAACTTCAGGAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGA-TACATGGA
1 CTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCATAG-CAACTACAAGGA
* * *
9878049 GATAAGATTTGTCGTCTTCGATCTGCTCTACTACTTCTTAGGGAGATAAAATCTGCAATTTTCAG
65 GATAAGATTTGTCGTCTTCGATCTACTCTACTACTGCTTAAGGAGATAAAATCTGCAATTTTCAG
9878114 TCTA
130 TCTA
* * * * * * *
9878118 CTCCAGTGTAACTTCAGGGAGATAAAGCTGGTGGCTTAAATCTGCTCTATAGCCACTACATGGAG
1 CTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCATAGCAACTACAAGGAG
*
9878183 ATAAGATTTG-CTGTCTTCGATCTACT-TCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCA
66 ATAAGATTTGTC-GTCTTCGATCTACTCT-ACTACTGCTTAAGGAGATAAAATCTGCAATTTTCA
*
9878246 GTCTG
129 GTCTA
* * * * * *
9878251 CTCCACTGTAACTTTAGGGAGAT-ACGACTTGTATCTTGAACCTACTCCACT-GCAACTTCAAGG
1 CTCCACTGTAACTTCAGGGAGATAAAG-CTGGTAGCTTAAACCTACTCCA-TAGCAACTACAAGG
9878314 AGATAAG
64 AGATAAG
9878321 GCTTGTGGCT
Statistics
Matches: 172, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
132 6 0.03
133 165 0.96
134 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (133 bp):
CTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAACCTACTCCATAGCAACTACAAGGAG
ATAAGATTTGTCGTCTTCGATCTACTCTACTACTGCTTAAGGAGATAAAATCTGCAATTTTCAGT
CTA
Found at i:9878453 original size:132 final size:130
Alignment explanation
Indices: 9878312--9878813 Score: 632
Period size: 132 Copynumber: 3.8 Consensus size: 130
9878302 GCAACTTCAA
* * * * *
9878312 GGAGATAAGGCTTGTGGCTTAAATCTGCTTCATTGCC-GCTACAT-GG-AGATAAGATTTGCCCT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTC----CCTACTACCTGGGAAGATAAGATTCGCCAT
* * *
9878374 CTTCGATCTGCTCCACTATTACTTAGGGAGATAAGATCTGCAATCATCAGCCAGTTCTACTACTG
62 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTGTTC-ACTACTG
9878439 CTTAG
126 CTTAG
* *
9878444 GAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCGCCATCTT
* * * * * * * *
9878509 CGATTTGCTTCACTACTGCTTAGAGAGATAATATCTACAATCATCAGTCTGCTCCACTGCTGCTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTG-TTCACTACTGCTT
9878574 AG
129 AG
* * *
9878576 GGAGATAAGGCTAGTGGTTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCGCCATCTT
* * *
9878641 CGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTGCTTCACTACTGCTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTG-TTCACTACTGCTT
9878706 AG
129 AG
* * * *
9878708 GGAGATAAGACTAGTAGTTTAAATCTGCTTTCCTACTACCTTGGGAAGATAAGATTCGCCATCTT
1 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC-TGGGAAGATAAGATTCGCCATCTT
*
9878773 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAAT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
9878814 TTTTACCGGT
Statistics
Matches: 324, Mismatches: 40, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
128 2 0.01
129 5 0.02
131 2 0.01
132 312 0.96
133 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (130 bp):
GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGAAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCCTGTTCACTACTGCTTAG
Found at i:9878670 original size:44 final size:45
Alignment explanation
Indices: 9878465--9878806 Score: 187
Period size: 44 Copynumber: 7.8 Consensus size: 45
9878455 TAGTGGCTTA
* * * * *
9878465 AATCTGCTTCC-CTACTACCTCGGGAAGATAAGATTCGCCGTCTTC
1 AATCTGCTTCCACTACTGCTTAGGG-AGATAAGATTCACCATCTTC
* * * * * *
9878510 GATTTGCTT-CACTACTGCTTAGAGAGATAATA-TCTACAATCATC
1 AATCTGCTTCCACTACTGCTTAGGGAGATAAGATTC-ACCATCTTC
* * ** *** *
9878554 AGTCTGC-TCCACTGCTGCTTAGGGAGATAAGGCT-AGTGGT-TTA
1 AATCTGCTTCCACTACTGCTTAGGGAGATAAGATTCA-CCATCTTC
* * * *
9878597 AATCTACTTCC-CTACTACCTCGGGAAGATAAGATTCACCATCTTC
1 AATCTGCTTCCACTACTGCTTAGGG-AGATAAGATTCACCATCTTC
*
9878642 GATCTG-TTCCACTACTGCTTAGGGAGATAAGATCTGCA--ATCTTC
1 AATCTGCTTCCACTACTGCTTAGGGAGATAAGAT-T-CACCATCTTC
* * ** *
9878686 AACCTGCTT-CACTACTGCTTAGGGAGATAAGACT-AGTAGT-TTA
1 AATCTGCTTCCACTACTGCTTAGGGAGATAAGATTCACCA-TCTTC
*
9878729 AATCTGCTTTCCTACTAC--CTT-GGGAAGATAAGATTCGCCATCTTC
1 AATCTGC-TTCC-ACTACTGCTTAGGG-AGATAAGATTCACCATCTTC
* *
9878774 GATCTGC-TCTACTACTGCTTAGGGAGATAAGAT
1 AATCTGCTTCCACTACTGCTTAGGGAGATAAGAT
9878807 CTGCAATTTT
Statistics
Matches: 220, Mismatches: 52, Indels: 51
0.68 0.16 0.16
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 34 0.15
44 123 0.56
45 50 0.23
46 7 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (45 bp):
AATCTGCTTCCACTACTGCTTAGGGAGATAAGATTCACCATCTTC
Found at i:9878714 original size:88 final size:89
Alignment explanation
Indices: 9878356--9878806 Score: 214
Period size: 88 Copynumber: 5.1 Consensus size: 89
9878346 GCCGCTACAT
** * * *
9878356 GGAGATAAGATTTGCCCTCTTCGATCTGCTCCACTATTACTTAGGGAGATAAGATCT-GCAATCA
1 GGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAGCAATCT
* *
9878420 TCAGCCAG-TTCTACTACTGCTTAG
66 TCAACCTGCTTC-ACTACTGCTTAG
* ** **** ** * * * **
9878444 GAAGATAAGGCT-AGTGGCTTAAATCTGCTTCC-CTACTACCTCGGGAAGATAAGAT-TCGCCGT
1 GGAGATAAGATTCACCATCTTCGATCTGC-TCCACTACTACTTAGGG-AGATAAGATCTAGCAAT
* **
9878506 CTTCGATTTGCTTCACTACTGCTTAG
64 CTTCAACCTGCTTCACTACTGCTTAG
* * * * * * * ***
9878532 AGAGATAATA-TCTACAATCATC-AGTCTGCTCCACTGCTGCTTAGGGAGATAAG-GCTAGTGGT
1 GGAGATAAGATTC-ACCATCTTCGA-TCTGCTCCACTACTACTTAGGGAGATAAGATCTAGCAAT
* * * * * * *
9878594 -TTAAATCTACTTCCCTACTACCTCG
64 CTTCAACCTGCTTCACTACTGCTTAG
* *
9878619 GGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCT-GCAATC
1 GG-AGATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAGCAATC
9878683 TTCAACCTGCTTCACTACTGCTTAG
65 TTCAACCTGCTTCACTACTGCTTAG
* ** ** * * *
9878708 GGAGATAAGACT-AGTAGT-TTAAATCTGCTTTC-CTACTACCTT-GGGAAGATAAGAT-TCGCC
1 GGAGATAAGATTCACCA-TCTTCGATCTGC-TCCACTACTA-CTTAGGG-AGATAAGATCTAGCA
* *
9878768 ATCTTCGATCTGC-TCTACTACTGCTTAG
62 ATCTTCAACCTGCTTC-ACTACTGCTTAG
9878796 GGAGATAAGAT
1 GGAGATAAGAT
9878807 CTGCAATTTT
Statistics
Matches: 267, Mismatches: 76, Indels: 40
0.70 0.20 0.10
Matches are distributed among these distances:
87 59 0.22
88 163 0.61
89 45 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
GGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTAGCAATCT
TCAACCTGCTTCACTACTGCTTAG
Found at i:9889161 original size:12 final size:12
Alignment explanation
Indices: 9889144--9889172 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9889134 CTAGCTGCTC
9889144 GAAGAAAAAGAA
1 GAAGAAAAAGAA
9889156 GAAGAAAAAGAA
1 GAAGAAAAAGAA
9889168 GAAGA
1 GAAGA
9889173 GAAGAAATGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAGAA
Found at i:9890542 original size:23 final size:25
Alignment explanation
Indices: 9890516--9890569 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
9890506 ATAGAAGATA
*
9890516 TATAATTTTATTA-TTTT-AAAAAT
1 TATAATTTTATAATTTTTAAAAAAT
*
9890539 TATATTTTTATAATTTTTAAAAAAT
1 TATAATTTTATAATTTTTAAAAAAT
9890564 TA-AATT
1 TATAATT
9890570 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.42
24 7 0.27
25 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAATTTTATAATTTTTAAAAAAT
Found at i:9898808 original size:3 final size:3
Alignment explanation
Indices: 9898802--9898836 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9898792 TAACAATCAT
9898802 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9898837 GGTATTGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9910356 original size:39 final size:40
Alignment explanation
Indices: 9910272--9910356 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
9910262 ACTTAATTCA
* * *
9910272 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9910312 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9910351 TCAGCA
1 CCAGCA
9910357 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:9910543 original size:22 final size:22
Alignment explanation
Indices: 9910518--9910593 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
9910508 CTTTCACATC
9910518 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* * *
9910540 ATCACATATACGCACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
* *
9910564 CATCACATTGACCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
9910587 ATCACAT
1 ATCACAT
9910594 ATACGCACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 18 0.44
23 5 0.12
24 6 0.15
25 12 0.29
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:9910559 original size:25 final size:25
Alignment explanation
Indices: 9910531--9910606 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
9910521 ACATTGGCCA
9910531 TTCAGCCTTATCACATATACGCACT
1 TTCAGCCTTATCACATATACGCACT
*
9910556 TTCA-CATTCATCACAT-TGAC-CA--
1 TTCAGCCTT-ATCACATAT-ACGCACT
*
9910578 TTCGGCCTTATCACATATACGCACT
1 TTCAGCCTTATCACATATACGCACT
9910603 TTCA
1 TTCA
9910607 CATTCATCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
22 12 0.30
23 6 0.15
24 6 0.15
25 16 0.40
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.33
Consensus pattern (25 bp):
TTCAGCCTTATCACATATACGCACT
Found at i:9910578 original size:93 final size:92
Alignment explanation
Indices: 9910427--9910627 Score: 271
Period size: 93 Copynumber: 2.2 Consensus size: 92
9910417 TGCACACTTT
* * *
9910427 TCACAATTGGTCATTCGGCCTTATCACATATTCACTTACACATATATCACATTAACCATTCGGCC
1 TCAC-ATTGGCCATTCAGCCTTATCACATATGCACTTACACATATATCACATTAACCATTCGGCC
* * *
9910492 TTATCTCATGTATGCACTTTCACA-TCA
65 TTATCACATATACGCACTTTCACATTCA
* *
9910519 TCACATTGGCCATTCAGCCTTATCACATATACGCACTTTCACAT-TCATCACATTGACCATTCGG
1 TCACATTGGCCATTCAGCCTTATCACATAT--GCACTTACACATAT-ATCACATTAACCATTCGG
9910583 CCTTATCACATATACGCACTTTCACATTCA
63 CCTTATCACATATACGCACTTTCACATTCA
*
9910613 TCACATTGACCATTC
1 TCACATTGGCCATTC
9910628 GATCTTAAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
91 24 0.25
92 5 0.05
93 50 0.52
94 17 0.18
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (92 bp):
TCACATTGGCCATTCAGCCTTATCACATATGCACTTACACATATATCACATTAACCATTCGGCCT
TATCACATATACGCACTTTCACATTCA
Found at i:9910586 original size:47 final size:47
Alignment explanation
Indices: 9910438--9910628 Score: 273
Period size: 47 Copynumber: 4.1 Consensus size: 47
9910428 CACAATTGGT
* * *
9910438 CATTCGGCCTTATCACATAT--TCACTTACACATAT-ATCACATTAAC
1 CATTCGGCCTTATCACATATACGCACTTTCACAT-TCATCACATTGAC
* * * *
9910483 CATTCGGCCTTATCTCATGTATGCACTTTCACA-TCATCACATTGGC
1 CATTCGGCCTTATCACATATACGCACTTTCACATTCATCACATTGAC
*
9910529 CATTCAGCCTTATCACATATACGCACTTTCACATTCATCACATTGAC
1 CATTCGGCCTTATCACATATACGCACTTTCACATTCATCACATTGAC
9910576 CATTCGGCCTTATCACATATACGCACTTTCACATTCATCACATTGAC
1 CATTCGGCCTTATCACATATACGCACTTTCACATTCATCACATTGAC
9910623 CATTCG
1 CATTCG
9910629 ATCTTAAGCT
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
45 19 0.15
46 38 0.29
47 73 0.56
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CATTCGGCCTTATCACATATACGCACTTTCACATTCATCACATTGAC
Found at i:9911800 original size:2 final size:2
Alignment explanation
Indices: 9911793--9911821 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9911783 TTGCCGAATG
9911793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9911822 TCATCCAAAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9922071 original size:62 final size:62
Alignment explanation
Indices: 9921995--9922191 Score: 349
Period size: 62 Copynumber: 3.2 Consensus size: 62
9921985 AAGTGTCACG
* * * *
9921995 TTAGACATTTTATGAAAGTACAAGTATCAAATAATATACAAATTGATAGTTCAAGTACCATA
1 TTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATCATA
9922057 TTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATCATA
1 TTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATCATA
*
9922119 TTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAATTTGATAGTTCAGGTATCATA
1 TTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATCATA
9922181 TTAGACATTTT
1 TTAGACATTTT
9922192 CGAAGTATTA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 130 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (62 bp):
TTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAAATTGATAGTTCAGGTATCATA
Found at i:9922085 original size:31 final size:31
Alignment explanation
Indices: 9922047--9922147 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
9922037 TTGATAGTTC
9922047 AAGTACCATATTAGACATTTTATGAAAGTAT
1 AAGTACCATATTAGACATTTTATGAAAGTAT
* * ** *
9922078 AAGTACCAAATAATATACA-AAT-TGATAGT-T
1 AAGTACC--ATATTAGACATTTTATGAAAGTAT
* *
9922108 CAGGTATCATATTAGACATTTTATGAAAGTAT
1 -AAGTACCATATTAGACATTTTATGAAAGTAT
9922140 AAGTACCA
1 AAGTACCA
9922148 AATAATATAC
Statistics
Matches: 50, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
29 8 0.16
30 2 0.04
31 30 0.60
32 2 0.04
33 8 0.16
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (31 bp):
AAGTACCATATTAGACATTTTATGAAAGTAT
Found at i:9922698 original size:18 final size:19
Alignment explanation
Indices: 9922675--9922711 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9922665 ATGTTGGAAA
9922675 AAAAATAGA-ATGAAATTT
1 AAAAATAGATATGAAATTT
*
9922693 AAAAATAGATTTGAAATTT
1 AAAAATAGATATGAAATTT
9922712 CAAATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAAATAGATATGAAATTT
Found at i:9922762 original size:15 final size:14
Alignment explanation
Indices: 9922729--9922785 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 14
9922719 TCAAACCCAT
9922729 TATTTAAA-AAAAA
1 TATTTAAATAAAAA
9922742 -ATTTAAATAAAGAA
1 TATTTAAATAAA-AA
**
9922756 TATTTAAATGCAAA
1 TATTTAAATAAAAA
*
9922770 TA-GTAAAT-AAAA
1 TATTTAAATAAAAA
9922782 TATT
1 TATT
9922786 AACATCCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 12 0.34
13 8 0.23
14 6 0.17
15 9 0.26
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (14 bp):
TATTTAAATAAAAA
Found at i:9924387 original size:29 final size:30
Alignment explanation
Indices: 9924337--9924393 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
9924327 TTTTCTCCAT
* *
9924337 TAATTTTTGTTCTTTTTTATAT-TTATTGC
1 TAATTTTTGTTATTTTTAATATGTTATTGC
9924366 TAATTTTT-TTATTTTATAATATGTTATT
1 TAATTTTTGTTATTTT-TAATATGTTATT
9924394 AACATGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 13 0.54
30 5 0.21
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (30 bp):
TAATTTTTGTTATTTTTAATATGTTATTGC
Found at i:9925790 original size:32 final size:32
Alignment explanation
Indices: 9925752--9925814 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
9925742 ATTAATCAAT
*
9925752 ATGAGTTA-TCAAATTAAATTAATTAATTTATC
1 ATGAGTTACT-AAATTAAAGTAATTAATTTATC
*
9925784 ATGAGTTACTAAATTGAAGTAATTAATTTAT
1 ATGAGTTACTAAATTAAAGTAATTAATTTAT
9925815 AAGTTTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (32 bp):
ATGAGTTACTAAATTAAAGTAATTAATTTATC
Found at i:9929505 original size:3 final size:3
Alignment explanation
Indices: 9929497--9929528 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9929487 TTACTTCTTA
9929497 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
9929529 ATTATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9936716 original size:22 final size:23
Alignment explanation
Indices: 9936678--9936730 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
9936668 TTAGATTTTT
*
9936678 TAAAA-TATATTTTTATATAATA
1 TAAAATTATATTTCTATATAATA
*
9936700 TAAAATTATA-TTCTATATTATA
1 TAAAATTATATTTCTATATAATA
9936722 -AAAATTATA
1 TAAAATTATA
9936731 AATTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAATTATATTTCTATATAATA
Found at i:9989789 original size:21 final size:21
Alignment explanation
Indices: 9989765--9989836 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
9989755 CTAAGAACTA
9989765 TGTGATCTAAACTCATTAAGT
1 TGTGATCTAAACTCATTAAGT
* * ** *
9989786 TGTGGTCT-CACT-AGGAACT
1 TGTGATCTAAACTCATTAAGT
9989805 ATGTGATCTAAACTCATTAAGT
1 -TGTGATCTAAACTCATTAAGT
*
9989827 TGTGGTCTAA
1 TGTGATCTAA
9989837 GTTCATGATA
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.11
20 10 0.27
21 19 0.51
22 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (21 bp):
TGTGATCTAAACTCATTAAGT
Found at i:9989809 original size:41 final size:41
Alignment explanation
Indices: 9989752--9989834 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
9989742 AAGTGACATG
9989752 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
1 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
*
9989793 TCACTAGGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
1 TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
9989834 T
1 T
9989835 AAGTTCATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (41 bp):
TCACTAAGAACTATGTGATCTAAACTCATTAAGTTGTGGTC
Found at i:9992392 original size:73 final size:73
Alignment explanation
Indices: 9992306--9992452 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
9992296 TGGGATCATT
* * *
9992306 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTGATGCGGAATTGGAGTTTACCATTAGACA
1 AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
9992371 TGACGAAG
66 TGACGAAG
* *
9992379 AGAATAATATGATTTTCACAAATTTAAGAAATATCTTATGCGGAATTAGAGTTGACCATTAGACT
1 AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
9992444 TGACGAAG
66 TGACGAAG
9992452 A
1 A
9992453 ATGCGAAGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (73 bp):
AGAATAATATGATTTTCACAAATTTAAGAAATATCTGATGCGGAATTAGAGTTGACCATTAGACA
TGACGAAG
Found at i:9995775 original size:2 final size:2
Alignment explanation
Indices: 9995768--9995800 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9995758 TTCATTACCC
9995768 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9995801 ACATAATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9999199 original size:21 final size:21
Alignment explanation
Indices: 9999173--9999230 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
9999163 TTGTTGCTTT
9999173 TTTTTTTTACCATTTTTGC-TG
1 TTTTTTTTACCATTTTT-CTTG
* *
9999194 TTTTTTTAATCA-TTTTCTTG
1 TTTTTTTTACCATTTTTCTTG
*
9999214 TTTTTTTTCACTATTTT
1 TTTTTTTT-ACCATTTT
9999231 GCTATCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 13 0.45
21 12 0.41
22 3 0.10
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTTTTTACCATTTTTCTTG
Found at i:10000583 original size:35 final size:35
Alignment explanation
Indices: 10000464--10000629 Score: 154
Period size: 35 Copynumber: 4.6 Consensus size: 35
10000454 TCCTCATTGA
** * **
10000464 AATACCATACCTATATTTTACAACTCAGTATGGGA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTT
* * **
10000499 AATGCCATTCCTACGTTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGG---T--T
* *
10000538 AATACAATACCTACGTTTCAAAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGTT
* *
10000573 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGTT
*
10000608 GATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
10000630 CTTTTCCATG
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
34 12 0.11
35 66 0.62
37 1 0.01
39 15 0.14
40 12 0.11
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:10002159 original size:14 final size:14
Alignment explanation
Indices: 10002127--10002169 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10002117 ATTGTATATT
*
10002127 TTAAAAAAA-ACTA
1 TTAAAAAAATAATA
*
10002140 TATAAAAAATTAATA
1 T-TAAAAAAATAATA
10002155 TTAAAAAAATAATA
1 TTAAAAAAATAATA
10002169 T
1 T
10002170 GGACGGGTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 20 0.80
15 4 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
TTAAAAAAATAATA
Found at i:10009240 original size:28 final size:28
Alignment explanation
Indices: 10009200--10009256 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10009190 ATAATTAACA
10009200 TGCCTCATTTTATTGGTTATATTTTCTC
1 TGCCTCATTTTATTGGTTATATTTTCTC
10009228 TGCCTCATTTTATTGGTTATATTTTCTC
1 TGCCTCATTTTATTGGTTATATTTTCTC
10009256 T
1 T
10009257 TTCTATTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.18, G:0.11, T:0.58
Consensus pattern (28 bp):
TGCCTCATTTTATTGGTTATATTTTCTC
Found at i:10021933 original size:30 final size:31
Alignment explanation
Indices: 10021859--10021945 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
10021849 GAGAATGTAA
* *
10021859 TGCTCACACAAGCTAACAGTAT-ATTAAGAT
1 TGCTCACACAAGCTGACATTATAATTAAGAT
* *
10021889 TGCTCACACAAGCTGACATTATAATT-GGGT
1 TGCTCACACAAGCTGACATTATAATTAAGAT
*
10021919 TGCTCACACAAGCTGTCATTAT-ATTAA
1 TGCTCACACAAGCTGACATTATAATTAA
10021946 AGTTACTCGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.06
30 43 0.88
31 3 0.06
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (31 bp):
TGCTCACACAAGCTGACATTATAATTAAGAT
Found at i:10022314 original size:5 final size:5
Alignment explanation
Indices: 10022304--10022339 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
10022294 AATAATTAAG
10022304 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
10022340 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:10025208 original size:114 final size:114
Alignment explanation
Indices: 10024979--10025200 Score: 374
Period size: 114 Copynumber: 1.9 Consensus size: 114
10024969 TTAGGGGGTG
* *
10024979 TTACAATACATTTAACTTGAGAATCTGCAACAAATGCTGGATCTCATAATAACATATAAATCCTT
1 TTACAATACATTTAACTTGAGAATCTGCAACAAATGCTAGATCTCATAATAACATATAAATCATT
*
10025044 GATCAAATACGAGTATAACCCTAATGACATGCCATACATATCCAAACCT
66 GATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCAAACCT
* * *
10025093 TTACAATACATTTAACTTGATAATCTGCAACAAATGCTAGTTCTGATAATAACATGA-AAATCAT
1 TTACAATACATTTAACTTGAGAATCTGCAACAAATGCTAGATCTCATAATAACAT-ATAAATCAT
10025157 TGATCAAATACGAGTATAACCCTAATGACATGCCATACACATCC
65 TGATCAAATACGAGTATAACCCTAATGACATGCCATACACATCC
10025201 TATCCTTTTA
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
114 100 0.99
115 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (114 bp):
TTACAATACATTTAACTTGAGAATCTGCAACAAATGCTAGATCTCATAATAACATATAAATCATT
GATCAAATACGAGTATAACCCTAATGACATGCCATACACATCCAAACCT
Found at i:10028023 original size:16 final size:17
Alignment explanation
Indices: 10027991--10028023 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10027981 AATACCTAAT
10027991 TAATATCATGCATTTTG
1 TAATATCATGCATTTTG
*
10028008 TAATATCCTG-ATTTTG
1 TAATATCATGCATTTTG
10028024 GGCCTAGTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (17 bp):
TAATATCATGCATTTTG
Found at i:10029348 original size:46 final size:46
Alignment explanation
Indices: 10029298--10029473 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10029288 TGGTTGAGCA
10029298 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
10029344 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10029389 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
10029437 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10029474 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10029432 original size:93 final size:93
Alignment explanation
Indices: 10029295--10029465 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
10029285 GGATGGTTGA
* *
10029295 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10029360 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
10029388 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
10029453 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
10029466 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:10031413 original size:19 final size:18
Alignment explanation
Indices: 10031378--10031413 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10031368 TCATATAAAC
*
10031378 AGTAACTCATTCGATAAT
1 AGTAACTCATCCGATAAT
10031396 AGTAACTCATCCGTATAA
1 AGTAACTCATCCG-ATAA
10031414 ACAGTACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (18 bp):
AGTAACTCATCCGATAAT
Found at i:10031453 original size:19 final size:19
Alignment explanation
Indices: 10031369--10031454 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
10031359 CACTCTCAAT
* *
10031369 CATATAAACAGTAACTCATT
1 CATAT-AACAGTAATTCATC
* * *
10031389 C-GATAATAGTAACTCATC
1 CATATAACAGTAATTCATC
* *
10031407 CGTATAAACAGTACTTCATC
1 CATAT-AACAGTAATTCATC
*
10031427 TATATAACAGTAATTCATC
1 CATATAACAGTAATTCATC
*
10031446 CATGTAACA
1 CATATAACA
10031455 CATAGCTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
18 13 0.25
19 24 0.46
20 15 0.29
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:10031663 original size:23 final size:23
Alignment explanation
Indices: 10031637--10031713 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 23
10031627 TGCCCTATTA
* *
10031637 AGCTGAAACGGTAAGCTCTGATG
1 AGCTGAAACAGTAAGCTCTGACG
* *
10031660 AGCTGAAAATAGTAAGCTCTTACG
1 AGCTG-AAACAGTAAGCTCTGACG
* *
10031684 AGCTGAAAATAGTAAGCTCTTACG
1 AGCTG-AAACAGTAAGCTCTGACG
*
10031708 AACTGA
1 AGCTGA
10031714 TATATCGGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.12
24 42 0.88
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCTCTGACG
Found at i:10031678 original size:24 final size:24
Alignment explanation
Indices: 10031647--10031713 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
10031637 AGCTGAAACG
*
10031647 GTAAGCTCTGATGAGCTGAAAATA
1 GTAAGCTCTGACGAGCTGAAAATA
*
10031671 GTAAGCTCTTACGAGCTGAAAATA
1 GTAAGCTCTGACGAGCTGAAAATA
* *
10031695 GTAAGCTCTTACGAACTGA
1 GTAAGCTCTGACGAGCTGA
10031714 TATATCGGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTGACGAGCTGAAAATA
Found at i:10033049 original size:9 final size:9
Alignment explanation
Indices: 10033037--10033069 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10033027 GAATTATTCG
10033037 AATCGAGTT
1 AATCGAGTT
10033046 AATCGAGTT
1 AATCGAGTT
*
10033055 AATCGAATT
1 AATCGAGTT
10033064 AATCGA
1 AATCGA
10033070 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:10033070 original size:9 final size:9
Alignment explanation
Indices: 10033037--10033082 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
10033027 GAATTATTCG
*
10033037 AATCGAGTT
1 AATCGAATT
*
10033046 AATCGAGTT
1 AATCGAATT
10033055 AATCGAATT
1 AATCGAATT
*
10033064 AATCGAATC
1 AATCGAATT
10033073 AACTCGAATT
1 AA-TCGAATT
10033083 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:10033474 original size:24 final size:24
Alignment explanation
Indices: 10033445--10033492 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10033435 TTATTCAAAC
10033445 CCCTTACCCCCCATTTCAACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
*
10033469 CCCTTACCCCCCATTTCTACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
10033493 GACGAAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (24 bp):
CCCTTACCCCCCATTTCAACGAAA
Found at i:10042571 original size:13 final size:13
Alignment explanation
Indices: 10042553--10042579 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10042543 TAACTTTCTA
10042553 AAAAATGAAAATG
1 AAAAATGAAAATG
10042566 AAAAATGAAAATG
1 AAAAATGAAAATG
10042579 A
1 A
10042580 CCTGCAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:10044892 original size:17 final size:17
Alignment explanation
Indices: 10044870--10044944 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 17
10044860 CTTTCTCTCT
10044870 TTTTCTTTTTTATTTTA
1 TTTTCTTTTTTATTTTA
*
10044887 TTTTCTTATTTTGTTCTT-
1 TTTTCTT-TTTTATT-TTA
10044905 TCTATTCTTTTTCTATTTTCA
1 T-T-TTCTTTTT-TATTTT-A
*
10044926 -TTTCTTTATTTGTTTTA
1 TTTTCTTT-TTTATTTTA
10044943 TT
1 TT
10044945 ATTTTATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 17
0.70 0.05 0.26
Matches are distributed among these distances:
17 8 0.17
18 19 0.41
19 11 0.24
20 8 0.17
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTTTATTTTA
Found at i:10044960 original size:5 final size:5
Alignment explanation
Indices: 10044952--10044997 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
10044942 ATTATTTTAT
*
10044952 TATAA TATAA TAT-A -ATAA TATAA TACAA TAT-A -ATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10044998 CATTTACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
3 4 0.11
4 4 0.11
5 27 0.77
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
TATAA
Found at i:10044969 original size:8 final size:8
Alignment explanation
Indices: 10044958--10044994 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
10044948 TTATTATAAT
10044958 ATAATATA
1 ATAATATA
10044966 ATAATATA
1 ATAATATA
10044974 ATACAATATA
1 AT--AATATA
10044984 ATAATATA
1 ATAATATA
10044992 ATA
1 ATA
10044995 TAACATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:10044975 original size:18 final size:18
Alignment explanation
Indices: 10044952--10044997 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
10044942 ATTATTTTAT
10044952 TATAATATAATATAATAA
1 TATAATATAATATAATAA
*
10044970 TATAATACAATATAATAA
1 TATAATATAATATAATAA
10044988 TATAATATAA
1 TATAATATAA
10044998 CATTTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAATATAATATAATAA
Found at i:10044997 original size:13 final size:13
Alignment explanation
Indices: 10044953--10044994 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
10044943 TTATTTTATT
10044953 ATAATATAATATA
1 ATAATATAATATA
*
10044966 ATAATATAATACA
1 ATAATATAATATA
10044979 AT-ATAATAATATA
1 ATAAT-ATAATATA
10044992 ATA
1 ATA
10044995 TAACATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:10051529 original size:39 final size:39
Alignment explanation
Indices: 10051450--10051529 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
10051440 CGCTTGAGAG
* * *
10051450 GCAATTGGAGAAGCCATAGTAGGAGACCCATTATTGCGA
1 GCAACTGGAGAAGCCATAGTAGGAGACCCATTACTACGA
10051489 GCAACTGGAGAAGCCATAGTAGGAGACCCATTACTACGA
1 GCAACTGGAGAAGCCATAGTAGGAGACCCATTACTACGA
10051528 GC
1 GC
10051530 TGCATCATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (39 bp):
GCAACTGGAGAAGCCATAGTAGGAGACCCATTACTACGA
Found at i:10054658 original size:15 final size:14
Alignment explanation
Indices: 10054638--10054678 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
10054628 AAATTTCATT
*
10054638 AAAAAAACAAAGACA
1 AAAAAAAAAAAGA-A
10054653 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
10054667 AAGAAAAAAAAA
1 AA-AAAAAAAAA
10054679 CCCCTAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:10060795 original size:24 final size:24
Alignment explanation
Indices: 10060768--10060816 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10060758 GGTTTATTGT
*
10060768 ATTTATCTATTACAATATA-TTAAA
1 ATTTATCT-TTAAAATATATTTAAA
*
10060792 ATTTTTCTTTAAAATATATTTAAA
1 ATTTATCTTTAAAATATATTTAAA
10060816 A
1 A
10060817 AATTGTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTATCTTTAAAATATATTTAAA
Found at i:10061521 original size:15 final size:15
Alignment explanation
Indices: 10061498--10061527 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10061488 TAAAGGTGGC
10061498 TTTTCTGTTCAAAAG
1 TTTTCTGTTCAAAAG
*
10061513 TTTTTTGTTCAAAAG
1 TTTTCTGTTCAAAAG
10061528 ACAAGGGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (15 bp):
TTTTCTGTTCAAAAG
Found at i:10071077 original size:19 final size:21
Alignment explanation
Indices: 10071055--10071095 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
10071045 TTTACTTTCT
*
10071055 TTTTGTATTT-TTT-ACACAA
1 TTTTATATTTATTTAACACAA
10071074 TTTTATATTTATTTAACACAA
1 TTTTATATTTATTTAACACAA
10071095 T
1 T
10071096 CATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATATTTATTTAACACAA
Found at i:10079444 original size:12 final size:12
Alignment explanation
Indices: 10079427--10079460 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10079417 CGGCCTGCTC
10079427 ATATTAATTTTT
1 ATATTAATTTTT
*
10079439 ATATTATTTTTT
1 ATATTAATTTTT
10079451 ATA-TAATTTT
1 ATATTAATTTT
10079461 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:10079620 original size:30 final size:30
Alignment explanation
Indices: 10079584--10079646 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
10079574 ACTTAACTAG
* *
10079584 CAAATGTCTCAAAAATAATAACAAAATTAA
1 CAAATGTATCAAAAATAATAAAAAAATTAA
** *
10079614 CAAATGTATTTAAAATTATAAAAAAATTAA
1 CAAATGTATCAAAAATAATAAAAAAATTAA
10079644 CAA
1 CAA
10079647 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTATCAAAAATAATAAAAAAATTAA
Found at i:10082797 original size:82 final size:82
Alignment explanation
Indices: 10082700--10083030 Score: 343
Period size: 83 Copynumber: 4.0 Consensus size: 82
10082690 AAATGCTGAT
* * * * *
10082700 AAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAACGCAGCT-AAAAATAGAGAAATAGCGGTGTT
1 AAAAACAGAGCAATAGCGGCGTTTTTTG-TAAAACGCCGCTAAAAAACAGAGCAATAG-GGCGCT
* *
10082764 TTTAGTAAAAATGCTGCTA
64 TTTGGTAAAAACGCTGCTA
* * * *
10082783 AAAAA-AGAGCAATAGCGGCATTTTCTGTAAAACGCCGCTAAAAAATAGAGCATTAGAGGCGCTT
1 AAAAACAGAGCAATAGCGGCGTTTTTTGTAAAACGCCGCTAAAAAACAGAGCAATAG-GGCGCTT
10082847 TTGGTAAAACAC-C-GCTAA
65 TTGGTAAAA-ACGCTGCT-A
* * * * *
10082865 AAAAACAGAGCATTAGCGGCGCTTTTAGTAAAACACCGCTAAAAAACAGAGCATTA-GGCGCTTT
1 AAAAACAGAGCAATAGCGGCGTTTTTTGTAAAACGCCGCTAAAAAACAGAGCAATAGGGCGCTTT
* *
10082929 CGGT-AAAACGCCGCTA
66 TGGTAAAAACGCTGCTA
* * * *
10082945 AAAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGTGGCG-TT
1 AAAAACAGAGCAATAGCGGCGTTTTTTGTAAAACGCCGCTAAAAAACAGAGCAATAG-GGCGCTT
*
10083009 TGTGGTCAAAACGCTGCTA
65 T-TGGTAAAAACGCTGCTA
10083028 AAA
1 AAA
10083031 GTCTTATAAC
Statistics
Matches: 212, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
79 2 0.01
80 55 0.26
81 31 0.15
82 61 0.29
83 63 0.30
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (82 bp):
AAAAACAGAGCAATAGCGGCGTTTTTTGTAAAACGCCGCTAAAAAACAGAGCAATAGGGCGCTTT
TGGTAAAAACGCTGCTA
Found at i:10082886 original size:42 final size:41
Alignment explanation
Indices: 10082700--10083030 Score: 323
Period size: 41 Copynumber: 8.1 Consensus size: 41
10082690 AAATGCTGAT
* * *
10082700 AAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAACGCAGCT-
1 AAAAACAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTA
* * * * * * *
10082741 AAAAATAGAGAAATAGCGGTGTTTTTAGTAAAAATGCTGCTA
1 AAAAACAGAGCAATAGCGGCGCTTTTGGT-AAAACGCCGCTA
* *
10082783 AAAAA-AGAGCAATAGCGGC-ATTTTCTGTAAAACGCCGCTA
1 AAAAACAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTA
* * * *
10082823 AAAAATAGAGCATTAGAGGCGCTTTTGGTAAAACACCGCTAA
1 AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCT-A
* * *
10082865 AAAAACAGAGCATTAGCGGCGCTTTTAGTAAAACACCGCTA
1 AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
10082906 AAAAACAGAGCATTA--GGCGCTTTCGGTAAAACGCCGCTA
1 AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
* * *
10082945 AAAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTA
1 AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
* * *
10082986 AAAACCAGAGCAATAGTGGCG-TTTGTGGTCAAAACGCTGCTA
1 AAAAACAGAGCAATAGCGGCGCTTT-TGGT-AAAACGCCGCTA
10083028 AAA
1 AAA
10083031 GTCTTATAAC
Statistics
Matches: 248, Mismatches: 32, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
39 35 0.14
40 28 0.11
41 124 0.50
42 61 0.25
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:10083020 original size:122 final size:119
Alignment explanation
Indices: 10082700--10083030 Score: 378
Period size: 122 Copynumber: 2.7 Consensus size: 119
10082690 AAATGCTGAT
* * * * * * *
10082700 AAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAACGCAGCTAAAAATAGAGAAATAGCGGTGTTT
1 AAAAATAGAGCATTAGCGGCG-TTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCG-TT
* *
10082765 TTAGTAAAAATGCTGCTAAAAAAAGAGCAATAGCGGCATTTTCTGTAAAACGCCGCTA
64 TTAGT-AAAACGCTGCTAAAAAAAGAGCAATAGCGGCA-TTTCGGTAAAACGCCGCTA
* * * *
10082823 AAAAATAGAGCATTAGAGGCGCTTTTGGTAAAACACCGCTAAAAAAACAGAGCATTAGCGGCGCT
1 AAAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCT--AAAAACAGAGCAATAGCGGCG-T
* * *
10082888 TTTAGTAAAACACCGCTAAAAAACAGAGCATTAG-GCGC-TTTCGGTAAAACGCCGCTA
63 TTTAGTAAAACGCTGCTAAAAAA-AGAGCAATAGCG-GCATTTCGGTAAAACGCCGCTA
*
10082945 AAAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGTGGCGTTT
1 AAAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTTT
*
10083010 GTGGTCAAAACGCTGCTAAAA
65 -TAGT-AAAACGCTGCTAAAA
10083031 GTCTTATAAC
Statistics
Matches: 176, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
120 8 0.05
121 17 0.10
122 83 0.47
123 33 0.19
124 35 0.20
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (119 bp):
AAAAATAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTT
AGTAAAACGCTGCTAAAAAAAGAGCAATAGCGGCATTTCGGTAAAACGCCGCTA
Found at i:10083897 original size:16 final size:15
Alignment explanation
Indices: 10083876--10083905 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10083866 AAATAATTTC
10083876 AAATTTTAAAGAATTA
1 AAATTTTAAA-AATTA
10083892 AAATTTTAAAAATT
1 AAATTTTAAAAATT
10083906 TTCAAGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATTTTAAAAATTA
Found at i:10083905 original size:25 final size:25
Alignment explanation
Indices: 10083876--10083924 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10083866 AAATAATTTC
10083876 AAATTTTAAAGAATTAAAATTTTAA
1 AAATTTTAAAGAATTAAAATTTTAA
* * *
10083901 AAATTTTCAAGATTTCAAATTTTA
1 AAATTTTAAAGAATTAAAATTTTA
10083925 TCTAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATTTTAAAGAATTAAAATTTTAA
Found at i:10086242 original size:19 final size:19
Alignment explanation
Indices: 10086214--10086275 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
10086204 AATCTTTAAG
*
10086214 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10086233 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10086252 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
10086273 GAT
1 GAT
10086276 CTTGTAATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
21 9 0.22
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10092877 original size:8 final size:8
Alignment explanation
Indices: 10092864--10092893 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10092854 ATTGAGTTTC
*
10092864 AAAAAAAA
1 AAAAAAAG
10092872 AAAAAAAG
1 AAAAAAAG
10092880 AAAAAAAG
1 AAAAAAAG
10092888 AAAAAA
1 AAAAAA
10092894 GATCATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10092885 original size:15 final size:15
Alignment explanation
Indices: 10092865--10092895 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10092855 TTGAGTTTCA
10092865 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
10092880 AAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAG
10092895 A
1 A
10092896 TCATATATAA
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:10094097 original size:10 final size:10
Alignment explanation
Indices: 10094068--10094102 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10094058 TCTATTTAAA
*
10094068 AAAACAAAAC
1 AAAACAAAAG
10094078 AAAACAAAAG
1 AAAACAAAAG
10094088 AAAACAAAAGG
1 AAAACAAAA-G
10094099 AAAA
1 AAAA
10094103 AGAAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAACAAAAG
Found at i:10094109 original size:7 final size:6
Alignment explanation
Indices: 10094083--10094120 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
10094073 AAAACAAAAC
* *
10094083 AAAAG- AAAACA AAAGGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
10094121 TGGACAGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:10095352 original size:89 final size:89
Alignment explanation
Indices: 10095110--10095629 Score: 389
Period size: 89 Copynumber: 5.8 Consensus size: 89
10095100 CTTCGACGGA
* * *
10095110 GAGCAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGTAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT-
* ** * *
10095175 ACAGATCTGGCA-TCTCCATATTCA-AATG
65 ---GATTTGGCATTCT-TGTGTTTACAA-G
* * * * * *
10095203 GAG--AGTAG-ATACATAGCAGATCTAATCTGAACTTCAGATGTTTTTAC-T-GAAGCAGATCCA
1 GAGCAAATCGAAGACATAGCAGATCTGA-CT----TTCAGATGTTTTCACATCAAAGCAGATCCA
10095263 AGATGATTTGGCATTCTTGTGTTTACAAG
61 AGATGATTTGGCATTCTTGTGTTTACAAG
10095292 GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT-
** * *
10095357 ACAGATTTGGCA-TCTCCAT-ATT-CGATG
65 ---GATTTGGCATTCT-TGTGTTTAC-AAG
* * * * * *
10095384 GAG---AGC-AGACACATAGCCGATCTAACCTTCAGATGTTTAT-AC-TGAAA-CAGATCCAAGA
1 GAGCAAATCGA-AGACATAGCAGATCTGACTTTCAGATGTTT-TCACATCAAAGCAGATCCAAGA
* *
10095442 TGATTTGGCATCCTTGTGTCTACAAG
64 TGATTTGGCATTCTTGTGTTTACAAG
* * * *
10095468 AAGCAAATCAAAGACATAACATG-TCTGACCTTT-AGATGTTTTCACATCGAAGCAGATCCAAGA
1 GAGCAAATCGAAGACATAGCA-GATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGA
10095531 TGATTTGGCATTCTTGTGTTTACAAG
64 TGATTTGGCATTCTTGTGTTTACAAG
* * * **
10095557 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGGTG-ATT-ACATTGAAGCAGATCCAAGATG
1 GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATG
10095620 ATTTGGCATT
66 ATTTGGCATT
10095630 TCTGTATTGT
Statistics
Matches: 339, Mismatches: 54, Indels: 74
0.73 0.12 0.16
Matches are distributed among these distances:
83 10 0.03
84 7 0.02
85 1 0.00
86 1 0.00
87 80 0.24
88 20 0.06
89 123 0.36
90 21 0.06
91 11 0.03
92 25 0.07
93 27 0.08
94 1 0.00
95 12 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (89 bp):
GAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATG
ATTTGGCATTCTTGTGTTTACAAG
Found at i:10095507 original size:176 final size:179
Alignment explanation
Indices: 10095111--10095531 Score: 618
Period size: 176 Copynumber: 2.4 Consensus size: 179
10095101 TTCGACGGAG
* * *
10095111 AGCAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGTAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
* *
10095176 CAGATCTGGCATCTCCATATTCAAATGGAGAGTAGATACATAGCAGATCTAATCTGAACTTCAGA
66 CAGATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAATC---ACTTCAGA
* * * * *
10095241 TGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
128 TGTTTATACTGAAACAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
10095293 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
* * *
10095358 CAGATTTGGCATCTCCATATTC-GATGGAGAGCAGACACATAGCCGATCTAA-C-CTTCAGATGT
66 CAGATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAATCACTTCAGATGT
10095420 TTATACTGAAACAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
131 TTATACTGAAACAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
* * *
10095469 AGCAAATCAAAGACATAACATG-TCTGACCTTT-AGATGTTTTCACATCGAAGCAGATCCAAGAT
1 AGCAAATCGAAGACATAGCA-GATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT
10095532 GATTTGGCAT
Statistics
Matches: 221, Mismatches: 16, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
176 107 0.48
177 5 0.02
180 1 0.00
181 25 0.11
182 83 0.38
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (179 bp):
AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
CAGATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAATCACTTCAGATGT
TTATACTGAAACAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
Found at i:10095576 original size:176 final size:173
Alignment explanation
Indices: 10095111--10095628 Score: 544
Period size: 176 Copynumber: 2.9 Consensus size: 173
10095101 TTCGACGGAG
* * * * *
10095111 AGCAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGTAGATCCAAGATAA
1 AGCAAATCAAAGACATAACAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT--
* * * *
10095176 CAGATCTGGCATCTCCATATTCAAATGGAGAGTAGATACATAGCAGATCTAATCTGAACTTCAGA
64 -AGATTTGGCATCTCCATATTCGAA-GGAGAGCAGACACATAGCAGATCTAA-C----CTTCAGA
* * * *
10095241 TGTTTTTACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
122 TGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
* *
10095293 AGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAA
1 AGCAAATCAAAGACATAACAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT--
* *
10095358 CAGATTTGGCATCTCCATATTCGATGGAGAGCAGACACATAGCCGATCTAACCTTCAGATGTTTA
64 -AGATTTGGCATCTCCATATTCGAAGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTA
*
10095423 TACTGAAACAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
128 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
*
10095469 AGCAAATCAAAGACATAACATG-TCTGACCTTT-AGATGTTTTCACATCGAAGCAGATCCAAGAT
1 AGCAAATCAAAGACATAACA-GATCTGA-CTTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT
** * * * * *
10095532 -GATTTGGCAT-TCTTGTGTTTAC-AAGGAGCA-AATCGAAGACATAGCAGATCTGACCTTCAGG
64 AGATTTGGCATCTC-CAT-ATT-CGAAGGAG-AGCA--G-ACACATAGCAGATCTAACCTTCAGA
* * *
10095593 TGATTACATTGAAGCAGATCCAAGATGATTTGGCAT
122 TGTTTATACTGAAGCAGATCCAAGATGATTTGGCAT
10095629 TTCTGTATTG
Statistics
Matches: 297, Mismatches: 30, Indels: 24
0.85 0.09 0.07
Matches are distributed among these distances:
171 2 0.01
172 11 0.04
173 8 0.03
174 2 0.01
175 1 0.00
176 160 0.54
177 5 0.02
180 1 0.00
181 23 0.08
182 84 0.28
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (173 bp):
AGCAAATCAAAGACATAACAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAG
ATTTGGCATCTCCATATTCGAAGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATAC
TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTACAAGA
Found at i:10095977 original size:44 final size:46
Alignment explanation
Indices: 10095833--10096107 Score: 146
Period size: 44 Copynumber: 6.2 Consensus size: 46
10095823 GATCCAAGAT
* * *
10095833 GATTTGGCATCCTTGTGTTTACAGGGAAC-AGATCGAAGACATATCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAAGATCGAA-AGATAGCA
* * * * * * **
10095879 GATCTGACATTCCTTTGCTTACAGCGAAGC-AGATC-AAAGACT-TTA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAAGATCGAAAGA-TAGCA
** * *
10095924 -ACATGGCATCCCTGTGTTTATAGGGAACAAG-T-TAAAGATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAAGATCGAAAGATAGCA
* * *
10095967 GATTTGGCATCCTTGTGTTTACAGGAAAC-AGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAAGATCGAA-AGATAGCA
* * * * * **
10096013 GATCTGACATTCCTGTGCTTACAGCGAA-ACAGATCGAAA-ATTTCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACA-AGATCGAAAGATAGCA
* * *
10096058 GCA--TGGCATCCCTGTGTTTATAGGGAACAAG-TTG-AAGATAGTA
1 G-ATTTGGCATCCCTGTGTTTACAGGGAACAAGATCGAAAGATAGCA
10096101 GATTTGG
1 GATTTGG
10096108 GATCTCAATA
Statistics
Matches: 169, Mismatches: 44, Indels: 34
0.68 0.18 0.14
Matches are distributed among these distances:
42 4 0.02
43 16 0.09
44 69 0.41
45 12 0.07
46 54 0.32
47 14 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (46 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAAGATCGAAAGATAGCA
Found at i:10096005 original size:134 final size:134
Alignment explanation
Indices: 10095833--10096107 Score: 455
Period size: 134 Copynumber: 2.1 Consensus size: 134
10095823 GATCCAAGAT
* * *
10095833 GATTTGGCATCCTTGTGTTTACAGGGAACAGATCGAAGACATATCAGATCTGACATTCCTTTGCT
1 GATTTGGCATCCTTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
*
10095898 TACAGCGAAGCAGATC-AAAGACTTT-AACATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAG
66 TACAGCGAAACAGATCGAAA-A-TTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAG
10095961 ATAGCA
129 ATAGCA
10095967 GATTTGGCATCCTTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCTTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
* *
10096032 TACAGCGAAACAGATCGAAAATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAACAGATCGAAAATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGAT
*
10096097 AGTA
131 AGCA
10096101 GATTTGG
1 GATTTGG
10096108 GATCTCAATA
Statistics
Matches: 132, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
133 3 0.02
134 126 0.95
135 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (134 bp):
GATTTGGCATCCTTGTGTTTACAGGAAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
TACAGCGAAACAGATCGAAAATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGAT
AGCA
Found at i:10096650 original size:19 final size:19
Alignment explanation
Indices: 10096603--10096662 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
10096593 AATCTTTAAG
10096603 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10096622 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10096639 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
10096660 GAT
1 GAT
10096663 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
21 9 0.24
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10099416 original size:39 final size:38
Alignment explanation
Indices: 10099349--10099571 Score: 304
Period size: 39 Copynumber: 5.7 Consensus size: 38
10099339 ACAAAGCATG
* *
10099349 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAG-CTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
*
10099388 GCGAGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 -CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
10099429 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
10099468 TGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
10099507 CAGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
10099546 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
10099572 TTATAAAGTC
Statistics
Matches: 171, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 152 0.89
40 16 0.09
41 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:10099715 original size:28 final size:28
Alignment explanation
Indices: 10099644--10099725 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
10099634 ATTTAATCAT
* * *
10099644 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACATTAAGTGCCATTC
*
10099672 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACATTAAGTGCCATTC
* * *
10099700 TCAATATTTCGTACATTGAGTACCAT
1 TCAATATTTCGCACATTAAGTGCCAT
10099726 ATTTGATTGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (28 bp):
TCAATATTTCGCACATTAAGTGCCATTC
Found at i:10105852 original size:39 final size:38
Alignment explanation
Indices: 10105803--10106041 Score: 216
Period size: 39 Copynumber: 6.1 Consensus size: 38
10105793 CAAATCCAAT
* *
10105803 CACCACCACAAAGCATGCGGGACTTTAAGCCGGATATAA
1 CACCAGCACAAAGCCTGCGGGACTTT-AGCCGGATATAA
*
10105842 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTGCGGGACTTTAG-CCGGATATAA
* * *
10105881 CACCAGCACGAATGCCTTCGGGGC-TTAGCTCGGATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGC-CGGATATAA
* * *
10105920 CACCAGCACGAATGCCTTCGAGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAG-CCGGATATAA
* * * *
10105959 CACCAGCATGAATGCCTTCAGGAC-TTAGCCCGGATATAA
1 CACCAGCA-CAAAGCCTGCGGGACTTTAG-CCGGATATAA
* * *
10105998 CACCAACACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAG-CCGGATATAA
10106037 CACCA
1 CACCA
10106042 TTATAAAGTC
Statistics
Matches: 179, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 3 0.02
39 164 0.92
40 12 0.07
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (38 bp):
CACCAGCACAAAGCCTGCGGGACTTTAGCCGGATATAA
Found at i:10105948 original size:78 final size:78
Alignment explanation
Indices: 10105832--10106041 Score: 323
Period size: 78 Copynumber: 2.7 Consensus size: 78
10105822 GGACTTTAAG
* * *
10105832 CCGGATATAATACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACGAATGC
1 CCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACACCAGCACGAATGC
* *
10105896 CTTCGGGGCTTAGC
65 CTTCAGGACTTAGC
* * *
10105910 TCGGATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCATGAATGCC
1 CCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
10105975 TTCAGGACTTAGC
66 TTCAGGACTTAGC
*
10105988 CCGGATATAACACCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
1 CCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
10106042 TTATAAAGTC
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 109 0.91
79 11 0.09
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (78 bp):
CCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
TTCAGGACTTAGC
Found at i:10106147 original size:28 final size:28
Alignment explanation
Indices: 10106114--10106178 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
10106104 ATTTAATCAT
**
10106114 TCAATATTTTGCACACTAAGTTTCATTC
1 TCAATATTTTGCACACTAAGTGCCATTC
* *
10106142 TCAATATCTTGCACATTAAGTGCCATTC
1 TCAATATTTTGCACACTAAGTGCCATTC
10106170 TCAATATTT
1 TCAATATTT
10106179 CGTACACTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (28 bp):
TCAATATTTTGCACACTAAGTGCCATTC
Found at i:10106195 original size:28 final size:27
Alignment explanation
Indices: 10106114--10106195 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
10106104 ATTTAATCAT
**
10106114 TCAATATTTTGCACACTAAGTTTCATTC
1 TCAATA-TTTGCACACTAAGTACCATTC
* *
10106142 TCAATATCTTGCACATTAAGTGCCATTC
1 TCAATAT-TTGCACACTAAGTACCATTC
* *
10106170 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTT-GCACACTAAGTACCAT
10106196 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 3 0.07
28 42 0.93
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (27 bp):
TCAATATTTGCACACTAAGTACCATTC
Found at i:10111955 original size:23 final size:23
Alignment explanation
Indices: 10111929--10112000 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
10111919 TACATAATAT
*
10111929 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
10111952 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
10111975 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
10111998 TTA
1 TTA
10112001 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:10111965 original size:35 final size:35
Alignment explanation
Indices: 10111888--10111965 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
10111878 ATTTGTATAT
10111888 TATTATTTACCTATATCTATATTATATTTATTACA
1 TATTATTTACCTATATCTATATTATATTTATTACA
* * * *
10111923 TAATATTTA-TTATA-CTATTTTATATTTTATTATTA
1 TATTATTTACCTATATCTATATTATA-TTTATTA-CA
10111958 TATTATTT
1 TATTATTT
10111966 TACACTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 9 0.25
34 11 0.31
35 16 0.44
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (35 bp):
TATTATTTACCTATATCTATATTATATTTATTACA
Found at i:10116345 original size:53 final size:53
Alignment explanation
Indices: 10116268--10116407 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 53
10116258 CACATATCAT
* * *
10116268 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCA-ACTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
10116321 ACTGATGCCATAGCCCAACTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGAATCACATTATCACATTAC
* *
10116374 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGG
10116408 GCACACTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 2 0.03
53 75 0.97
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAACTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:10123855 original size:53 final size:53
Alignment explanation
Indices: 10123774--10123939 Score: 228
Period size: 53 Copynumber: 3.1 Consensus size: 53
10123764 CTTACACGGT
* * *
10123774 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTA
10123829 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
** * *
10123882 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGGAGGCAC-TTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
10123934 TCACAT
1 TCACAT
10123940 ATTTTCCGTC
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
52 10 0.10
53 86 0.83
54 1 0.01
55 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
Found at i:10126266 original size:22 final size:23
Alignment explanation
Indices: 10126215--10126267 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
10126205 AGAAAACCAT
10126215 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
*
10126237 TTTA-GGTGTTAAATGCTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
10126258 TTTATGGTGT
1 TTTATGGTGT
10126268 CTGAAAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:10131203 original size:21 final size:21
Alignment explanation
Indices: 10131177--10131217 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10131167 AGACAAGCGA
* *
10131177 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
10131198 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
10131218 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:10135453 original size:44 final size:44
Alignment explanation
Indices: 10135390--10135478 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
10135380 TGCTTTCTCC
10135390 TACAAATTTAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
1 TACAAATTTAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
10135434 TACAAATTTAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
1 TACAAATTTAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
10135478 T
1 T
10135479 TCATCAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (44 bp):
TACAAATTTAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
Found at i:10137021 original size:16 final size:17
Alignment explanation
Indices: 10136986--10137023 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10136976 AATGAAATAC
*
10136986 AAAAAAATTTATTTTAT
1 AAAAAAATTTATTATAT
10137003 AAAAAAATTTATTAT-T
1 AAAAAAATTTATTATAT
10137019 AAAAA
1 AAAAA
10137024 CCTAAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAAATTTATTATAT
Found at i:10137409 original size:3 final size:3
Alignment explanation
Indices: 10137403--10137445 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10137393 AAATTTCAAA
10137403 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10137446 TTCTTAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10138077 original size:23 final size:22
Alignment explanation
Indices: 10138038--10138080 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10138028 TTAAGAGTGA
*
10138038 TGAAAGAAAAATGAAAATGAAT
1 TGAAAGAAAAATAAAAATGAAT
*
10138060 TGAAATAAAAATTAAAAATGA
1 TGAAAGAAAAA-TAAAAATGA
10138081 GTTAGCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (22 bp):
TGAAAGAAAAATAAAAATGAAT
Found at i:10142524 original size:22 final size:22
Alignment explanation
Indices: 10142498--10142540 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10142488 TTATTTAATT
*
10142498 ATAATTCAATAAACCTTAAATA
1 ATAATTCAAAAAACCTTAAATA
*
10142520 ATAATTCAAAAAATCTTAAAT
1 ATAATTCAAAAAACCTTAAAT
10142541 TAATTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAATTCAAAAAACCTTAAATA
Found at i:10150949 original size:19 final size:17
Alignment explanation
Indices: 10150907--10150950 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
10150897 TGTGTATGTA
*
10150907 TAATTGAATTGTAAATT
1 TAATTGAATTGAAAATT
*
10150924 TATTTGAATGTGAAAATTT
1 TAATTGAAT-TGAAAA-TT
10150943 TAATTGAA
1 TAATTGAA
10150951 AAGTAATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 5 0.23
19 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (17 bp):
TAATTGAATTGAAAATT
Found at i:10151127 original size:21 final size:21
Alignment explanation
Indices: 10151079--10151187 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
10151069 GGCTTTACTG
* *
10151079 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
10151100 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
*
10151123 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
10151144 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
10151165 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
10151186 AT
1 AT
10151188 ACTGATCAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 59 0.77
23 18 0.23
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:10153757 original size:50 final size:50
Alignment explanation
Indices: 10153694--10153794 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
10153684 GATTAACATA
10153694 TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
1 TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
*
10153744 TACAGTCCC-TGTGGAGACGATAACTTTTATACTTATTAATTGATAACGAC
1 TACAG-CCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
10153794 T
1 T
10153795 GTATACACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 46 0.94
51 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (50 bp):
TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
Found at i:10154087 original size:42 final size:42
Alignment explanation
Indices: 10154028--10154157 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
10154018 GAGGCAAAAG
*
10154028 TAGGTTTTCTATTGTCGACAATAGAGCAACGACGACAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
*
10154070 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGATAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
* * *
10154112 TAGGTTTTCTACTGTCGACAATAGAGTAACAACAACAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
10154154 TAGG
1 TAGG
10154158 GCGGCCACGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (42 bp):
TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
Found at i:10159771 original size:30 final size:30
Alignment explanation
Indices: 10159735--10159814 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
10159725 GACTTGGTCA
*
10159735 ACAATCATCAACTACAATTGGGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
* *
10159765 ACAATCAGCAACTACGATTGTGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
10159795 AC-ATGCAGCAACTACAATTG
1 ACAAT-CAGCAACTACAATTG
10159815 CAAATGTCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 2 0.04
30 43 0.96
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (30 bp):
ACAATCAGCAACTACAATTGGGATATTCTT
Found at i:10161099 original size:22 final size:22
Alignment explanation
Indices: 10161042--10161110 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
10161032 TATGGAGTTA
**
10161042 AATTGTGTATTTTTATTATAGT
1 AATTGTGTATTTTTATTATTTT
10161064 AAGTATGT-TA-TTTTATTATTTT
1 AA-T-TGTGTATTTTTATTATTTT
10161086 AATTGTGTATTTTTTATTATTTT
1 AATTGTGTA-TTTTTATTATTTT
10161109 AA
1 AA
10161111 AAAAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 14 0.35
23 17 0.43
24 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (22 bp):
AATTGTGTATTTTTATTATTTT
Found at i:10161104 original size:23 final size:23
Alignment explanation
Indices: 10161042--10161110 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 23
10161032 TATGGAGTTA
**
10161042 AATTGTGTA-TTTTTATTATAGT
1 AATTGTGTATTTTTTATTATTTT
* * *
10161064 AAGTATGT-TATTTTATTATTTT
1 AATTGTGTATTTTTTATTATTTT
10161086 AATTGTGTATTTTTTATTATTTT
1 AATTGTGTATTTTTTATTATTTT
10161109 AA
1 AA
10161111 AAAAAAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 22 0.59
23 15 0.41
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (23 bp):
AATTGTGTATTTTTTATTATTTT
Found at i:10163746 original size:27 final size:27
Alignment explanation
Indices: 10163715--10163768 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
10163705 ACCAATAGAA
*
10163715 GGATTTATAGTAGATTAATATAGAGTT
1 GGATTTATAGTAGATTAATACAGAGTT
* *
10163742 GGATTTCTAGTATATTAATACAGAGTT
1 GGATTTATAGTAGATTAATACAGAGTT
10163769 ATTGTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (27 bp):
GGATTTATAGTAGATTAATACAGAGTT
Found at i:10163846 original size:2 final size:2
Alignment explanation
Indices: 10163839--10163881 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10163829 TTGCAGTCTA
10163839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10163881 A
1 A
10163882 CATACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.