Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 58 of 295
Found at i:16916260 original size:27 final size:27
Alignment explanation
Indices: 16916220--16916366 Score: 129
Period size: 27 Copynumber: 5.4 Consensus size: 27
16916210 TGGTTTTTCT
**
16916220 GTAATTTTGTAAATCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
* * *
16916247 ATAATTTTACAAAT-TGAGGGTATTTCG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* * *
16916274 GTAATTTCACAAACCAGTGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
16916301 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTATTTTG
* ** *
16916328 GTAATTCTATCCTA-CAGGGGTATTTTA
1 GTAATTTTA-CAAATCAGGGGTATTTTG
*
16916355 GTAATTTCACAA
1 GTAATTTTACAA
16916367 TCGAGGATAA
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
26 3 0.03
27 88 0.93
28 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCAGGGGTATTTTG
Found at i:16916469 original size:27 final size:27
Alignment explanation
Indices: 16916374--16916456 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
16916364 CAATCGAGGA
*
16916374 TAAAACGGTAATTTTGTAAATCAATGG
1 TAAAATGGTAATTTTGTAAATCAATGG
* * *
16916401 TAAAATGGTAATTCTATAAATCAAGGG
1 TAAAATGGTAATTTTGTAAATCAATGG
*
16916428 TAAAATGGTAATTTTGTAAATCGATGG
1 TAAAATGGTAATTTTGTAAATCAATGG
16916455 TA
1 TA
16916457 CTTTGGTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (27 bp):
TAAAATGGTAATTTTGTAAATCAATGG
Found at i:16920568 original size:31 final size:31
Alignment explanation
Indices: 16920500--16920645 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
16920490 AGGCCCTGTG
*
16920500 GGCCACACAGGCGTGTGGGCCCACACGGTT-
1 GGCCACATAGGCGTGTGGGCCCACACGGTTA
*
16920530 GGCCACATAGGCTTGTGGGCCCACACGGTTA
1 GGCCACATAGGCGTGTGGGCCCACACGGTTA
*
16920561 GGCCACATAGGCGTGTGAGCCCACACGGTTA
1 GGCCACATAGGCGTGTGGGCCCACACGGTTA
*
16920592 GGCCACATAGGCATGTGGGCCCACACGGTTA
1 GGCCACATAGGCGTGTGGGCCCACACGGTTA
*
16920623 GGCCACATAGGCGTGTGAGCCCA
1 GGCCACATAGGCGTGTGGGCCCA
16920646 TTATTTCTGA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 28 0.26
31 79 0.74
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.16
Consensus pattern (31 bp):
GGCCACATAGGCGTGTGGGCCCACACGGTTA
Found at i:16927739 original size:9 final size:9
Alignment explanation
Indices: 16927716--16927778 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
16927706 AAATAATTTA
*
16927716 AAAAATCAT
1 AAAAATTAT
*
16927725 ATAAATTAT
1 AAAAATTAT
* *
16927734 AGAAATCAT
1 AAAAATTAT
*
16927743 AGAAACTTAT
1 A-AAAATTAT
16927753 ATAAAATATAT
1 A-AAAAT-TAT
16927764 AAAAATTAT
1 AAAAATTAT
16927773 AAAAAT
1 AAAAAT
16927779 ATTTTTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
9 24 0.56
10 15 0.35
11 4 0.09
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:16931341 original size:26 final size:26
Alignment explanation
Indices: 16931310--16931417 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
16931300 TGAAATGCCC
* *
16931310 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAATATTTACCTAACCCATT
16931336 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAACCCATT
* *
16931362 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAATATTTACCTAACCCATT
*
16931388 ATCATGGAATATTTACCTAGCCCATT
1 ATCATGGAATATTTACCTAACCCATT
16931414 ATCA
1 ATCA
16931418 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (26 bp):
ATCATGGAATATTTACCTAACCCATT
Found at i:16931943 original size:21 final size:20
Alignment explanation
Indices: 16931906--16931953 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
16931896 TTTTTATGCT
* *
16931906 TTTTAATGATTTTTATAAAA
1 TTTTAATAATTTATATAAAA
*
16931926 TTTTAATAATTATATATATAA
1 TTTTAATAATT-TATATAAAA
16931947 TTTTAAT
1 TTTTAAT
16931954 TTTAATTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTAATAATTTATATAAAA
Found at i:16933961 original size:39 final size:39
Alignment explanation
Indices: 16933899--16934001 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 39
16933889 TCGTAGGAGC
*
16933899 GCCTTT-GTCACAGCAGGCAGTGGGTC-TTTCACAAGAGT
1 GCCTTTGGTCACAGTAGGCAGTGGG-CATTTCACAAGAGT
* * *
16933937 GCCTTTGGTCAGAGTAGACAGTGGGCATTTCGCAAGAGT
1 GCCTTTGGTCACAGTAGGCAGTGGGCATTTCACAAGAGT
* *
16933976 GCCTTGGGTCATAGTAGGCAGTGGGC
1 GCCTTTGGTCACAGTAGGCAGTGGGC
16934002 CAAAACAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
38 7 0.12
39 49 0.88
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.25
Consensus pattern (39 bp):
GCCTTTGGTCACAGTAGGCAGTGGGCATTTCACAAGAGT
Found at i:16947195 original size:6 final size:6
Alignment explanation
Indices: 16947184--16947219 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
16947174 CATTTAATTA
* *
16947184 TTTTAT TTTTAT TTTTAT TTTTCT TTTTAA TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
16947220 ATTTCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:16947210 original size:18 final size:18
Alignment explanation
Indices: 16947184--16947232 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
16947174 CATTTAATTA
* *
16947184 TTTTATTTTTATTTTTAT
1 TTTTCTTTTTAATTTTAT
16947202 TTTTCTTTTTAATTTTAT
1 TTTTCTTTTTAATTTTAT
*
16947220 ATTTC-TTTTAATT
1 TTTTCTTTTTAATT
16947233 ATTTTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTTAATTTTAT
Found at i:16959186 original size:23 final size:24
Alignment explanation
Indices: 16959134--16959286 Score: 80
Period size: 24 Copynumber: 6.4 Consensus size: 24
16959124 GCCTTGTAAA
* *
16959134 GGGAAGCTCACACAGAGCCATTTC
1 GGGAAGCTCACAAAGAGCCATATC
*
16959158 GGGAAGCTCATAAAGAGCC-TATC
1 GGGAAGCTCACAAAGAGCCATATC
* * *
16959181 GGGAAGCTTATC--TGAGCTATATAAC
1 GGGAAGCTCA-CAAAGAGCCATAT--C
* * *
16959206 AGGAAGCTCA-TAGGAGCCATAATC
1 GGGAAGCTCACAAAGAGCCAT-ATC
* * * * *
16959230 GGGAAGTTCACAAAGAACCTTGTT
1 GGGAAGCTCACAAAGAGCCATATC
* * * *
16959254 GAGAAGTTCACAAAGAACAATATC
1 GGGAAGCTCACAAAGAGCCATATC
16959278 GGGAAGCTC
1 GGGAAGCTC
16959287 TGAATAGCCA
Statistics
Matches: 95, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
22 4 0.04
23 15 0.16
24 53 0.56
25 21 0.22
26 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GGGAAGCTCACAAAGAGCCATATC
Found at i:16959862 original size:21 final size:21
Alignment explanation
Indices: 16959824--16959864 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16959814 AAATTTAACA
* *
16959824 TCAATTTCATCCATTTCATAG
1 TCAATTTAATCCAATTCATAG
*
16959845 TCAATTTAATTCAATTCATA
1 TCAATTTAATCCAATTCATA
16959865 TCCAAGGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (21 bp):
TCAATTTAATCCAATTCATAG
Found at i:16970019 original size:18 final size:17
Alignment explanation
Indices: 16969998--16970042 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
16969988 TTTTTGAAAA
16969998 ATATAAAATTTGAAATTT
1 ATATAAAATTTG-AATTT
16970016 ATATAAATATTTGAATTT
1 ATATAAA-ATTTGAATTT
*
16970034 TTA-AAAATT
1 ATATAAAATT
16970043 ATTTTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 14 0.56
19 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (17 bp):
ATATAAAATTTGAATTT
Found at i:16972390 original size:54 final size:54
Alignment explanation
Indices: 16972200--16972454 Score: 300
Period size: 54 Copynumber: 4.7 Consensus size: 54
16972190 TTTCCTTTTT
* * * * * * *
16972200 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
* ***
16972253 GAACTCA-CTAATGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATA
1 GAACTTATC-AATGCCATGCCTTGGCATGGTCTTACATGATTTCC-TTGCCTTATA
* * * * * *
16972307 GTAACTCATCAATGCCATGTCTTGACATGGTCTTATATAATTTCCTTGACTTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
*
16972362 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTTCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
16972416 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
16972455 CTTATCAATG
Statistics
Matches: 173, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
52 3 0.02
53 40 0.23
54 86 0.50
55 41 0.24
56 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
Found at i:16984778 original size:13 final size:13
Alignment explanation
Indices: 16984760--16984784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16984750 TCAAGGCAAA
16984760 TAATGCTATCAAC
1 TAATGCTATCAAC
16984773 TAATGCTATCAA
1 TAATGCTATCAA
16984785 TACTTGATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TAATGCTATCAAC
Found at i:16987131 original size:6 final size:6
Alignment explanation
Indices: 16987117--16987170 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
16987107 AATGGAAGAG
* * *
16987117 AGTGGA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA GGTGAA ACTGAA
1 AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA
16987165 AGTGAA
1 AGTGAA
16987171 GAGGCAACTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.46, C:0.02, G:0.35, T:0.17
Consensus pattern (6 bp):
AGTGAA
Found at i:16988605 original size:57 final size:57
Alignment explanation
Indices: 16988542--16988725 Score: 147
Period size: 57 Copynumber: 3.2 Consensus size: 57
16988532 TATAGATAGA
**
16988542 ATTAATATATGAACTTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTT
1 ATTAATATATGAACTTGATTCATACAAAATATTAATTTTATATATTTTAAAGAATTT
* * * * * * * * * *
16988599 ATTAATATA-AATAGTTAATT-ATAAAAAACATGAAAATTAATATTCTTTTGGAAAGAATATA
1 ATTAATATATGA-ACTTGATTCATACAAAATAT-TAATTTTATA-TATTTT--AAAGAAT-TT
* * * **
16988660 ATTGATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATTGAATTT
1 ATTAATATATGAACTTGATTCATACAAAATATTAATTTTATATATTTTAAAGAATTT
16988717 ATTAATATA
1 ATTAATATA
16988726 AATAGTTATA
Statistics
Matches: 92, Mismatches: 27, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
56 10 0.11
57 31 0.34
58 10 0.11
60 10 0.11
61 21 0.23
62 10 0.11
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (57 bp):
ATTAATATATGAACTTGATTCATACAAAATATTAATTTTATATATTTTAAAGAATTT
Found at i:16992403 original size:22 final size:21
Alignment explanation
Indices: 16992374--16992416 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
16992364 TTGGAAAGTT
*
16992374 GAAAAAAATTTCATAAATCTG
1 GAAAAAAAATTCATAAATCTG
16992395 GAAAAAAAATTCATAAATCTG
1 GAAAAAAAATTCATAAATCTG
16992416 G
1 G
16992417 TATTTAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (21 bp):
GAAAAAAAATTCATAAATCTG
Found at i:16999851 original size:16 final size:16
Alignment explanation
Indices: 16999793--16999860 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
16999783 TGGTTCACTA
16999793 TAATGGAATA-AGGCTG
1 TAATGGAATAGA-GCTG
* * *
16999809 TAATTGAATAGGGTTG
1 TAATGGAATAGAGCTG
*
16999825 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTG
*
16999841 TAATGGAATAGATCTG
1 TAATGGAATAGAGCTG
16999857 TAAT
1 TAAT
16999861 TAGTAATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.32
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:17000188 original size:58 final size:58
Alignment explanation
Indices: 17000062--17000195 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 58
17000052 ATATTTTAAT
* * * *
17000062 AAAAATAAAAATAAATAATTTAATCATATTTTAATATAATTATTATTAAACACAATTTT
1 AAAAAT-ATAATATATAATTTAATAATATTTTAATATAATTATTATTAAACACAATTTA
* * **
17000121 ATAAA-ATAATATATAATTTAATAATATTCTTAATATAATTATTATTATA-TGAA-TTA
1 AAAAATATAATATATAATTTAATAATATT-TTAATATAATTATTATTAAACACAATTTA
17000177 AAAAATCATAATATATAAT
1 AAAAAT-ATAATATATAAT
17000196 ATTATAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 6 0.10
57 22 0.35
58 31 0.49
59 4 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
AAAAATATAATATATAATTTAATAATATTTTAATATAATTATTATTAAACACAATTTA
Found at i:17000204 original size:23 final size:21
Alignment explanation
Indices: 17000173--17000216 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17000163 TATTATATGA
17000173 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
17000196 ATTATAAAAATAATATATAAT
1 ATTAAAAAAATAATATATAAT
17000217 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:17002285 original size:21 final size:21
Alignment explanation
Indices: 17002260--17002301 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17002250 AAACCATCCA
17002260 AAAATACAATACTACTTAATC
1 AAAATACAATACTACTTAATC
*
17002281 AAAATGCAATACTACTTAATC
1 AAAATACAATACTACTTAATC
17002302 GATACTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATACAATACTACTTAATC
Found at i:17004542 original size:20 final size:20
Alignment explanation
Indices: 17004517--17004556 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17004507 TCGTTCTTTA
17004517 ATTGATATATAATAAAATAG
1 ATTGATATATAATAAAATAG
*
17004537 ATTGATATATAGTAAAATAG
1 ATTGATATATAATAAAATAG
17004557 CCAAGACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTGATATATAATAAAATAG
Found at i:17008720 original size:23 final size:21
Alignment explanation
Indices: 17008690--17008733 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17008680 AAATTAAATC
17008690 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
17008713 TCTAAGATTGCAATCATATCT
1 TCTAAGATTACAATCATATCT
17008734 AAGATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:17008747 original size:17 final size:18
Alignment explanation
Indices: 17008713--17008765 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
17008703 AATCATATCT
17008713 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17008731 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17008748 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
17008766 TGAAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 10 0.32
19 5 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:17009492 original size:205 final size:205
Alignment explanation
Indices: 17009140--17009629 Score: 802
Period size: 205 Copynumber: 2.4 Consensus size: 205
17009130 AAATCTGCTT
*
17009140 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAA-TGTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACT-TAAGCA
17009204 CGTGAAAGCCAAATCAGCTATGTCTACGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTACGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCT
* * * * * * *
17009269 TGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
130 TGGATCTACTTCAGTATAAACATCCGAAGGCTAGATCTGCTATGTATATGCCCTCCGTCAAAATG
*
17009334 GAGATGCCAGA
195 GAGATGCCAAA
*
17009345 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTCCAACTTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACTTAAGCAC
* *
17009410 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTACGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
**
17009475 GGATCTACTTCAGTATAAACATCCGAAGGCTAGATCTGCTATGTATATGTTCTCCGTCAAAATGG
131 GGATCTACTTCAGTATAAACATCCGAAGGCTAGATCTGCTATGTATATGCCCTCCGTCAAAATGG
17009540 AGATGCCAAA
196 AGATGCCAAA
* * * *
17009550 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACTTAAGCAC
17009615 GTGAAAGCCAAATCA
66 GTGAAAGCCAAATCA
17009630 TCTTAGATTT
Statistics
Matches: 265, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
205 264 1.00
206 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACTTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTACGATTTGCTCCTTATAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCCGAAGGCTAGATCTGCTATGTATATGCCCTCCGTCAAAATGG
AGATGCCAAA
Found at i:17009626 original size:41 final size:41
Alignment explanation
Indices: 17009580--17009670 Score: 182
Period size: 41 Copynumber: 2.2 Consensus size: 41
17009570 ATACAGAGAT
17009580 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
17009621 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
1 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
17009662 GCCAAATCA
1 GCCAAATCA
17009671 GCTATGTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (41 bp):
GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
Found at i:17009809 original size:246 final size:246
Alignment explanation
Indices: 17009375--17009875 Score: 840
Period size: 246 Copynumber: 2.0 Consensus size: 246
17009365 ATACAGAGAT
* *
17009375 GCCAAATCATCTTAGATTTGCTCCAACTTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATT
1 GCCAAATCATCTTAGATTTGCTCCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATT
* *
17009440 TGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCCGAAGGC
66 TACTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATAAACATCCGAAGGC
*
17009505 TAGATCTGCTATGTATATGTTCTCCGTCAAAATGGAGATGCCAAACTTTGATTTGTTCTCTGACA
131 TAGATCTGCTATGTATATGTTCTCCATCAAAATGGAGATGCCAAACTTTGATTTGTTCTCTGACA
*
17009570 ATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
196 ATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
* *
17009621 GCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATT
1 GCCAAATCATCTTAGATTTGCTCCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATT
* * *
17009686 TACTCCTTGTAAGTACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGC
66 TACTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATAAACATCCGAAGGC
* * * * *
17009751 TGGATCTGCTATGTATCTGTTCTCCATCGAAGTGGAGATGCCAGACTTTGATTTGTTCTCTGACA
131 TAGATCTGCTATGTATATGTTCTCCATCAAAATGGAGATGCCAAACTTTGATTTGTTCTCTGACA
* *
17009816 ATACAGAGATGTCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAA
196 ATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
17009867 GCCAAATCA
1 GCCAAATCA
17009876 GCTATGTCTT
Statistics
Matches: 237, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
246 237 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (246 bp):
GCCAAATCATCTTAGATTTGCTCCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATT
TACTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATAAACATCCGAAGGC
TAGATCTGCTATGTATATGTTCTCCATCAAAATGGAGATGCCAAACTTTGATTTGTTCTCTGACA
ATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAA
Found at i:17010071 original size:84 final size:84
Alignment explanation
Indices: 17009970--17010506 Score: 863
Period size: 84 Copynumber: 6.4 Consensus size: 84
17009960 TCTGCTATAC
* **
17009970 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTATTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
**
17010034 AGGGAGATAAGATCTGCAGT
65 AGGGAGATAAGATCTGCAAA
* *
17010054 TTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
17010119 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
17010138 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGATCTGCTCCACTACTGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
17010203 TTAGGGAGATAAGATCTGC---
63 TTAGGGAGATAAGATCTGCAAA
*
17010222 --GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
17010285 GGGAGATAAGATCTGTAAA
66 GGGAGATAAGATCTGCAAA
*
17010304 TTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
17010369 GGGAGATAAGATCCGCAAA
66 GGGAGATAAGATCTGCAAA
*
17010388 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCTACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
17010453 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
*
17010472 TTTAACCTGTTACCTTACTG-TCTAGGGGATTAAGG
1 TTTAACCTGTTACCCTACTGCT-TAGGGGATTAAGG
17010507 TGCTAAATTT
Statistics
Matches: 424, Mismatches: 19, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
79 38 0.09
81 1 0.00
82 38 0.09
83 2 0.00
84 306 0.72
87 39 0.09
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:17010414 original size:250 final size:247
Alignment explanation
Indices: 17009973--17010468 Score: 850
Period size: 250 Copynumber: 2.0 Consensus size: 247
17009963 GCTATACTTT
* *
17009973 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTACTATTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTACTTAGGG
** * *
17010038 AGATAAGATCTGCAGTTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGATCT
66 AGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCGTCGATCT
*
17010103 GCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGAT
131 GCTCCACTACTGCTTAGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTGCTTAGGGGAT
17010168 TAAGGCGAGTCGTCGTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCG
196 TAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCG
*
17010223 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTTAGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCA-TCTTCGATCTGCTCCACTACTACTTAGG
* *
17010287 GAGATAAGATCTGTAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATC
65 GAGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCGTCGATC
17010352 TGCTCCACTACTGCTTAGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTGCTTAGGGGA
130 TGCTCCACTACTGCTTAGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTGCTTAGGGGA
*
17010417 TTAAGGCGAGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGC
195 TTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC
17010469 AAATTTAACC
Statistics
Matches: 234, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
247 38 0.16
249 2 0.01
250 194 0.83
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (247 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTACTTAGGG
AGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCGTCGATCT
GCTCCACTACTGCTTAGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTGCTTAGGGGAT
TAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCG
Found at i:17011469 original size:8 final size:8
Alignment explanation
Indices: 17011456--17011525 Score: 65
Period size: 8 Copynumber: 8.8 Consensus size: 8
17011446 GGCCTCTCCA
17011456 TTTTTTCT
1 TTTTTTCT
17011464 TTTTTTCT
1 TTTTTTCT
17011472 CTTTTTTCT
1 -TTTTTTCT
*
17011481 TTTTATATAT
1 TTTT-T-TCT
17011491 TTTTTTCT
1 TTTTTTCT
*
17011499 CTTTTTC-
1 TTTTTTCT
17011506 --TTTTCT
1 TTTTTTCT
*
17011512 TTTTTCCT
1 TTTTTTCT
17011520 TTTTTT
1 TTTTTT
17011526 TTGAAATAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
5 5 0.10
8 30 0.59
9 10 0.20
10 6 0.12
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCT
Found at i:17011527 original size:13 final size:12
Alignment explanation
Indices: 17011458--17011527 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
17011448 CCTCTCCATT
17011458 TTTTC-TTTTT-
1 TTTTCTTTTTTC
*
17011468 TTCTCTTTTTTC
1 TTTTCTTTTTTC
17011480 TTTT-TATATATTT-
1 TTTTCT-T-T-TTTC
17011493 TTTTCTCTTTTTC
1 TTTTCT-TTTTTC
17011506 TTTTCTTTTTTCC
1 TTTTCTTTTTT-C
17011519 TTTT-TTTTT
1 TTTTCTTTTT
17011528 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
10 4 0.08
11 6 0.12
12 17 0.35
13 17 0.35
14 5 0.10
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:17015182 original size:23 final size:24
Alignment explanation
Indices: 17015154--17015206 Score: 99
Period size: 23 Copynumber: 2.2 Consensus size: 24
17015144 TAACGTTGCC
17015154 CTCCATTCTATCAAGAAGTCCGTT
1 CTCCATTCTATCAAGAAGTCCGTT
17015178 -TCCATTCTATCAAGAAGTCCGTT
1 CTCCATTCTATCAAGAAGTCCGTT
17015201 CTCCAT
1 CTCCAT
17015207 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (24 bp):
CTCCATTCTATCAAGAAGTCCGTT
Found at i:17016940 original size:64 final size:64
Alignment explanation
Indices: 17016867--17016989 Score: 237
Period size: 64 Copynumber: 1.9 Consensus size: 64
17016857 TAGCTCAACC
17016867 CGCCCAGCCCAACACTCCACAGTTGCAGCCTTGCTGCTCAGTTAACAATAAATTGAGGCTTTCT
1 CGCCCAGCCCAACACTCCACAGTTGCAGCCTTGCTGCTCAGTTAACAATAAATTGAGGCTTTCT
*
17016931 CGCCCAGCCCAACACTCCACAGTTGCAGCCTTGCTGCTCAGTTAATAATAAATTGAGGC
1 CGCCCAGCCCAACACTCCACAGTTGCAGCCTTGCTGCTCAGTTAACAATAAATTGAGGC
17016990 AAAGCCTCCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (64 bp):
CGCCCAGCCCAACACTCCACAGTTGCAGCCTTGCTGCTCAGTTAACAATAAATTGAGGCTTTCT
Found at i:17018674 original size:26 final size:26
Alignment explanation
Indices: 17018643--17018750 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
17018633 TGAAATGCCC
17018643 ATCATGGAACATTTACCTAAACC-ATT
1 ATCATGGAACATTTACCT-AACCTATT
17018669 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
*
17018695 ATCATGGAATATTTACCTAATCC-ATT
1 ATCATGGAACATTTACCTAA-CCTATT
17018721 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
17018747 ATCA
1 ATCA
17018751 ATTTGTACAA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 6 0.08
26 69 0.90
27 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCTATT
Found at i:17018721 original size:52 final size:52
Alignment explanation
Indices: 17018643--17018750 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
17018633 TGAAATGCCC
17018643 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
* *
17018695 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
17018747 ATCA
1 ATCA
17018751 ATTTGTACAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
Found at i:17021280 original size:28 final size:28
Alignment explanation
Indices: 17021238--17021291 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
17021228 AAACAAGTTA
*
17021238 GGAGTATTTGCATGTAGTTTAAAGGTTT
1 GGAGTATTTGCATGTAGTTGAAAGGTTT
*
17021266 GGAGTATTTGTATGTAGTTGAAAGGT
1 GGAGTATTTGCATGTAGTTGAAAGGT
17021292 GGAGAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.31, T:0.41
Consensus pattern (28 bp):
GGAGTATTTGCATGTAGTTGAAAGGTTT
Found at i:17024694 original size:18 final size:19
Alignment explanation
Indices: 17024671--17024719 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
17024661 TCGTAAAATA
*
17024671 ATTTTTGAAAAATAATT-T
1 ATTTTTGAAAAAAAATTAT
*
17024689 ATTTTTTAAAAAAAATTAAT
1 ATTTTTGAAAAAAAATT-AT
17024709 ATTTTTTGAAA
1 A-TTTTTGAAA
17024720 GAATTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 15 0.60
20 2 0.08
21 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTTTTGAAAAAAAATTAT
Found at i:17024726 original size:33 final size:33
Alignment explanation
Indices: 17024689--17024775 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
17024679 AAAATAATTT
*
17024689 ATTTTTTAAAAAAAATTAATATTTTTTGAAAGA
1 ATTTTTTAAAAAAAATTAATATTATTTGAAAGA
* * * *
17024722 ATTTTTGTAAAATATATT-TTATTATTTGACAGA
1 ATTTTT-TAAAAAAAATTAATATTATTTGAAAGA
* * *
17024755 TTTTTTTAAAAATATTTAATA
1 ATTTTTTAAAAAAAATTAATA
17024776 AAAGCTGTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
32 7 0.17
33 25 0.61
34 9 0.22
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.51
Consensus pattern (33 bp):
ATTTTTTAAAAAAAATTAATATTATTTGAAAGA
Found at i:17025102 original size:27 final size:27
Alignment explanation
Indices: 17025064--17025130 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
17025054 TAAGCATAAT
17025064 TTGAAATATTCATATTTTTATACTAGG
1 TTGAAATATTCATATTTTTATACTAGG
17025091 TTGAAATATTCATATTTTTATACTAGG
1 TTGAAATATTCATATTTTTATACTAGG
*
17025118 TTCAAATATTCAT
1 TTGAAATATTCAT
17025131 GTAATTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (27 bp):
TTGAAATATTCATATTTTTATACTAGG
Found at i:17026388 original size:29 final size:28
Alignment explanation
Indices: 17026324--17026378 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
17026314 GTATTAGAGT
*
17026324 CAAGTTTACAAAAACTAGGGTGGCAAAGG
1 CAAGTTTACAAAAACTAAGGTGGCAAA-G
17026353 CAAGTTTACAAAAACTAAGGTGGCAA
1 CAAGTTTACAAAAACTAAGGTGGCAA
17026379 CACTAGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.18
Consensus pattern (28 bp):
CAAGTTTACAAAAACTAAGGTGGCAAAG
Found at i:17029808 original size:46 final size:48
Alignment explanation
Indices: 17029638--17029808 Score: 135
Period size: 46 Copynumber: 3.7 Consensus size: 48
17029628 ACTTGTGTGA
* * * * *
17029638 GCTAGCGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCGA-GACGAGT
* * *
17029684 GCTAGTGTAAGACCATGACTGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGACGAGT
* * * * *
17029732 GCTGGTGTAAGA-CATGTCTGGAATAT-GCATCGAC-TACGAGATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-CGAGACGAGT
17029778 -C-AGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
17029809 AGCACCTAAC
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
44 8 0.08
45 14 0.14
46 30 0.30
47 27 0.27
48 20 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGACGAGT
Found at i:17036190 original size:43 final size:44
Alignment explanation
Indices: 17036098--17036208 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 44
17036088 ATTACTGAGA
* * * *
17036098 TGTGATTACATGTAAAACCATGT-TTGAGACATTGGCATTGTAT
1 TGTGATTTCGTGTAAGACCATGTCTTGAGACATTGGCATCGTAT
17036141 TGTGATTAT-GTGTAAGACCATGTCTTG-GACATTGGCATCGTTAT
1 TGTGATT-TCGTGTAAGACCATGTCTTGAGACATTGGCATCG-TAT
* *
17036185 T-TGATTTCGTGTAAGGCCCTGTCT
1 TGTGATTTCGTGTAAGACCATGTCT
17036209 GGGATAGTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 1 0.02
43 50 0.86
44 7 0.12
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (44 bp):
TGTGATTTCGTGTAAGACCATGTCTTGAGACATTGGCATCGTAT
Found at i:17037235 original size:30 final size:30
Alignment explanation
Indices: 17037199--17037263 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
17037189 GTGGCTTGAC
*
17037199 CGTGTGTGACACATGGCCTTGGTACATAGT
1 CGTGTGTGACACATGGCCTTGGTACACAGT
* *
17037229 CGTGTGTGACACATGGCCTTTGTACACGGT
1 CGTGTGTGACACATGGCCTTGGTACACAGT
17037259 CGTGT
1 CGTGT
17037264 ATCCCCTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.31
Consensus pattern (30 bp):
CGTGTGTGACACATGGCCTTGGTACACAGT
Found at i:17041527 original size:27 final size:27
Alignment explanation
Indices: 17041497--17041553 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
17041487 AATAAATTCT
17041497 TTCTCACCTTATATTCAGTTATAATAC
1 TTCTCACCTTATATTCAGTTATAATAC
17041524 TTCTCACCTTATATTCAGTTATAATAC
1 TTCTCACCTTATATTCAGTTATAATAC
17041551 TTC
1 TTC
17041554 AGTTTCCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.46
Consensus pattern (27 bp):
TTCTCACCTTATATTCAGTTATAATAC
Found at i:17043262 original size:17 final size:16
Alignment explanation
Indices: 17043199--17043258 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 16
17043189 CCTAATTGGT
*
17043199 TTATTGATTTATTTCA
1 TTATTTATTTATTTCA
* *
17043215 TTTGTTTATTT-TTTCT
1 -TTATTTATTTATTTCA
* *
17043231 TTATTTGTTTCCTTTCA
1 TTATTTATTT-ATTTCA
17043248 TTATTTATTTA
1 TTATTTATTTA
17043259 CTTTTGTTCC
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 21 0.64
ACGTcount: A:0.17, C:0.08, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTATTTATTTCA
Found at i:17044147 original size:15 final size:16
Alignment explanation
Indices: 17044115--17044147 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17044105 TATTAGTTTC
*
17044115 TTTCAAATTTATAATT
1 TTTCAAAATTATAATT
17044131 TTTCAAAATTA-AATT
1 TTTCAAAATTATAATT
17044146 TT
1 TT
17044148 ATTTCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTCAAAATTATAATT
Found at i:17050067 original size:29 final size:29
Alignment explanation
Indices: 17049782--17050072 Score: 208
Period size: 29 Copynumber: 10.2 Consensus size: 29
17049772 CTTTTTTGGA
* *
17049782 TATCTCTGTTATAAGGAAACCTTTTTGGC
1 TATCTCTGTTATAAGGAAGCCTTTGTGGC
* * * *
17049811 AATCTCTATTCTAAGGAAGTCTTTGTGG-
1 TATCTCTGTTATAAGGAAGCCTTTGTGGC
*
17049839 TGATCTCTGTTATAAGGAAGTCTTTGTGG-
1 T-ATCTCTGTTATAAGGAAGCCTTTGTGGC
* * *
17049868 TGATCTTTGTTAAAAGGATGCCTTTGTGGGC
1 T-ATCTCTGTTATAAGGAAGCCTTTGT-GGC
* * * *
17049899 TATCTATG--A-ATGGACGCTTTTGTGGC
1 TATCTCTGTTATAAGGAAGCCTTTGTGGC
*
17049925 TA--TCTG--A-AAAGAAGCCTCCTTTGTGGC
1 TATCTCTGTTATAAGGAAG---CCTTTGTGGC
* * * * * *
17049952 GATATATGTTATAATGAAACCTTTGTAGC
1 TATCTCTGTTATAAGGAAGCCTTTGTGGC
17049981 TATCTCTGTTATAAGGAAGCCTTTGTGGC
1 TATCTCTGTTATAAGGAAGCCTTTGTGGC
* ** *
17050010 GATCTCCATTA-AATGAAAGCCTTTGTGGC
1 TATCTCTGTTATAA-GGAAGCCTTTGTGGC
*
17050039 TATCTCTGTTATAAGGAAGCCTTTATGGC
1 TATCTCTGTTATAAGGAAGCCTTTGTGGC
17050068 TATCT
1 TATCT
17050073 ATTGATGAAT
Statistics
Matches: 207, Mismatches: 42, Indels: 26
0.75 0.15 0.09
Matches are distributed among these distances:
24 8 0.04
26 5 0.02
27 21 0.10
28 3 0.01
29 153 0.74
30 10 0.05
31 2 0.01
32 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (29 bp):
TATCTCTGTTATAAGGAAGCCTTTGTGGC
Found at i:17051893 original size:56 final size:56
Alignment explanation
Indices: 17051826--17051938 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
17051816 CTAGTAGAGT
17051826 TGCAAGTGAATCCTACTTTGGTTAGTAAGATTAAGGATAAGTAGCCTTTAGATGTG
1 TGCAAGTGAATCCTACTTTGGTTAGTAAGATTAAGGATAAGTAGCCTTTAGATGTG
17051882 TGCAAGTGAATCCTACTTTGGTTAGTAAGATTAAGGATAAGTAGCCTTTAGATGTG
1 TGCAAGTGAATCCTACTTTGGTTAGTAAGATTAAGGATAAGTAGCCTTTAGATGTG
17051938 T
1 T
17051939 CTCTATTGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (56 bp):
TGCAAGTGAATCCTACTTTGGTTAGTAAGATTAAGGATAAGTAGCCTTTAGATGTG
Found at i:17056590 original size:18 final size:18
Alignment explanation
Indices: 17056569--17056606 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17056559 ATTTTTTGAA
* *
17056569 AAAAATTAATATTAAAAT
1 AAAAAGTAATAGTAAAAT
17056587 AAAAAGTAATAGTAAAAT
1 AAAAAGTAATAGTAAAAT
17056605 AA
1 AA
17056607 TCAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAGTAATAGTAAAAT
Found at i:17057584 original size:17 final size:17
Alignment explanation
Indices: 17057564--17057603 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17057554 GTGAACAAAT
*
17057564 ATTAAAATTTATAAAAA
1 ATTAAAAGTTATAAAAA
17057581 ATTAAAAGTTATAAAAA
1 ATTAAAAGTTATAAAAA
17057598 A-TAAAA
1 ATTAAAA
17057604 AAAAATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
ATTAAAAGTTATAAAAA
Found at i:17061233 original size:16 final size:15
Alignment explanation
Indices: 17061203--17061231 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17061193 TTGATATATC
17061203 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
17061218 TTTTTTTAATATTT
1 TTTTTTTAATATTT
17061232 TACTATACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:17063119 original size:32 final size:31
Alignment explanation
Indices: 17063075--17063135 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
17063065 AAAAAGGTCA
17063075 TTTTTTTACAAAATATTATCGGATTAGGCCTT
1 TTTTTTTACAAAAT-TTATCGGATTAGGCCTT
* *
17063107 TTTTTTTTCAAAATTTATCGGGTTAGGCC
1 TTTTTTTACAAAATTTATCGGATTAGGCC
17063136 AATTTTGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.48
Consensus pattern (31 bp):
TTTTTTTACAAAATTTATCGGATTAGGCCTT
Found at i:17066890 original size:18 final size:18
Alignment explanation
Indices: 17066867--17066903 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17066857 TGTCGGGGAA
17066867 TGCTGGGCACCCTATTTG
1 TGCTGGGCACCCTATTTG
17066885 TGCTGGGCACCCTATTTG
1 TGCTGGGCACCCTATTTG
17066903 T
1 T
17066904 AGATGACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.27, G:0.27, T:0.35
Consensus pattern (18 bp):
TGCTGGGCACCCTATTTG
Found at i:17068063 original size:21 final size:21
Alignment explanation
Indices: 17068038--17068079 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17068028 TTTTTATCAT
17068038 TTTTGAGC-TTTAGTATCGATA
1 TTTTG-GCATTTAGTATCGATA
*
17068059 TTTTGGCATTTGGTATCGATA
1 TTTTGGCATTTAGTATCGATA
17068080 CTTGACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (21 bp):
TTTTGGCATTTAGTATCGATA
Found at i:17073154 original size:54 final size:54
Alignment explanation
Indices: 17073072--17073176 Score: 128
Period size: 54 Copynumber: 1.9 Consensus size: 54
17073062 CATGTGTCAC
* *
17073072 GACCGTGTAACTCTTTGCCTTGAGTCACAC-AGGCGTGTG-TCAGGTTGTGTGCCA
1 GACCGTGTAACTCTTTGACTTGAGTCACACGA-CCGTGTGAT-AGGTTGTGTGCCA
17073126 GACCGTGTAACTCTCTT-ACTTG-GATCACACGACCGTGTGATAGGTTGTGTG
1 GACCGTGTAACTCT-TTGACTTGAG-TCACACGACCGTGTGATAGGTTGTGTG
17073177 AGGCATTGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
53 1 0.02
54 40 0.89
55 4 0.09
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (54 bp):
GACCGTGTAACTCTTTGACTTGAGTCACACGACCGTGTGATAGGTTGTGTGCCA
Found at i:17076264 original size:46 final size:46
Alignment explanation
Indices: 17076214--17076385 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
17076204 TGAGCATCCA
*
17076214 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * * *
17076260 AACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CGTCCG
* * * *
17076307 AACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* *
17076353 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17076386 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 53 0.54
47 23 0.23
48 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:17076366 original size:93 final size:93
Alignment explanation
Indices: 17076207--17076376 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
17076197 GGATGGTTGA
* * * *
17076207 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
17076272 TGAGTCTGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
17076300 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
17076365 TGAGTCCGAGTT
66 TGAGTCCGAGTT
17076377 CGCTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:17078737 original size:24 final size:24
Alignment explanation
Indices: 17078686--17078731 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17078676 CCGTAGAAAT
*
17078686 TTGAATAGGTGCCTTAGCAGCACG
1 TTGAATAGGTGCCTTAGCAGAACG
* *
17078710 TTGAATGGGTGCTTTAGCAGAA
1 TTGAATAGGTGCCTTAGCAGAA
17078732 GCTTGAGTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (24 bp):
TTGAATAGGTGCCTTAGCAGAACG
Found at i:17088512 original size:56 final size:56
Alignment explanation
Indices: 17088440--17088553 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
17088430 AGTTTTAAAG
17088440 AGTGTTTATTGTTCATTGTCACATCGAGTGGATTACGTGAGGCTGAAACTTTTCGT
1 AGTGTTTATTGTTCATTGTCACATCGAGTGGATTACGTGAGGCTGAAACTTTTCGT
17088496 AGTGTTTATTGTTCATTGTCACATCGAGTGGATTACGTGAGGCTGAAACTTTTCGT
1 AGTGTTTATTGTTCATTGTCACATCGAGTGGATTACGTGAGGCTGAAACTTTTCGT
17088552 AG
1 AG
17088554 CAGCTTGGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (56 bp):
AGTGTTTATTGTTCATTGTCACATCGAGTGGATTACGTGAGGCTGAAACTTTTCGT
Found at i:17095081 original size:98 final size:98
Alignment explanation
Indices: 17094912--17095105 Score: 379
Period size: 98 Copynumber: 2.0 Consensus size: 98
17094902 TTAAGGACGA
17094912 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
1 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
17094977 AACTAGTCTTTTAATTTTAGCTTCATTTTCTAG
66 AACTAGTCTTTTAATTTTAGCTTCATTTTCTAG
17095010 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
1 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
*
17095075 AACTAGTCTTTTAATTTTAGCTTGATTTTCT
66 AACTAGTCTTTTAATTTTAGCTTCATTTTCT
17095106 TTCTCTTTTA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (98 bp):
TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
AACTAGTCTTTTAATTTTAGCTTCATTTTCTAG
Found at i:17102782 original size:46 final size:46
Alignment explanation
Indices: 17102721--17102990 Score: 250
Period size: 46 Copynumber: 5.8 Consensus size: 46
17102711 GATATTTGAG
* *
17102721 CATCCCAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
17102767 CATCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
17102809 CTAGGATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 C----ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * *
17102859 CGTCCGAACTCGTTGAGTTGAGTCCAAGTTCA-TGA--GATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
17102906 CATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
17102952 CGTCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17102991 GCGGGTTACG
Statistics
Matches: 179, Mismatches: 28, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.02
43 8 0.04
45 4 0.02
46 119 0.66
47 32 0.18
48 2 0.01
49 4 0.02
50 7 0.04
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:17102842 original size:92 final size:93
Alignment explanation
Indices: 17102733--17102983 Score: 432
Period size: 92 Copynumber: 2.7 Consensus size: 93
17102723 TCCCAACTTG
*
17102733 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTC
*
17102798 GTGAGATGTAACTAGG-ATCCGAGCTCA
66 GTGAGATGTAACTAGGCATCCAAGCTCA
**
17102825 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCAAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTC
* *
17102890 ATGAGATGTAACTAGGCATCCAAGCTCG
66 GTGAGATGTAACTAGGCATCCAAGCTCA
*
17102918 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTC
17102983 G
66 G
17102984 CTTATGGGCG
Statistics
Matches: 148, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 77 0.52
93 71 0.48
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTC
GTGAGATGTAACTAGGCATCCAAGCTCA
Found at i:17120424 original size:15 final size:14
Alignment explanation
Indices: 17120386--17120429 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
17120376 CTTGCCTCTC
*
17120386 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-CTT-A
17120402 TTTTCTTTTTCTTA
1 TTTTCTTTTTCTTA
17120416 TTTTGCTTTTTCTT
1 TTTT-CTTTTTCTT
17120430 TTCTTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 11 0.42
16 10 0.38
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTCTTTTTCTTA
Found at i:17120450 original size:21 final size:20
Alignment explanation
Indices: 17120382--17120451 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
17120372 GCCTCTTGCC
17120382 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
17120405 TCT-TTTTCTTATTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
17120425 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
17120445 TCTCTTT
1 TCTCTTT
17120452 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:17121396 original size:12 final size:12
Alignment explanation
Indices: 17121376--17121413 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
17121366 TTTTTTTCTA
17121376 TTCGAATTTTTT
1 TTCGAATTTTTT
*
17121388 TTTGAATTTTTT
1 TTCGAATTTTTT
17121400 TTCGAATTTTTT
1 TTCGAATTTTTT
17121412 TT
1 TT
17121414 GACTTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (12 bp):
TTCGAATTTTTT
Found at i:17123124 original size:30 final size:30
Alignment explanation
Indices: 17123090--17123186 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
17123080 TAGACTAAAA
17123090 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
17123120 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
17123150 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
17123180 TGAGCTA
1 TGAGCTA
17123187 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:17128024 original size:14 final size:14
Alignment explanation
Indices: 17128007--17128038 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17127997 CAAAAATCAC
17128007 TTAACAAAATACTT
1 TTAACAAAATACTT
17128021 TTAACAAAATACTT
1 TTAACAAAATACTT
17128035 TTAA
1 TTAA
17128039 ATAACAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAACAAAATACTT
Found at i:17130900 original size:24 final size:24
Alignment explanation
Indices: 17130873--17130921 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17130863 ATTATGAACT
17130873 TTTATTCATACCCTCATGAGTTTC
1 TTTATTCATACCCTCATGAGTTTC
*
17130897 TTTATTCATACCTTCATGAGTTTC
1 TTTATTCATACCCTCATGAGTTTC
17130921 T
1 T
17130922 ACTCGTCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.49
Consensus pattern (24 bp):
TTTATTCATACCCTCATGAGTTTC
Found at i:17134095 original size:24 final size:24
Alignment explanation
Indices: 17134068--17134114 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17134058 TTATTGCCAA
17134068 TTCATATCAG-TCAAATATTCATTT
1 TTCATATCAGCT-AAATATTCATTT
*
17134092 TTCATATCAGCTGAATATTCATT
1 TTCATATCAGCTAAATATTCATT
17134115 GTACCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (24 bp):
TTCATATCAGCTAAATATTCATTT
Found at i:17135781 original size:48 final size:50
Alignment explanation
Indices: 17135702--17135843 Score: 189
Period size: 48 Copynumber: 2.9 Consensus size: 50
17135692 GGACATGTAT
* * *
17135702 CGAATTTGAGATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCAGCA
1 CGAATATGAGA-GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
* *
17135753 CGTATA-GAG-GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CGAATATGAGAGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
* * *
17135801 CGAATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
1 CGAATATGAGAGTGTTAGTGTAAGACCATGTCTGGGACATGGC
17135844 GTCGGCCTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
48 41 0.51
49 2 0.03
50 33 0.41
51 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (50 bp):
CGAATATGAGAGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
Found at i:17135832 original size:50 final size:49
Alignment explanation
Indices: 17135719--17135899 Score: 183
Period size: 48 Copynumber: 3.7 Consensus size: 49
17135709 GAGATGTGTC
* * * *
17135719 AGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATA-GAG-GTGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGAG-T
*
17135767 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGAG-T
* * * *
17135817 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCAAT-T-TCGATAGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-GAATATGT-GAGAGT
* *
17135865 CAATGTAAGACCATGTCTAGGACATGGCATTGGCA
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCA
17135900 TTATACCCAA
Statistics
Matches: 114, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
48 39 0.34
49 37 0.32
50 38 0.33
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGAGT
Found at i:17137832 original size:16 final size:16
Alignment explanation
Indices: 17137813--17137847 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17137803 CGAAAATCCA
17137813 AAATGCCAAAAAGCCG
1 AAATGCCAAAAAGCCG
*
17137829 AAATGCCAAAAAGCTG
1 AAATGCCAAAAAGCCG
17137845 AAA
1 AAA
17137848 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.09
Consensus pattern (16 bp):
AAATGCCAAAAAGCCG
Found at i:17138130 original size:29 final size:29
Alignment explanation
Indices: 17138072--17138147 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
17138062 TGAATGTGAC
* *
17138072 TGGGCCTAATGGGCCATATAAATGAGATT
1 TGGGCCTAATGGGCCATACAAAGGAGATT
* **
17138101 TGGGCCTAATGGGCCATACATAGGTTATT
1 TGGGCCTAATGGGCCATACAAAGGAGATT
* *
17138130 TGGTCCTAATAGGCCATA
1 TGGGCCTAATGGGCCATA
17138148 TGAATATGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATACAAAGGAGATT
Found at i:17143038 original size:20 final size:20
Alignment explanation
Indices: 17143012--17143077 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
17143002 GGTGTACGTG
*
17143012 CAAACAGGAGTACTGAAGTA
1 CAAACAGGGGTACTGAAGTA
* * *
17143032 GAAACAGGGGCA-TGTATGTA
1 CAAACAGGGGTACTG-AAGTA
17143052 CAAACAGGGGTACTGAAGTA
1 CAAACAGGGGTACTGAAGTA
*
17143072 TAAACA
1 CAAACA
17143078 ATGGCACCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.17
Consensus pattern (20 bp):
CAAACAGGGGTACTGAAGTA
Found at i:17143111 original size:40 final size:40
Alignment explanation
Indices: 17143009--17143116 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
17142999 GGGGGTGTAC
* * * **
17143009 GTGCAAACAGGAGTACTGAAGTAGAAACAGGGGCATGTAT
1 GTGCAAACAGGGGTACTGAAGTACAAACAAGGGCACCTAT
* * *
17143049 GTACAAACAGGGGTACTGAAGTATAAACAATGGCACCTAT
1 GTGCAAACAGGGGTACTGAAGTACAAACAAGGGCACCTAT
**
17143089 GTGCAAACAGGGGTACCAAAGTACAAAC
1 GTGCAAACAGGGGTACTGAAGTACAAAC
17143117 TAAGAAACCA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.17
Consensus pattern (40 bp):
GTGCAAACAGGGGTACTGAAGTACAAACAAGGGCACCTAT
Found at i:17143115 original size:20 final size:20
Alignment explanation
Indices: 17143049--17143116 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
17143039 GGGCATGTAT
**
17143049 GTACAAACAGGGGTACTGAA
1 GTACAAACAGGGGTACCAAA
* ** * * *
17143069 GTATAAACAATGGCACCTAT
1 GTACAAACAGGGGTACCAAA
*
17143089 GTGCAAACAGGGGTACCAAA
1 GTACAAACAGGGGTACCAAA
17143109 GTACAAAC
1 GTACAAAC
17143117 TAAGAAACCA
Statistics
Matches: 33, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (20 bp):
GTACAAACAGGGGTACCAAA
Found at i:17148187 original size:27 final size:27
Alignment explanation
Indices: 17148157--17148210 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
17148147 ATAAATGAGA
17148157 TCAACAGATTACCCTTCTGGGATAAAT
1 TCAACAGATTACCCTTCTGGGATAAAT
*
17148184 TCAACAGATTACCCTTCTGGGCTAAAT
1 TCAACAGATTACCCTTCTGGGATAAAT
17148211 CCTTACTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (27 bp):
TCAACAGATTACCCTTCTGGGATAAAT
Found at i:17149088 original size:27 final size:27
Alignment explanation
Indices: 17149050--17149103 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17149040 GGAGAAGAAG
17149050 AATGGCTGATTTTTGGTACATTTTTCC
1 AATGGCTGATTTTTGGTACATTTTTCC
17149077 AATGGCTGATTTTTGGTACATTTTTCC
1 AATGGCTGATTTTTGGTACATTTTTCC
17149104 CATTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (27 bp):
AATGGCTGATTTTTGGTACATTTTTCC
Found at i:17158594 original size:41 final size:40
Alignment explanation
Indices: 17158532--17158674 Score: 151
Period size: 41 Copynumber: 3.5 Consensus size: 40
17158522 TAAATCGGGT
** **
17158532 CACGTATGTGCAATTCGGGGGTAGCAAAGTACAAATGGGGG
1 CACGTATGTGCAATTTAGGGGTA-CAAAGTACAAACAGGGG
* *
17158573 CACGCATGTGCAATTTAGGGGTACCGAAGTACAAACAGGGG
1 CACGTATGTGCAATTTAGGGGTA-CAAAGTACAAACAGGGG
** *
17158614 CATATATGTGTAATTTAGGGGTACTAAAGTACAAACAGGGG
1 CACGTATGTGCAATTTAGGGGTAC-AAAGTACAAACAGGGG
* * *
17158655 CACATATGTGTAATTCAGGG
1 CACGTATGTGCAATTTAGGG
17158675 AATAATTAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 86 0.99
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (40 bp):
CACGTATGTGCAATTTAGGGGTACAAAGTACAAACAGGGG
Found at i:17160342 original size:48 final size:48
Alignment explanation
Indices: 17160290--17160399 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
17160280 AAACCACATC
* * *
17160290 TGGGACATGGCGTCGGCATTGTTATGTGAGCAAGTGTAAGACCATGTA
1 TGGGACATGGCATCGGCATCGTTATGTAAGCAAGTGTAAGACCATGTA
* *
17160338 TGGGACATGGCATCGGCATCGTTATGTAAGCCAGTGTAAGACCATGTC
1 TGGGACATGGCATCGGCATCGTTATGTAAGCAAGTGTAAGACCATGTA
17160386 TGGGACATGGCATC
1 TGGGACATGGCATC
17160400 ATGAGGCATC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (48 bp):
TGGGACATGGCATCGGCATCGTTATGTAAGCAAGTGTAAGACCATGTA
Found at i:17161734 original size:48 final size:48
Alignment explanation
Indices: 17161682--17161809 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
17161672 GTGTAACTGC
17161682 GTAAGACCATGTCTGGGACATGGCATCGGCAT-TGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCT-TTATGTGAGCCAGT
* *
17161730 GTAAGACCATGTTTGGGACATGGCATCGGAATCTTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCTTTATGTGAGCCAGT
* *
17161778 GTAAGACCATTTCTAGGACATGGCATCGGCAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCAT
17161810 GGGGCATCGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 72 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCTTTATGTGAGCCAGT
Found at i:17162632 original size:14 final size:14
Alignment explanation
Indices: 17162613--17162642 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17162603 AAGCTATGAT
17162613 TTATATTTTTTAAA
1 TTATATTTTTTAAA
17162627 TTATATTTTTTAAA
1 TTATATTTTTTAAA
17162641 TT
1 TT
17162643 CTTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATATTTTTTAAA
Found at i:17162976 original size:19 final size:21
Alignment explanation
Indices: 17162948--17162988 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
17162938 TGAATAGTAA
*
17162948 AAAAATTAGT-AAAAATCATT
1 AAAAATTAGTCAAAAATAATT
17162968 AAAAA-TAGTCAAAAATAATT
1 AAAAATTAGTCAAAAATAATT
17162988 A
1 A
17162989 CAGCTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAATTAGTCAAAAATAATT
Found at i:17165809 original size:38 final size:39
Alignment explanation
Indices: 17165748--17165850 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 39
17165738 ATTTGATGTG
*
17165748 TATCCGGGCTTAAAGACCCGCAGGCTATA-TGCTGGAATTA
1 TATCCGGG-TTAAAGTCCCGCAGG-TATAGTGCTGGAATTA
*
17165788 TATCCGGGTTAAA-TCCCGCAGGTATAGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGTATAGTGCTGGAATTA
* *
17165826 TATCCGAGCTTAAAGTCCCACAGGT
1 TATCCG-GGTTAAAGTCCCGCAGGT
17165851 TTTGTGTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
37 4 0.07
38 24 0.43
39 11 0.20
40 17 0.30
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGTATAGTGCTGGAATTA
Found at i:17166466 original size:16 final size:18
Alignment explanation
Indices: 17166435--17166467 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17166425 AGTTCATCAC
17166435 ACTATTGATCATTTTGGT
1 ACTATTGATCATTTTGGT
17166453 ACTATT-AT-ATTTTGG
1 ACTATTGATCATTTTGG
17166468 AGTTGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (18 bp):
ACTATTGATCATTTTGGT
Found at i:17172923 original size:376 final size:375
Alignment explanation
Indices: 17172212--17173286 Score: 1920
Period size: 376 Copynumber: 2.9 Consensus size: 375
17172202 CTGAATTTGG
*
17172212 AAAATCATTAAAAATAGT-AAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAAT
1 AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
*
17172276 GAAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
66 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
* * * * * *
17172341 TTTAGTGAAGAAAGGTTGAAACAGTCAGAAAGCAGAACAGGGACGATTTTAAAAAATAAACTGTG
131 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTA
* * *
17172406 CTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGTTGAGTTTAGTTCCAGG
196 CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCAGG
*
17172471 GAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATACAAATAATTTAGTGACTATAAC
261 GAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
*
17172536 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATTATTA
326 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
17172586 AAAATCATTAAAAATAGTAAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAG
1 AAAATCATTAAAAATAGT-AAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAG
* *
17172651 TGAATATATTTTGAAGAGAATCAAACCAGGACATCATCCGAGTCTCGTACGAGGAGATAATATTT
65 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATT
17172716 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGT
130 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGT
17172781 ACTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCAG
195 ACTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCAG
17172846 GGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAA
260 GGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAA
17172911 CTTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
325 CTTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
* *
17172962 AAAATCGTTAAAAATAGTAAATAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
1 AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
17173027 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
66 GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
17173092 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTA
131 TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTA
**
17173157 CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGAT-TCTTGAGTTTAGTTTTAG
196 CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATAT-TTGAGTTTAGTTCCAG
* * *
17173221 GAAAAATTAGCAAAAATTAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAA
260 GGAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAA
17173286 C
325 C
17173287 GAGTTTTCCT
Statistics
Matches: 674, Mismatches: 24, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
374 19 0.03
375 297 0.44
376 358 0.53
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (375 bp):
AAAATCATTAAAAATAGTAAAAAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAGT
GAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAATTT
TTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTTAAAAAATAAACTGTA
CTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCAGG
GAAAATTAGCAAAACTAAATTTGGAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATTA
Found at i:17174661 original size:375 final size:375
Alignment explanation
Indices: 17173971--17174670 Score: 1206
Period size: 375 Copynumber: 1.9 Consensus size: 375
17173961 CTGACTTTGG
17173971 AAAATCATTAAAAATAGTAAAAAAAAATATTACAAGCTATGATTTATATTTTTAAATTCTTAATG
1 AAAATCATTAAAAATAGTAAAAAAAAATATTACAAGCTATGATTTATATTTTTAAATTCTTAATG
* *
17174036 AAAATGTTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACGAGGAGATAATAAATTT
66 AAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACAAGGAGATAATAAATTT
* *
17174101 TTAGTGAAGAAGGGTTGAAACTGTCAGATAGCAGAACAGGGACGATTTTAAAAAAATAAACTGTA
131 TTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGGGACAATTTTAAAAAAATAAACTGTA
* *
17174166 CTTATTGGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGTTGAGTTCAGTTTCAGG
196 CTTATTAGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGTTGAGTTCAGTTCCAGG
* *
17174231 GAAAATTAGCAAAACTAAATTTGAAGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATAAC
261 GAAAATTAGCAAAAATAAATTTGAAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATAAC
17174296 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATAA
326 TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATAA
* *
17174346 AAAATCATTAAAAATAGT-AAATAAAATAATTACAAGCTATGATTTATATTTTTTAAATTCTTAG
1 AAAATCATTAAAAATAGTAAAAAAAAAT-ATTACAAGCTATGATTTATA-TTTTTAAATTCTTAA
* *
17174410 TGAATATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACAAGGAGATAATAATT
64 TGAAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACAAGGAGATAATAAAT
*
17174475 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAATAGGGACAATTTT-AAAAAATAAACTG
129 TTTTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGGGACAATTTTAAAAAAATAAACTG
* * *
17174539 TACTTATTAGCTAAACCAAAAATTTTGAAAATTTTATTGTAAGGAGATATTTGAGTTTAGTTCCA
194 TACTTATTAGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGTTGAGTTCAGTTCCA
* *
17174604 GGGAAAATTAGCAAAAATTAATTTGGAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATA
259 GGGAAAATTAGCAAAAATAAATTTGAAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATA
17174669 AC
324 AC
17174671 GAGTTTTCCT
Statistics
Matches: 305, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
374 8 0.03
375 174 0.57
376 123 0.40
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (375 bp):
AAAATCATTAAAAATAGTAAAAAAAAATATTACAAGCTATGATTTATATTTTTAAATTCTTAATG
AAAATATTTTGAAGAGAATCAAACCAGAACATCATCCGAGTCTCGTACAAGGAGATAATAAATTT
TTAGTGAAGAAGGGTTGAAACTGTCAGACAGCAGAACAGGGACAATTTTAAAAAAATAAACTGTA
CTTATTAGCTAAACAAAAAATTTTGAAAATTTTATTGTAAGGAGATAGTTGAGTTCAGTTCCAGG
GAAAATTAGCAAAAATAAATTTGAAGTTCCATAGCTCAAGATATAAATAATTTAGTGACTATAAC
TTGCGTAGACAACTTGGTATGAACATAAGTGAATAGTAAAAAAATCATAA
Found at i:17178324 original size:48 final size:48
Alignment explanation
Indices: 17178272--17178396 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
17178262 GTAACCGCGA
* **
17178272 AAGACCATGTCTAGGACATGGCATCGGTATTGTTATGTGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGTATCATTATGTGAGCCAGTGT
*** * *
17178320 AAGACCATGTCTGGGACATGTTTTCAGAATCATTATGTGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGTATCATTATGTGAGCCAGTGT
*
17178368 AAGACCATGTTTGGGACATGGCATCGGTA
1 AAGACCATGTCTGGGACATGGCATCGGTA
17178397 CGAGGCATCG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATCGGTATCATTATGTGAGCCAGTGT
Found at i:17179762 original size:48 final size:48
Alignment explanation
Indices: 17179706--17179833 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 48
17179696 GTGTAACCGC
*
17179706 GTAAGACCATGTCTAGGACATGGCATCAGCAT-TTCTATGTGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCAGCATCGT-TATGTGAGCCAGT
* * * ** *
17179754 GTAGGACCATGCCTGGGACATGGCATTGGAATCGTTATGTGAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCAGCATCGTTATGTGAGCCAGT
*
17179802 GTAAGACCATGTCTAGGACATAGCATCAGCAT
1 GTAAGACCATGTCTAGGACATGGCATCAGCAT
17179834 GAGGCATCAT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
48 64 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTAGGACATGGCATCAGCATCGTTATGTGAGCCAGT
Found at i:17181498 original size:37 final size:37
Alignment explanation
Indices: 17181448--17181519 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
17181438 TTTAGCTCGA
* *
17181448 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGAGTCTTACCCGGGC
*
17181485 ATAATCTCCACACGTAGCCATCGAGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGAGTCTTACCCGG
17181520 AATATATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGAGTCTTACCCGGGC
Found at i:17181717 original size:48 final size:48
Alignment explanation
Indices: 17181661--17181758 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
17181651 ATATATCCAC
* *
17181661 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACACATACAT
* *
17181709 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACACATACAT
17181757 AT
1 AT
17181759 ATTTATCTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACACATACAT
Found at i:17186456 original size:37 final size:37
Alignment explanation
Indices: 17186411--17186511 Score: 132
Period size: 36 Copynumber: 2.8 Consensus size: 37
17186401 AACGTATGGA
17186411 ATGTAAGACCATAGCTGGGCTATGGCATTGTAATGAC
1 ATGTAAGACCATAGCTGGGCTATGGCATTGTAATGAC
* ***
17186448 ATGTAAGACCATAGCT-GGCTATGGCATTGTGATTTT
1 ATGTAAGACCATAGCTGGGCTATGGCATTGTAATGAC
* * *
17186484 GTGTAAGACCATAGTTGGACTATGGCAT
1 ATGTAAGACCATAGCTGGGCTATGGCAT
17186512 CAAGTAAACG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
36 30 0.54
37 26 0.46
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (37 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTGTAATGAC
Found at i:17190018 original size:48 final size:48
Alignment explanation
Indices: 17189962--17190181 Score: 287
Period size: 48 Copynumber: 4.6 Consensus size: 48
17189952 TTGTAACCGC
**
17189962 GTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* *
17190010 GTAAGACCATGTCTAGGACATGGCATCGGCATCATTATGTGAGCCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* * * *
17190058 GTCAGACCATGTCTAGGACATGGCATCGACATCATTATGTGAACCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* ** ** * *
17190106 CTAAGACCATGTCTGGGACATGGCATTAGCATTGTTAAGTTAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
* *
17190154 GTAAGAACATGTCCGGGACATGGCATCG
1 GTAAGACCATGTCTGGGACATGGCATCG
17190182 ACATGAGGCA
Statistics
Matches: 148, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
Found at i:17197102 original size:49 final size:49
Alignment explanation
Indices: 17197048--17197147 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
17197038 GTTTGTAGAA
* *
17197048 ACGTAAATTGCACTTTGGTGAATTGCTAGTAAGCTAAGTGCTTCTTTGT
1 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
* * *
17197097 ACGTAAATCGCAGTTTGGTCAATTGCTAGTAAGCTGAGTGTTTCTTTGT
1 ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
17197146 AC
1 AC
17197148 CTTTCAGGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (49 bp):
ACGTAAATCGCACTTTGGTCAATTGCTAGTAAGCTAAGTGCTTCTTTGT
Found at i:17198513 original size:27 final size:27
Alignment explanation
Indices: 17198456--17198521 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
17198446 TGTATTATAG
** *
17198456 TGGTGGCTTCACCACATATACTATTAC
1 TGGTGGCTTTGCCACATATACTATTAA
17198483 TGGTGGCTTTGCCACATATACTGA-TAA
1 TGGTGGCTTTGCCACATATACT-ATTAA
*
17198510 TGGTAGCTTTGC
1 TGGTGGCTTTGC
17198522 TGAGATACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
TGGTGGCTTTGCCACATATACTATTAA
Found at i:17198547 original size:26 final size:26
Alignment explanation
Indices: 17198500--17198554 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
17198490 TTTGCCACAT
* *
17198500 ATACTGATAATGGTAGCTTTGCTGAG
1 ATACTGATAATGGCAGCCTTGCTGAG
* * *
17198526 ATACTGTTACTGGCAGCCTTGCTGCG
1 ATACTGATAATGGCAGCCTTGCTGAG
17198552 ATA
1 ATA
17198555 ATGGTGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (26 bp):
ATACTGATAATGGCAGCCTTGCTGAG
Found at i:17205861 original size:27 final size:27
Alignment explanation
Indices: 17205822--17205880 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
17205812 GAAGGGTATT
17205822 ATACTAGTGGCTTCGCCACATATACTG
1 ATACTAGTGGCTTCGCCACATATACTG
* *
17205849 TTACTAGTGGCTTTGCCACATATACTG
1 ATACTAGTGGCTTCGCCACATATACTG
17205876 ATACT
1 ATACT
17205881 GGCAGTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (27 bp):
ATACTAGTGGCTTCGCCACATATACTG
Found at i:17208045 original size:43 final size:43
Alignment explanation
Indices: 17207963--17208046 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
17207953 TGTGATTTCA
* * *
17207963 ATATGTGTTTACAAGTAAGACCCTGTCTGGGACAGTGGCATCG
1 ATATGTGATTACAAGTAAGACCCTATCTAGGACAGTGGCATCG
*
17208006 ATATGTGATTACATGTAAGACCAC-ATCTAGGAC-GCTGGCAT
1 ATATGTGATTACAAGTAAGACC-CTATCTAGGACAG-TGGCAT
17208047 TGTACGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
ATATGTGATTACAAGTAAGACCCTATCTAGGACAGTGGCATCG
Found at i:17217087 original size:40 final size:40
Alignment explanation
Indices: 17217003--17217186 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
17216993 TTGAATGCTG
* * * *
17217003 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
17217042 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
17217083 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
17217123 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
17217163 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17217187 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:17217140 original size:80 final size:81
Alignment explanation
Indices: 17217003--17217183 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
17216993 TTGAATGCTG
* * *
17217003 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
17217067 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
17217083 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
17217144 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
17217163 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
17217184 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:17217207 original size:39 final size:39
Alignment explanation
Indices: 17217071--17217233 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
17217061 GGTATTTGTG
* * * **
17217071 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
17217111 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
17217151 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
17217190 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
17217230 CGAG
1 CGAG
17217234 GAGCTAAATT
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.28
40 75 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:17225195 original size:49 final size:47
Alignment explanation
Indices: 17225093--17225313 Score: 178
Period size: 49 Copynumber: 4.6 Consensus size: 47
17225083 TGTGTGTGCT
* * * *
17225093 AGTGTAAGACTTGTCTGGGATATGGCATCAGCATCGATAGATAAG-AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GCCTC-A-AGATATGAAGCC
* * *
17225142 AGTGTAAGACCTGTCTGGGACATAGTATCGGCCTCAAGATATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GCCTCAAGATATG-AAGCC
* *
17225191 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-AGATAAGTGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGCCTCAAGAT-A-TG-AAGCC
* * * *
17225240 AGTGTAAAACCTGTCTGGGACATGGCATCGACTTAA-ATGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGCCTCAAGATATGA-AGCC
** * *
17225287 AAAGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
17225314 GTCGGCATTG
Statistics
Matches: 142, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 24 0.17
48 18 0.13
49 98 0.69
50 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGCCTCAAGATATGAAGCC
Found at i:17236426 original size:20 final size:20
Alignment explanation
Indices: 17236403--17236463 Score: 50
Period size: 22 Copynumber: 2.9 Consensus size: 20
17236393 TATGGTAGTA
17236403 TATCTAAATATCTGGTGGTT
1 TATCTAAATATCTGGTGGTT
* * * *
17236423 TATCCACATAATTCTAGTAGTT
1 TATCTAAAT-A-TCTGGTGGTT
*
17236445 TATCTACAATTTCTGGTGG
1 TATCTA-AATATCTGGTGG
17236464 CTTGTCCACA
Statistics
Matches: 29, Mismatches: 9, Indels: 5
0.67 0.21 0.12
Matches are distributed among these distances:
20 7 0.24
21 7 0.24
22 13 0.45
23 2 0.07
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (20 bp):
TATCTAAATATCTGGTGGTT
Found at i:17240109 original size:90 final size:90
Alignment explanation
Indices: 17239936--17240110 Score: 199
Period size: 90 Copynumber: 1.9 Consensus size: 90
17239926 CCATATAAAA
* ** * * *
17239936 TGCCAAAGCCATGTCCCCGACATGGTCTTACATGGGTTTACATACCGATGTCATATCCCAGATAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGCCTACATACCAATGCCATATCCCAGAAAT
* *
17240001 GATCTTAAATGAAGTCTCATGTCAG
66 GATCTTAAACGAAATCTCATGTCAG
* * * * *
17240026 TGCCAATGCCATGTCCTAGACATGGTCTTATATGGGACCT-CATATCAATGCCATGTCCCAGAAA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CCTACATACCAATGCCATATCCCAGAAA
* *
17240090 TGGTCTTACACGAAATCTCAT
65 TGATCTTAAACGAAATCTCAT
17240111 ATCAACGCCA
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
90 68 0.99
91 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (90 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGCCTACATACCAATGCCATATCCCAGAAAT
GATCTTAAACGAAATCTCATGTCAG
Found at i:17240110 original size:42 final size:42
Alignment explanation
Indices: 17240029--17240153 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
17240019 ATGTCAGTGC
* * * ** *
17240029 CAATGCCATGTCCTAGACATGGTCTTATATGGGACCTCATAT
1 CAATGCCATGTCCCAGAAATGGTCTTACATGAAATCTCATAT
*
17240071 CAATGCCATGTCCCAGAAATGGTCTTACACGAAATCTCATAT
1 CAATGCCATGTCCCAGAAATGGTCTTACATGAAATCTCATAT
* * * ** *
17240113 CAACGCCATATCCGAGATGTGGTCTTACATGAAATCACATA
1 CAATGCCATGTCCCAGAAATGGTCTTACATGAAATCTCATA
17240154 CTGAGGCCGA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
CAATGCCATGTCCCAGAAATGGTCTTACATGAAATCTCATAT
Found at i:17245631 original size:46 final size:45
Alignment explanation
Indices: 17245535--17245706 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 45
17245525 ATCTCGTAGC
* * * * * * *
17245535 CGATGCATGTCACAGACATGTCTTACACTGGCTTAAGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCTCA-TCTCAATGT
*
17245581 CGATGCATGTCCCATACATGTCTTACACTAGCACTCATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-CTCATCTCAATGT
* * *
17245627 CGATGCCATGTCCCAGATATGATTTTACACTAG-TTC-TCAT-AATGTGGT
1 CGATG-CATGTCCCAGACATG-TCTTACACTAGCCTCATC-TCAA--T-GT
* *
17245675 CGATGCATGTCTCAGCCATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
17245707 TCACAACCAG
Statistics
Matches: 102, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
45 4 0.04
46 53 0.52
47 28 0.27
48 17 0.17
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCTCATCTCAATGT
Found at i:17250979 original size:48 final size:48
Alignment explanation
Indices: 17250895--17251067 Score: 156
Period size: 48 Copynumber: 3.6 Consensus size: 48
17250885 TCATATCAAC
**
17250895 GCCATATCCCAGATATGGTCTTACA-TGAAATAACATACCGAA-CTTGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATAACATACC-AATC-TGAT
* * * *
17250943 GCTATATCCTAGATATGGTCTTACACTGGCA-CACATATCAATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATAACATACCAAT-CTGAT
* * ** * *
17250991 GCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATCAATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATAACATACCAAT-CTGAT
* *
17251039 GCCATGTCCCAGACATGGTCTTACACTGG
1 GCCATATCCCAGATATGGTCTTACACTGG
17251068 ATCTCATAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
47 2 0.02
48 103 0.94
49 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACTGGCATAACATACCAATCTGAT
Found at i:17251073 original size:48 final size:48
Alignment explanation
Indices: 17250957--17251075 Score: 195
Period size: 48 Copynumber: 2.5 Consensus size: 48
17250947 TATCCTAGAT
* *
17250957 ATGGTCTTACACTGGCA-CACATATCAATGCTGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGG-ATCTCATATCAATGCCGATGCCATGTCCCAGAC
*
17251005 ATGGTCTTACACTGGCTCTCATATCAATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGATCTCATATCAATGCCGATGCCATGTCCCAGAC
17251053 ATGGTCTTACACTGGATCTCATA
1 ATGGTCTTACACTGGATCTCATA
17251076 AATCGTGGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACTGGATCTCATATCAATGCCGATGCCATGTCCCAGAC
Found at i:17254690 original size:24 final size:24
Alignment explanation
Indices: 17254663--17254709 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17254653 ATATGTTGAC
17254663 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
17254687 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
17254710 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:17254743 original size:24 final size:24
Alignment explanation
Indices: 17254673--17254735 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
17254663 ATTCAAATCA
* * * *
17254673 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
17254697 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
17254721 GCACACATAGTGCCA
1 GCACACATAGTGCCA
17254736 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:17256515 original size:20 final size:20
Alignment explanation
Indices: 17256466--17256515 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
17256456 ACGTGAAAAT
17256466 CATACATTTCACAATCATAA
1 CATACATTTCACAATCATAA
*
17256486 CATTCAATTT-ACACAT-ATAAA
1 CATAC-ATTTCACA-ATCAT-AA
17256507 CATACATTT
1 CATACATTT
17256516 TAGTTACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (20 bp):
CATACATTTCACAATCATAA
Found at i:17256517 original size:21 final size:20
Alignment explanation
Indices: 17256466--17256517 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
17256456 ACGTGAAAAT
*
17256466 CATACATTTCACAATCATAA
1 CATACATTTTACAATCATAA
* *
17256486 CATTCAATTTACACAT-ATAAA
1 CATACATTTTACA-ATCAT-AA
17256507 CATACATTTTA
1 CATACATTTTA
17256518 GTTACACGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (20 bp):
CATACATTTTACAATCATAA
Found at i:17261118 original size:43 final size:42
Alignment explanation
Indices: 17261055--17261210 Score: 204
Period size: 43 Copynumber: 3.6 Consensus size: 42
17261045 TGGCATTTCC
*
17261055 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGC-CGAAGCCCGATATCATTTCACCGGCATTATAG
* * * * * *
17261098 CCTACTAGGATCGAGGCCCGATATTATCTCACCAGCATTATAG
1 CCTGCTAGG-CCGAAGCCCGATATCATTTCACCGGCATTATAG
17261141 CCTGCTAGGCCTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGCC-GAAGCCCGATATCATTTCACCGGCATTATAG
17261184 CCTGCTAGGCCCGAAGCCCGTATATCA
1 CCTGCTAGG-CCGAAGCCCG-ATATCA
17261211 CATTTTGATA
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 87 0.91
44 8 0.08
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (42 bp):
CCTGCTAGGCCGAAGCCCGATATCATTTCACCGGCATTATAG
Found at i:17269403 original size:39 final size:40
Alignment explanation
Indices: 17269297--17269428 Score: 207
Period size: 40 Copynumber: 3.4 Consensus size: 40
17269287 GCTACTCATT
* * *
17269297 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
17269337 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17269377 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17269416 CAAA-GCCTTCGGG
1 CAAATGCCTTCGGG
17269429 CTCATAGCCA
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
38 6 0.07
39 34 0.39
40 45 0.52
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17269972 original size:74 final size:73
Alignment explanation
Indices: 17269834--17269980 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 73
17269824 GCATGTCTAT
17269834 GTTGAGGCGATTATATGCTTAATACTTCCTACAAGTATGGTTACTTGTATTGATATATATTCATC
1 GTTGAGGCGATTATATGCTTAATACTTCCTACAAGTATGGTTACTTGTATTGATATATATTCATC
17269899 TTGTTTCA
66 TTGTTTCA
17269907 GTTGAGGCCGATTATATGCTTAATACTTCCTACAAGTATGGTTACTTGTATTGAT-TATATATCA
1 GTTGAGG-CGATTATATGCTTAATACTTCCTACAAGTATGGTTACTTGTATTGATATATAT-TCA
17269971 TCTTGTTTCA
64 TCTTGTTTCA
17269981 AGTTCAAAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
73 12 0.17
74 60 0.83
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (73 bp):
GTTGAGGCGATTATATGCTTAATACTTCCTACAAGTATGGTTACTTGTATTGATATATATTCATC
TTGTTTCA
Found at i:17270299 original size:54 final size:54
Alignment explanation
Indices: 17270234--17270338 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
17270224 AAATGACATC
17270234 AACACAAATCCACCTTAGCCGAAACTTAACTCATCTTCATGCCTCATCACCCAA
1 AACACAAATCCACCTTAGCCGAAACTTAACTCATCTTCATGCCTCATCACCCAA
17270288 AACACAAATCCACCTTAGCCGAAACTTAACTCATCTTCATGCCTCATCACC
1 AACACAAATCCACCTTAGCCGAAACTTAACTCATCTTCATGCCTCATCACC
17270339 ACAACATCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.37, G:0.06, T:0.23
Consensus pattern (54 bp):
AACACAAATCCACCTTAGCCGAAACTTAACTCATCTTCATGCCTCATCACCCAA
Found at i:17271310 original size:3 final size:3
Alignment explanation
Indices: 17271304--17271329 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17271294 ACTACTTTCA
17271304 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
17271330 CATAACGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17271840 original size:19 final size:19
Alignment explanation
Indices: 17271799--17271841 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17271789 CAAATAATTT
* *
17271799 AAAATTTATAAAAAAAATT
1 AAAAATTATAAAAAAAATA
*
17271818 AAAAATTATAAAAAGAA-A
1 AAAAATTATAAAAAAAATA
17271836 AAAAAT
1 AAAAAT
17271842 GAAGCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATTATAAAAAAAATA
Found at i:17272831 original size:2 final size:2
Alignment explanation
Indices: 17272818--17272848 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17272808 CAACAATAGA
*
17272818 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17272849 AGCTGGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:17277207 original size:43 final size:42
Alignment explanation
Indices: 17277145--17277379 Score: 217
Period size: 43 Copynumber: 5.5 Consensus size: 42
17277135 ACATTTATTG
*
17277145 CTATAGAACATGACCTTTAGCGACACTTTTACTACAAACGCTA
1 CTATAGAACATGACCTTTAGCGGCACTTTTACTACAAACGC-A
* **
17277188 ATATAGAACATGACCTTTAGCGGCGGTTTTA-TCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGCACTTTTACT-ACAAACG-CA
*
17277231 CTATAGAACATGACCTTTAGCTGTG-A-TTTCT-CTACAAACGCCG
1 CTATAGAACATGACCTTTAGC-G-GCACTTT-TACTACAAACG-CA
* * ** *
17277274 CTATAGAACGTGACCTTTAGCGGCGCTTTCCCAACAAACGCA
1 CTATAGAACATGACCTTTAGCGGCACTTTTACTACAAACGCA
** ** *
17277316 GCTATAGAATGTGACCTTTAGCGGCACTTTCCCGACAAACGCA
1 -CTATAGAACATGACCTTTAGCGGCACTTTTACTACAAACGCA
*
17277359 GCTATAAAACATGACCTTTAG
1 -CTATAGAACATGACCTTTAG
17277380 TGGCGTTTTC
Statistics
Matches: 164, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 155 0.95
44 4 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
CTATAGAACATGACCTTTAGCGGCACTTTTACTACAAACGCA
Done.