Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 69 of 425
Found at i:19265353 original size:17 final size:17
Alignment explanation
Indices: 19265333--19265371 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19265323 AAAAAAAATA
*
19265333 AAAATAA-AAATAAGAAT
1 AAAATAATAAAGAAG-AT
19265350 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
19265367 AAAAT
1 AAAAT
19265372 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:19265613 original size:29 final size:30
Alignment explanation
Indices: 19265564--19265646 Score: 127
Period size: 29 Copynumber: 2.9 Consensus size: 30
19265554 GTTAGGTGGC
* *
19265564 TAGGTTTTT-TTATTTATTTTTTTTT-GGT
1 TAGGTTTTTCTTTTTTCTTTTTTTTTGGGT
19265592 TAGGTTTTTCTTTTTTCTTTTTTTTTGGGT
1 TAGGTTTTTCTTTTTTCTTTTTTTTTGGGT
19265622 TAGGTTTTTC-TTTTTCTTTTTTTTT
1 TAGGTTTTTCTTTTTTCTTTTTTTTT
19265647 TTTTTGGGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
28 9 0.18
29 29 0.57
30 13 0.25
ACGTcount: A:0.06, C:0.05, G:0.13, T:0.76
Consensus pattern (30 bp):
TAGGTTTTTCTTTTTTCTTTTTTTTTGGGT
Found at i:19265616 original size:30 final size:30
Alignment explanation
Indices: 19265564--19265647 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
19265554 GTTAGGTGGC
* *
19265564 TAGGTTTTT-TTATTT-ATTTTTTTTTGGT
1 TAGGTTTTTCTTTTTTCTTTTTTTTTTGGT
*
19265592 TAGGTTTTTCTTTTTTCTTTTTTTTTGGGT
1 TAGGTTTTTCTTTTTTCTTTTTTTTTTGGT
19265622 TAGGTTTTTC-TTTTTCTTTTTTTTTT
1 TAGGTTTTTCTTTTTTCTTTTTTTTTT
19265648 TTTTGGGTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 9 0.18
29 20 0.40
30 21 0.42
ACGTcount: A:0.06, C:0.05, G:0.13, T:0.76
Consensus pattern (30 bp):
TAGGTTTTTCTTTTTTCTTTTTTTTTTGGT
Found at i:19265656 original size:29 final size:30
Alignment explanation
Indices: 19265569--19265656 Score: 97
Period size: 29 Copynumber: 2.9 Consensus size: 30
19265559 GTGGCTAGGT
*
19265569 TTTTTTATTTATTTTTTTTTGGTTAGGTTTTTC
1 TTTTTTCTTT-TTTTTTTTT--TTAGGTTTTTC
***
19265602 TTTTTTCTTTTTTTTTGGGTTAGGTTTTTC
1 TTTTTTCTTTTTTTTTTTTTTAGGTTTTTC
*
19265632 -TTTTTCTTTTTTTTTTTTTTGGGTT
1 TTTTTTCTTTTTTTTTTTTTTAGGTT
19265657 AGGTTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 21 0.45
30 11 0.23
32 6 0.13
33 9 0.19
ACGTcount: A:0.05, C:0.05, G:0.14, T:0.77
Consensus pattern (30 bp):
TTTTTTCTTTTTTTTTTTTTTAGGTTTTTC
Found at i:19265666 original size:30 final size:29
Alignment explanation
Indices: 19265564--19265668 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 29
19265554 GTTAGGTGGC
*
19265564 TAGGTTTTTTTATTTATTTTTTTTT-GGT
1 TAGGTTTTTTTTTTTATTTTTTTTTGGGT
*
19265592 TAGGTTTTTCTTTTTTCTTTTTTTTTGGGT
1 TAGGTTTTT-TTTTTTATTTTTTTTTGGGT
*
19265622 TAGGTTTTTCTTTTTCTTTTTTTTTTTTTTGGGT
1 TAGG---TT-TTTTT-TTTTATTTTTTTTTGGGT
19265656 TAGGTTTTTTTTT
1 TAGGTTTTTTTTT
19265669 GGGGGGCTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
28 9 0.13
29 16 0.24
30 12 0.18
31 2 0.03
33 4 0.06
34 24 0.36
ACGTcount: A:0.06, C:0.04, G:0.15, T:0.75
Consensus pattern (29 bp):
TAGGTTTTTTTTTTTATTTTTTTTTGGGT
Found at i:19265669 original size:17 final size:17
Alignment explanation
Indices: 19265609--19265671 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
19265599 TTCTTTTTTC
19265609 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGTTAGG
** ***
19265626 TTTTTCTTTT-TCTTTTT
1 TTTTT-TTTTGGGTTAGG
19265643 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGTTAGG
19265660 TTTTTTTTTGGG
1 TTTTTTTTTGGG
19265672 GGGCTTAATG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
16 4 0.12
17 26 0.76
18 4 0.12
ACGTcount: A:0.03, C:0.03, G:0.21, T:0.73
Consensus pattern (17 bp):
TTTTTTTTTGGGTTAGG
Found at i:19266548 original size:29 final size:30
Alignment explanation
Indices: 19266492--19266552 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
19266482 TTTTGAAAAA
19266492 CAGAAATTAAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
*
19266522 CAGAAATTAAAAG-CTCAACTCACCTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
19266551 CA
1 CA
19266553 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.41, C:0.30, G:0.10, T:0.20
Consensus pattern (30 bp):
CAGAAATTAAAAGACTCAACTCAACTCTCG
Found at i:19266670 original size:14 final size:14
Alignment explanation
Indices: 19266647--19266681 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19266637 TGAGTTGATT
19266647 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
19266660 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
19266674 TTTGAAAA
1 TTTGAAAA
19266682 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:19266903 original size:252 final size:248
Alignment explanation
Indices: 19266332--19267065 Score: 826
Period size: 252 Copynumber: 2.9 Consensus size: 248
19266322 TTAAAAATAG
*
19266332 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
** * * * * * ** *
19266397 TTG-AAACTTAACTTGAAAAGCAAATTTTGAAAATACCTCGATACGTGACTGGAGGTTCAACTCA
66 TTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
* * * *
19266461 TCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAACTCTCGC
131 -CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-AAT-ACCTC-AGTGT-G-
* * * *
19266523 AGAAAT-TAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAACAG
190 TG--ATCT-GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAAACAA
* *
19266584 AAATTGAAAATAGCTCAGTACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTT
1 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
19266648 TTGAAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
66 TTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
* * *
19266713 CATCTCGCAATGTGAGTTGATTTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGAT
131 C-TCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGTGTGAT
**** *
19266778 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCTTTTGAAAGACAA
194 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-TGAAAAAAAACAA
* *
19266834 AAATTGAAAACAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
* * ** * * *
19266899 TTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACT
65 TTTGAAA-ACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACT
* * * * *
19266964 CGCCTCTCGCAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACCTC-G-GCGTG-
129 C-ACTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGTGTGA
* *
19267023 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTT
193 T-CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
19267066 GAAAGGCAGA
Statistics
Matches: 418, Mismatches: 51, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
246 1 0.00
247 43 0.10
248 1 0.00
249 49 0.12
250 65 0.16
251 18 0.04
252 144 0.34
253 69 0.17
254 5 0.01
255 19 0.05
256 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (248 bp):
AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGTGTGATCT
GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAAACAA
Found at i:19267047 original size:74 final size:74
Alignment explanation
Indices: 19266924--19267084 Score: 236
Period size: 74 Copynumber: 2.1 Consensus size: 74
19266914 TTGAAAAACG
* *
19266924 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCGGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTCGA-TT
19266989 TTTTGACAA-CA
64 TTTTGA-AAGCA
* *
19267000 GAAATTGAAATTACCTCGGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
1 GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTCGATTTT
19267064 TTGAAAGGCA
66 TTGAAA-GCA
19267074 GAAATTGAAAA
1 GAAATTGAAAA
19267085 ACGGAAATTA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
72 2 0.03
73 8 0.10
74 45 0.58
76 23 0.29
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (74 bp):
GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTCGATTTT
TTGAAAGCA
Found at i:19267105 original size:164 final size:165
Alignment explanation
Indices: 19266757--19267230 Score: 664
Period size: 165 Copynumber: 2.8 Consensus size: 165
19266747 TATAAATTGA
* * * * * * *
19266757 AAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCT
1 AAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGA----TTT-T
* ** * * *
19266822 TTTGAAAGACAAAAATTGAAAACAGCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAAT
61 TTTGAAAGACAGAAATTGAAATTACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
19266886 ATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
123 ATGAGTCGA-TTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
* *
19266930 GAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
1 AAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGA
* *
19266995 CA-ACAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG
66 AAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG
19267059 ATTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
131 ATTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
* *
19267094 AAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGTCGCTCGCAATACGAGTTGATTTTTTTGA
1 AAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGA
* *
19267159 AAGATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG
19267224 ATTTTTT
131 ATTTTTT
19267231 TAAAAAGTAG
Statistics
Matches: 276, Mismatches: 23, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
164 98 0.36
165 102 0.37
167 17 0.06
168 7 0.03
169 3 0.01
173 49 0.18
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (165 bp):
AAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGA
AAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG
ATTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
Found at i:19267152 original size:90 final size:89
Alignment explanation
Indices: 19267000--19267174 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 89
19266990 TTTGACAACA
* * * *
19267000 GAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTT
1 GAAATTAAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTCGATTTTT
*
19267064 TTGAAAGGCAGAAATTGAAAAACG
66 TTGAAAGACAGAAATTGAAAAACG
* ** *
19267088 GAAATTAAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGTCGCTCGCAATACGAGTTGATTT
1 GAAATTAAAAATACCTCGGCGTGT--CCTGAGGCTCAACTCACCGCTCGCAATACGAGTCGATTT
*
19267153 TTTTGAAAGATAGAAATTGAAA
64 TTTTGAAAGACAGAAATTGAAA
19267175 TTACCTCAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
88 22 0.30
90 30 0.41
91 22 0.30
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (89 bp):
GAAATTAAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTCGATTTTT
TTGAAAGACAGAAATTGAAAAACG
Found at i:19267231 original size:77 final size:76
Alignment explanation
Indices: 19267088--19267249 Score: 211
Period size: 75 Copynumber: 2.1 Consensus size: 76
19267078 TTGAAAAACG
* * **
19267088 GAAATTAAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGTCGCTCGCAATACGAGTTGATTT
1 GAAATTAAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
19267153 TTTTGAAAGATA
65 TTTTGAAAGATA
* * * *
19267165 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTAAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
*
19267229 TTT-AAAAAGTA
66 TTTGAAAGA-TA
19267240 GAAATTAAAA
1 GAAATTAAAA
19267250 GGTTCAACCC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 4 0.05
75 49 0.66
77 21 0.28
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (76 bp):
GAAATTAAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
TTTGAAAGATA
Found at i:19267311 original size:13 final size:13
Alignment explanation
Indices: 19267284--19267317 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
19267274 GAGTTGATTC
*
19267284 TTGAACAACATAAA
1 TTGAA-AACAGAAA
19267298 TTGAAAACAGAAA
1 TTGAAAACAGAAA
19267311 TTGAAAA
1 TTGAAAA
19267318 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:19267532 original size:71 final size:70
Alignment explanation
Indices: 19267389--19267564 Score: 223
Period size: 71 Copynumber: 2.5 Consensus size: 70
19267379 AGAAATTAAA
* * * * * *
19267389 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAATTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
19267453 CCCCG
66 CCCCG
19267458 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAATTAAAAATACCTCAACGT
* **
19267523 GTCTTG
65 GCCCCG
19267529 AGGCTCAACTCATCTCTCTC-C-ATATGAGTTGATTTT
1 AGGCTCAACTCA-CT-TCTCGCAATATGAGTTGATTTT
19267565 CCTTGAAAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
69 26 0.28
70 5 0.05
71 56 0.60
72 3 0.03
73 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:19279380 original size:21 final size:21
Alignment explanation
Indices: 19279341--19279380 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19279331 TAAAACTGAG
*
19279341 AATATTTAAAACAACAATATT
1 AATATTTAAAACAAAAATATT
19279362 AATATTTACAAA-AAAAATA
1 AATATTTA-AAACAAAAATA
19279381 GAAATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATTTAAAACAAAAATATT
Found at i:19281522 original size:40 final size:40
Alignment explanation
Indices: 19281416--19281599 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
19281406 TGCTGGAAAT
* * * * * **
19281416 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
19281456 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
19281496 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
19281534 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
19281575 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
19281600 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:19289635 original size:40 final size:40
Alignment explanation
Indices: 19289529--19289712 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
19289519 TGCTGGAAAT
* * * * * **
19289529 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
19289569 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
19289609 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
19289647 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
19289688 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
19289713 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:19300272 original size:21 final size:21
Alignment explanation
Indices: 19300227--19300266 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19300217 GAACATGGTA
*
19300227 GTGTGGCTACTTCACACGCCC
1 GTGTGGCTACTTCACACACCC
*
19300248 GTGTGGCTATTTCACACAC
1 GTGTGGCTACTTCACACAC
19300267 TTGTGTACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.28
Consensus pattern (21 bp):
GTGTGGCTACTTCACACACCC
Found at i:19303096 original size:46 final size:46
Alignment explanation
Indices: 19302929--19303096 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
19302919 AGTGACTACT
* * * *
19302929 ATTTAGGTTCTCAGCTT-TTGCATTTCTTGTGGACTGGTGAATACAG
1 ATTTAGGTTCCCA-CTTCTTGCATTTGTTGCGGACTGGTGAATACGG
* ** *
19302975 ATTTAGGTTCCCATTTCTTGCATTTGTTGTAGATTGGTGAATACGG
1 ATTTAGGTTCCCACTTCTTGCATTTGTTGCGGACTGGTGAATACGG
* * * * **
19303021 AATCAGGTTCCCAGTTCTTTCATACGTTGCGGACTGGTGAATACGG
1 ATTTAGGTTCCCACTTCTTGCATTTGTTGCGGACTGGTGAATACGG
*
19303067 ATTTAGGTTCCCCCTTCTTGCATTTGTTGC
1 ATTTAGGTTCCCACTTCTTGCATTTGTTGC
19303097 AAACTGGAAA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
45 2 0.02
46 97 0.98
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (46 bp):
ATTTAGGTTCCCACTTCTTGCATTTGTTGCGGACTGGTGAATACGG
Found at i:19307682 original size:46 final size:45
Alignment explanation
Indices: 19307624--19307836 Score: 216
Period size: 46 Copynumber: 4.6 Consensus size: 45
19307614 TAGTCGATGA
*
19307624 ATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGAAGC
1 ATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAGGCCGAAGC
*
19307670 ATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCAAAGC
1 ATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAGGCCGAAGC
* * * * * *
19307716 ATGTCTCAGACATGTCTTACACTAGCACTCATCTCAATGTCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-TTCATCTCGAGGCCGAAG-C
* * * *
19307763 ATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTA-GTC-AATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCT-TCAT-CTCG-AGGCCGAA-GC
19307810 ATGTCCCAGACATGTCTTACACTAGCT
1 ATGTCCCAGACATGTCTTACACTAGCT
19307837 CACACAAGTG
Statistics
Matches: 142, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
46 93 0.65
47 27 0.19
48 20 0.14
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (45 bp):
ATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAGGCCGAAGC
Found at i:19307821 original size:94 final size:92
Alignment explanation
Indices: 19307573--19307835 Score: 277
Period size: 94 Copynumber: 2.8 Consensus size: 92
19307563 TATCTGTGTT
* * * *
19307573 GATGCCATGTCCCAAACATGGTCTTACACTGGCACCTC-TTGTAGTCGATGAATGTCCCAGACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATTGTAGTCAATGCATGTCCCAGACAT
* * *
19307637 GTCTTACACTGGCTTACATCTCGAGGCC
65 GTCTTACACTAGCCTACATCTCAAGGCC
* * * * *
19307665 GAAG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCG-AGGCCAAAGCATGTCTCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CAT-T-GTA-GTCAATGCATGTCCCAGA
* *
19307726 CATGTCTTACACTAGCACT-CATCTCAATGTC
62 CATGTCTTACACTAGC-CTACATCTCAAGGCC
*
19307757 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGTCAATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT--TGTAGTCAATGCATGTCCCAGACA
19307822 TGTCTTACACTAGC
64 TGTCTTACACTAGC
19307836 TCACACAAGT
Statistics
Matches: 139, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 13 0.09
91 15 0.11
92 44 0.32
93 14 0.10
94 48 0.35
95 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTGTAGTCAATGCATGTCCCAGACATG
TCTTACACTAGCCTACATCTCAAGGCC
Found at i:19311906 original size:40 final size:40
Alignment explanation
Indices: 19311862--19312172 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
19311852 CCAGCATGAT
* * * * *
19311862 TGCTCTTCGGGACCTAGCCCGGATACATCACTACCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
19311902 TGCTCTTC-GAGACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
19311942 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
19311982 TGCTCTTTGGAACTTAGTCCGGGTACATCACTAGCAC-AA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
19312021 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
19312061 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
19312101 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
19312141 TGCTCTTCGGAACTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
19312173 CTCAATTCTC
Statistics
Matches: 254, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 38 0.15
40 214 0.84
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:19312093 original size:159 final size:159
Alignment explanation
Indices: 19311862--19312172 Score: 507
Period size: 159 Copynumber: 2.0 Consensus size: 159
19311852 CCAGCATGAT
* *
19311862 TGCTCTTCGGGACCTAGCCCGGATACATCACTACCACAAATGCTCTTCGAGACTTAGTCTGGATA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTACCACAAATGCTCTTCGAGACTTAGTCCGGATA
*
19311927 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGG
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
* *
19311992 AACTTAGTCCGGGTACATCACTAGCACAA
131 AACTTAGCCCGGATACATCACTAGCACAA
* * * *
19312021 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG-GAACTTAGTCCGGAT
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTACCACAAATGCTCTTCGAG-ACTTAGTCCGGAT
*
19312085 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCG
65 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
*
19312150 GAACTTAGCCCGGATATATCACT
130 GAACTTAGCCCGGATACATCACT
19312173 CTCAATTCTC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
158 1 0.01
159 139 0.99
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (159 bp):
TGCTCTTCGGAACCTAGCCCGGATACATCACTACCACAAATGCTCTTCGAGACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
AACTTAGCCCGGATACATCACTAGCACAA
Found at i:19313500 original size:37 final size:37
Alignment explanation
Indices: 19313405--19313501 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
19313395 GCTCAGACGA
* * *
19313405 AATCTCCACACGAAGTTATCGAGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
* *
19313442 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
19313479 AATCTCCACACGTAGTCATCGGG
1 AATCTCCACACGTAGTCATCGGG
19313502 GAATATATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
Found at i:19313619 original size:48 final size:48
Alignment explanation
Indices: 19313548--19314700 Score: 1813
Period size: 48 Copynumber: 24.0 Consensus size: 48
19313538 TGTTACAACA
* * *
19313548 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
19313596 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19313644 TTCACATTCGCCATTCAGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
19313692 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19313740 TTCACATTAGCCATTCGGCTTTACCACATATACACATCTTATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19313788 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19313836 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19313884 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19313932 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
19313980 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
** * *
19314028 TTTTCATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19314076 TTCACATTAGCCATTCGGCTTTACCACATATACACATCTTATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19314124 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19314172 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19314220 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19314268 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
19314316 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19314364 TTTACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19314412 TTTACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19314460 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19314508 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
19314556 TTCACATTAGCCATT-GGTTTTACCACATATACATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
19314603 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
19314651 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
19314699 TT
1 TT
19314701 ATCTTGTACA
Statistics
Matches: 1005, Mismatches: 99, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 0.04
48 964 0.96
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:19317495 original size:28 final size:28
Alignment explanation
Indices: 19317442--19317497 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
19317432 CCCAAAAAGA
* *
19317442 TAATGTTTCTTTAGTCTTTAATTTATTT
1 TAATGTTTCTTTAATCTTTAAATTATTT
*
19317470 TAATTTTTCTTTAAT-TTTGAAATTATTT
1 TAATGTTTCTTTAATCTTT-AAATTATTT
19317498 CTTTACCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (28 bp):
TAATGTTTCTTTAATCTTTAAATTATTT
Found at i:19319075 original size:20 final size:20
Alignment explanation
Indices: 19319058--19319103 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
19319048 ATAATTTTGT
19319058 TATTTTAAATAAATTTTTAA
1 TATTTTAAATAAATTTTTAA
**
19319078 TATTTTCTATAAATTTTTAA
1 TATTTTAAATAAATTTTTAA
19319098 TATTTT
1 TATTTT
19319104 CTATAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTAAATAAATTTTTAA
Found at i:19319104 original size:20 final size:20
Alignment explanation
Indices: 19319066--19319114 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
19319056 GTTATTTTAA
19319066 ATAAATTTTTAATATTTTCT
1 ATAAATTTTTAATATTTTCT
19319086 ATAAATTTTTAATATTTTCT
1 ATAAATTTTTAATATTTTCT
*
19319106 ATAACTTTT
1 ATAAATTTT
19319115 ATTGATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
ATAAATTTTTAATATTTTCT
Found at i:19320679 original size:24 final size:24
Alignment explanation
Indices: 19320625--19320680 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
19320615 TAAATTAATA
* *
19320625 AAAAATAAATTTATTATTTTTGTT
1 AAAAATTAATTTATTATTGTTGTT
19320649 AAAAATTAATTTATT-TATGTTGTT
1 AAAAATTAATTTATTAT-TGTTGTT
19320673 AAAAATTA
1 AAAAATTA
19320681 GTAAGATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
AAAAATTAATTTATTATTGTTGTT
Found at i:19323480 original size:13 final size:12
Alignment explanation
Indices: 19323457--19323494 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
19323447 GTAGCTTAGG
*
19323457 TTTTGTTTTGTT
1 TTTTTTTTTGTT
19323469 TTTGTTTTTTGTT
1 TTT-TTTTTTGTT
19323482 TTTTTTTTT-TT
1 TTTTTTTTTGTT
19323493 TT
1 TT
19323495 GAGAAATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:19323480 original size:18 final size:16
Alignment explanation
Indices: 19323457--19323495 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 16
19323447 GTAGCTTAGG
19323457 TTTTGTTTTGTTTTTGTT
1 TTTTGTTTT-TTTTT-TT
19323475 TTTTGTTTTTTTTTTT
1 TTTTGTTTTTTTTTTT
19323491 TTTTG
1 TTTTG
19323496 AGAAATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 9 0.43
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTGTTTTTTTTTTT
Found at i:19325403 original size:2 final size:2
Alignment explanation
Indices: 19325396--19325421 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19325386 TTTGCATATG
19325396 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
19325422 TAATATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19327512 original size:209 final size:205
Alignment explanation
Indices: 19327152--19327573 Score: 501
Period size: 209 Copynumber: 2.0 Consensus size: 205
19327142 GTTATTGCAT
* * * * *
19327152 ACATTGGCTAAGTCTGGGATTGTGATGTCTTATTTTTAATTTAATTCTTTTTACTTAGATCTAGT
1 ACATTGGCCAAGTCTGGGATTGTGATATCTTATATTTAAGTTAATTCTTTTCACTTA-ATCTAGT
* * * **
19327217 TGTTATTACTATTTCAAAGCCTAGTTTTCTCATTGCCTAGTTTGCCATGTTGTTGCTACTTGTTC
65 TGTTATTACTATTTCAAAGCCCAGTTTGCTCATTGACTAGTTTGCCATGTTGTTGCTACTACTTC
*
19327282 TATTTTTAATGATGCAAGATTGTTTAAATTGCTAATATTGGTCCCATACATATAAGAGAGCATGT
130 TATTTTTAATGATGCAAGATTG-TTAAATTGCTAATATTGG-CCC-TACATATAAGAGAGCATGC
* *
19327347 AAGTAATATGTCTC
192 AAGTAATATATCAC
*
19327361 ACATTGGCCAAGTTTGGGATTGTTG-TATCTTATATTTAAGTTAATTCTTTTCACTCT-ATCTAG
1 ACATTGGCCAAGTCTGGGATTG-TGATATCTTATATTTAAGTTAATTCTTTTCACT-TAATCTAG
* ** ** * *
19327424 TTGTTGTTACTA-TTCATAA-CCCAGTTTGCTTGTTGACTAGTTTGTTATGTTTGTTGTTCCTAC
64 TTGTTATTACTATTTCA-AAGCCCAGTTTGCTCATTGACTAGTTTGCCATG-TTGTTGCTACTAC
* * * **
19327487 TCTCTATTTTTATTGATGCAAGATTGTTAAATTGCTAATATTGGGCCTACATATGAGAGAGTGTG
127 T-TCTATTTTTAATGATGCAAGATTGTTAAATTGCTAATATTGGCCCTACATATAAGAGAGCATG
19327552 CAAGTAATATATCAC
191 CAAGTAATATATCAC
19327567 ACATTGG
1 ACATTGG
19327574 GTAAACTTGG
Statistics
Matches: 182, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
206 34 0.19
207 29 0.16
208 47 0.26
209 69 0.38
210 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (205 bp):
ACATTGGCCAAGTCTGGGATTGTGATATCTTATATTTAAGTTAATTCTTTTCACTTAATCTAGTT
GTTATTACTATTTCAAAGCCCAGTTTGCTCATTGACTAGTTTGCCATGTTGTTGCTACTACTTCT
ATTTTTAATGATGCAAGATTGTTAAATTGCTAATATTGGCCCTACATATAAGAGAGCATGCAAGT
AATATATCAC
Found at i:19327652 original size:52 final size:52
Alignment explanation
Indices: 19327536--19327663 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 52
19327526 ATTGGGCCTA
* * ** *
19327536 CATATGAGAGAGTGTGCAAGTAATATATCACACATTGGGTAAACTTGGTGTTT
1 CATATAAGAGAGAGTGCAAGTAATATAT-ACACATTCAGTAAACTTGATGTTT
*
19327589 CATAGAAGAGAGAGTGCAAGTAATATAT-CACATGTCAGTAAACTTGATGTTT
1 CATATAAGAGAGAGTGCAAGTAATATATACACAT-TCAGTAAACTTGATGTTT
19327641 CATATAAGAGAGA--GCAAGTAATA
1 CATATAAGAGAGAGTGCAAGTAATA
19327664 CGTTTGGAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
50 10 0.15
51 5 0.07
52 27 0.40
53 25 0.37
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (52 bp):
CATATAAGAGAGAGTGCAAGTAATATATACACATTCAGTAAACTTGATGTTT
Found at i:19336433 original size:2 final size:2
Alignment explanation
Indices: 19336428--19336481 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
19336418 TCTCTCTATA
*
19336428 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
19336470 TG TG TG TG TG TG
1 TG TG TG TG TG TG
19336482 CCTGCTTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:19337512 original size:18 final size:18
Alignment explanation
Indices: 19337491--19337533 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19337481 CCTTTCCCCC
*
19337491 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
19337509 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
19337527 TGCTTTC
1 TTCTTTC
19337534 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:19343796 original size:21 final size:22
Alignment explanation
Indices: 19343770--19343828 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
19343760 GTTTTAAGAA
*
19343770 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
19343791 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
19343813 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
19343829 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:19343843 original size:26 final size:24
Alignment explanation
Indices: 19343799--19343848 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
19343789 ATTTGTTTTA
*
19343799 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
19343823 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
19343849 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:19343866 original size:26 final size:26
Alignment explanation
Indices: 19343814--19343866 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
19343804 TGTTTTTATG
*
19343814 TTTTTAAATATATTTGATTTATTATA
1 TTTTTAAATATATTTGATTTATAATA
* *
19343840 TTTTTAAAT-TTTTTTATTTAATAATA
1 TTTTTAAATATATTTGATTT-ATAATA
19343866 T
1 T
19343867 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTTAAATATATTTGATTTATAATA
Found at i:19346798 original size:40 final size:40
Alignment explanation
Indices: 19346703--19346960 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
19346693 AAGCCAAGTA
* * *
19346703 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
19346741 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19346781 CTTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19346821 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19346861 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19346901 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
19346942 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19346961 TTATCATCCA
Statistics
Matches: 198, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 142 0.72
41 24 0.12
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19349917 original size:20 final size:20
Alignment explanation
Indices: 19349892--19349931 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19349882 GTTAATGAAT
*
19349892 AATTAATTTAATATAATTAA
1 AATTAAGTTAATATAATTAA
*
19349912 AATTAAGTTAATTTAATTAA
1 AATTAAGTTAATATAATTAA
19349932 GTAATTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTAAGTTAATATAATTAA
Found at i:19355468 original size:47 final size:47
Alignment explanation
Indices: 19355414--19355745 Score: 522
Period size: 47 Copynumber: 7.1 Consensus size: 47
19355404 TTAGGATTTT
** * * *
19355414 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19355461 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19355508 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19355555 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19355602 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19355649 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
19355696 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
19355743 ATG
1 ATG
19355746 CGAAATGTGT
Statistics
Matches: 269, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 266 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19355702 original size:22 final size:22
Alignment explanation
Indices: 19355627--19355702 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
19355617 ACATGCATAT
*
19355627 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
19355649 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
19355673 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
19355696 ATGTGAT
1 ATGTGAT
19355703 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:19355775 original size:46 final size:46
Alignment explanation
Indices: 19355719--19355855 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
19355709 GGAAGTGTAT
19355719 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
19355765 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
19355811 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
19355856 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:19357395 original size:40 final size:40
Alignment explanation
Indices: 19357340--19357491 Score: 218
Period size: 40 Copynumber: 3.8 Consensus size: 40
19357330 GTTATAGATA
*
19357340 TATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
*
19357380 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
* * * *
19357420 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
*
19357460 TATCCGGGCTAA-ACCTCGAAG-GCATTCATGCT
1 TATCCGGGCTAAGTCC-CGAAGAGCATTCATGCT
19357492 TGAGTTATGA
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.11
40 91 0.89
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG
Found at i:19357543 original size:28 final size:27
Alignment explanation
Indices: 19357503--19357655 Score: 117
Period size: 28 Copynumber: 5.4 Consensus size: 27
19357493 GAGTTATGAG
* * *
19357503 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
19357531 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
*
19357559 GGCACTATGTGTGCGAGTTCTTCAATCAA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
* ** *
19357588 GCACTATGTGCGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
19357616 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
19357645 GCGCTATGTGT
1 GCACTATGTGT
19357656 ACGAAATCAG
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
28 51 0.53
29 45 0.47
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:19357591 original size:57 final size:57
Alignment explanation
Indices: 19357499--19357655 Score: 215
Period size: 57 Copynumber: 2.8 Consensus size: 57
19357489 GCTTGAGTTA
* * * *
19357499 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* * * **
19357556 TGAGGCACTATGTGTGCGAGTTCTTCAATCAAGCACTATGTGCGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* *
19357613 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGT
19357656 ACGAAATCAG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 87 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
Found at i:19357625 original size:29 final size:29
Alignment explanation
Indices: 19357531--19357632 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
19357521 CTTCAACCGA
* * *
19357531 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
** * *
19357560 GCACTATGTGTGCGAG-TTCTTCAA-TCAA
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
* *
19357588 GCACTATGTGCGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
19357617 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
19357633 TTCTTTAATC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:19361513 original size:47 final size:47
Alignment explanation
Indices: 19361459--19361743 Score: 410
Period size: 47 Copynumber: 6.1 Consensus size: 47
19361449 TTAGGATTTT
** * * *
19361459 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19361506 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19361553 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGATTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19361600 ACGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19361647 AGGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
19361694 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
19361741 ATG
1 ATG
19361744 CGAAATGTGT
Statistics
Matches: 219, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
47 216 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19361773 original size:46 final size:46
Alignment explanation
Indices: 19361717--19361853 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
19361707 GGAAGTGTAT
19361717 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
19361763 ATATGAGGTAAAGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
19361809 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
19361854 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:19363889 original size:40 final size:40
Alignment explanation
Indices: 19363831--19364038 Score: 251
Period size: 40 Copynumber: 5.2 Consensus size: 40
19363821 TGAATGATAC
* ** *
19363831 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
*
19363871 CCGGGCTAAGACCTGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
19363911 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * *
19363951 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * * ** *
19363991 CCGGGTTAGGATCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
19364031 CC-GGCTAA
1 CCGGGCTAA
19364039 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.03
40 138 0.94
41 5 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:19370163 original size:26 final size:26
Alignment explanation
Indices: 19370126--19370235 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
19370116 TGATACAAAT
*
19370126 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATGGGTTAGGTAAATGTTTC-A
*
19370152 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19370178 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19370204 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19370230 TGATAA
1 TGATAA
19370236 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:19372988 original size:39 final size:39
Alignment explanation
Indices: 19372907--19373097 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
19372897 TATGGTAACC
* * * *
19372907 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
19372947 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19372986 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
19373025 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19373064 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
19373098 CTCGAACATT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:19375063 original size:28 final size:26
Alignment explanation
Indices: 19375032--19375089 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19375022 TTACTATAAC
* *
19375032 ACCCCTATGTATGGAAAATTACTGTTAT
1 ACCCCTA-G-ATGCAAAATTACCGTTAT
*
19375060 ACCCCTAGGTGCAAAATTACCGTTAT
1 ACCCCTAGATGCAAAATTACCGTTAT
19375086 ACCC
1 ACCC
19375090 GTAGGGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 19 0.70
27 1 0.04
28 7 0.26
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (26 bp):
ACCCCTAGATGCAAAATTACCGTTAT
Found at i:19375299 original size:27 final size:26
Alignment explanation
Indices: 19375195--19375309 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
19375185 TGGAGGAAGC
* *
19375195 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
19375222 GATCTGGTGGCTTTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
19375249 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
19375276 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
19375303 GTTCTGG
1 GTTCTGG
19375310 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:19375302 original size:54 final size:54
Alignment explanation
Indices: 19375195--19375309 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
19375185 TGGAGGAAGC
* *
19375195 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTTTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
19375249 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
19375303 GTTCTGG
1 GTTCTGG
19375310 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:19376478 original size:96 final size:96
Alignment explanation
Indices: 19376312--19376503 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 96
19376302 GTGTCCGAGG
* * * **
19376312 AAGTCTGTTATCGATGGGAATGATCGAGCAGATATGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTTATCGAAGGGAACGATCGAGCAGACAAAGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
19376377 AAAAGCCGAAGTCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
* * * *
19376408 AAGTCTGTTATCGAAGGGAACGATGGAGCAGACAAAGAGCCTAAGAAGCTTGGTTCGGGTAAGGG
1 AAGTCTGTTATCGAAGGGAACGATCGAGCAGACAAAGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* * *
19376473 TAAAGCTGAAGCCAAGAGGGCTAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
19376504 TAAAAGAAGC
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.34, C:0.15, G:0.35, T:0.16
Consensus pattern (96 bp):
AAGTCTGTTATCGAAGGGAACGATCGAGCAGACAAAGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:19378574 original size:24 final size:25
Alignment explanation
Indices: 19378521--19378574 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
19378511 ACATGATTTA
19378521 GATATGAGGTAAGGATATAATGCTT
1 GATATGAGGTAAGGATATAATGCTT
* *
19378546 G-TATGAGTTAAGG-T-TAGATGTTT
1 GATATGAGGTAAGGATATA-ATGCTT
19378569 GATATG
1 GATATG
19378575 GAATATTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 15 0.60
25 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.30, T:0.37
Consensus pattern (25 bp):
GATATGAGGTAAGGATATAATGCTT
Found at i:19384351 original size:21 final size:22
Alignment explanation
Indices: 19384325--19384368 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
19384315 TGTTTGGTTT
*
19384325 TTGATT-TGGGATTT-TGAACTG
1 TTGATTAT-GGATTTATAAACTG
19384346 TTGATTATGGATTTATAAACTG
1 TTGATTATGGATTTATAAACTG
19384368 T
1 T
19384369 AGTGCAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.48
Consensus pattern (22 bp):
TTGATTATGGATTTATAAACTG
Found at i:19384964 original size:20 final size:19
Alignment explanation
Indices: 19384939--19384987 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
19384929 CATAAAATAT
*
19384939 CTATTAATAAAATATCAGAA
1 CTATTAATAAAATAT-AAAA
**
19384959 CTATTAACTAATGTATAAAA
1 CTATTAA-TAAAATATAAAA
19384979 CTATTAATA
1 CTATTAATA
19384988 CAGATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.68
21 6 0.24
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (19 bp):
CTATTAATAAAATATAAAA
Found at i:19390533 original size:24 final size:26
Alignment explanation
Indices: 19390506--19390561 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
19390496 TTAATCGGTA
*
19390506 TAAAATATTAAT-AATTCAATA-AAT
1 TAAAATATTAATAAATTAAATAGAAT
*
19390530 TAAAAAATTAATAAATTAAATAGAAT
1 TAAAATATTAATAAATTAAATAGAAT
19390556 TAAAAT
1 TAAAAT
19390562 TGACGAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 11 0.41
25 8 0.30
26 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATATTAATAAATTAAATAGAAT
Found at i:19390542 original size:16 final size:17
Alignment explanation
Indices: 19390518--19390549 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19390508 AAATATTAAT
19390518 AATTCAATAAATTAAAA
1 AATTCAATAAATTAAAA
19390535 AATT-AATAAATTAAA
1 AATTCAATAAATTAAA
19390550 TAGAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTCAATAAATTAAAA
Found at i:19391364 original size:30 final size:30
Alignment explanation
Indices: 19391307--19391365 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19391297 GCCTTTTGAA
* *
19391307 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
19391337 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
19391366 GAAATAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:19394360 original size:37 final size:38
Alignment explanation
Indices: 19394214--19394402 Score: 220
Period size: 38 Copynumber: 4.9 Consensus size: 38
19394204 GAATCTAGTC
* * * * *
19394214 ACCAGCACAAAACATGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
19394254 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
19394292 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
19394330 ACCAGCACGAAGCCTGC-GGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
19394367 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
19394403 CACATCAAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.01
37 32 0.24
38 64 0.48
39 10 0.08
40 25 0.19
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:19394372 original size:75 final size:77
Alignment explanation
Indices: 19394228--19394402 Score: 230
Period size: 75 Copynumber: 2.3 Consensus size: 77
19394218 GCACAAAACA
* * * *
19394228 TGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATA
1 TGCGGGA-TTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATA
19394293 CCAGCACGA-AGCC
65 CCAGCA-GATAGCC
* *
19394306 TGCGGGATTTAA-CCCGGATATATTACCAGCACGAAGCCTGC-GGATTTAACCCGGATATAATTC
1 TGCGGGATTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
*
19394369 CAGCATATAGCC
66 CAGCAGATAGCC
*
19394381 TGCGGGTCTTTAAGCCCGGATA
1 TGCGGG-ATTTAAGCCCGGATA
19394403 CACATCAAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
74 1 0.01
75 36 0.42
76 29 0.34
77 13 0.15
78 7 0.08
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (77 bp):
TGCGGGATTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATAC
CAGCAGATAGCC
Found at i:19394882 original size:2 final size:2
Alignment explanation
Indices: 19394870--19394900 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
19394860 TACTTCAGGA
19394870 AT AT A- 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
19394901 GAATTTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19398710 original size:14 final size:14
Alignment explanation
Indices: 19398691--19398720 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19398681 CTAAGAGAAT
19398691 GATGATGGATGAGG
1 GATGATGGATGAGG
19398705 GATGATGGATGAGG
1 GATGATGGATGAGG
19398719 GA
1 GA
19398721 ATGAAGGGGT
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:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (14 bp):
GATGATGGATGAGG
Found at i:19406576 original size:30 final size:30
Alignment explanation
Indices: 19406519--19406576 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19406509 TTTTTGAGCA
* * **
19406519 TAGGGGCAAAATGGTTATTTTGTCAAAGTC
1 TAGGGACAAAATGGTCATTTTACCAAAGTC
19406549 TAGGGACAAAATGGTCATTTTACCAAAG
1 TAGGGACAAAATGGTCATTTTACCAAAG
19406577 ACGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGACAAAATGGTCATTTTACCAAAGTC
Found at i:19406983 original size:47 final size:44
Alignment explanation
Indices: 19406916--19407183 Score: 223
Period size: 47 Copynumber: 5.8 Consensus size: 44
19406906 TGATTTGTGC
** *
19406916 GCCAGTGTAAGATGTGTCTGGGACATGCTTCGGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAG-A-GAGA
* * *
19406962 GCCATTGTAAGACCATGTCTGGGACATAGCATCGGCACATAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGA-GAGA
*
19407010 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGAGAGA
* * * * * * * *
19407057 GCAAGAGTAAGACGTGTCAGGGACACGCATCGGCTA-AGAGTCGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAG-AGA
* * *
19407101 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACACGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--AGA-GAGA
19407149 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
19407184 TAAAATAACC
Statistics
Matches: 176, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.02
44 29 0.16
45 1 0.01
46 19 0.11
47 58 0.33
48 40 0.23
49 19 0.11
50 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGAGA
Found at i:19410655 original size:19 final size:19
Alignment explanation
Indices: 19410631--19410668 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19410621 CTCCTGTTGA
19410631 TTGTAAAAATTTTCTAAGT
1 TTGTAAAAATTTTCTAAGT
* *
19410650 TTGTAATATTTTTCTAAGT
1 TTGTAAAAATTTTCTAAGT
19410669 GCTCTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
TTGTAAAAATTTTCTAAGT
Found at i:19412720 original size:46 final size:44
Alignment explanation
Indices: 19412612--19412734 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 44
19412602 GGGGTAAGGT
19412612 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATATCGTA
* * * *
19412658 GTCGATGCATGTCCCAGACATGTCTTACACTGGCCCTCATAAT-GTG
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACAT-ATCGTA
19412704 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
19412735 AGCTCATACA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 10 0.14
45 15 0.22
46 42 0.61
47 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATATCGTA
Found at i:19419222 original size:46 final size:46
Alignment explanation
Indices: 19419172--19419340 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
19419162 ACATCTCATA
* * *
19419172 GTCGATGCATGTCCCAAACATGTTTTACACTGGC-TTACGTCTCGAG
1 GTCGATGCATGTCCCAAACATGTCTTACACTGGCACT-CGTCTCAAG
* *
19419218 GTCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAT
1 GTCGATGCATGTCCCAAACATGTCTTACACTGGCACTCGTCTCAAG
* * * * *
19419264 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCCCTCATAAT-ATG
1 GTCGATG-CATGTCCCAAACAT-GTCTTACACTGGCACTCGT-CTCAAG
* *
19419312 GTCGGTGCATGTCCCAGACATGTCTTACA
1 GTCGATGCATGTCCCAAACATGTCTTACA
19419341 TTAGCTCACA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
46 54 0.51
47 28 0.26
48 23 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GTCGATGCATGTCCCAAACATGTCTTACACTGGCACTCGTCTCAAG
Found at i:19437821 original size:35 final size:36
Alignment explanation
Indices: 19437754--19437832 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
19437744 CAAATTACAT
* *
19437754 AACCCAAATTTAAAACCCAAGACATTACAAACCC-A
1 AACCCAAATTTAAAACCCAAAACAATACAAACCCTA
*
19437789 AACCCAAATTTAAAACCTAAAACTAATA-AAACCCTA
1 AACCCAAATTTAAAACCCAAAAC-AATACAAACCCTA
*
19437825 AGCCCAAA
1 AACCCAAA
19437833 AAGGCCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 27 0.71
36 11 0.29
ACGTcount: A:0.53, C:0.29, G:0.03, T:0.15
Consensus pattern (36 bp):
AACCCAAATTTAAAACCCAAAACAATACAAACCCTA
Found at i:19450031 original size:40 final size:40
Alignment explanation
Indices: 19449944--19450126 Score: 135
Period size: 40 Copynumber: 4.6 Consensus size: 40
19449934 AATTGAATGA
* * * **
19449944 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
19449984 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
19450025 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* * * *
19450064 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCAT-AC
* *
19450104 TATCCGGGCTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
19450127 CTTGGTGCGG
Statistics
Matches: 115, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 107 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:19450151 original size:80 final size:81
Alignment explanation
Indices: 19449983--19450171 Score: 195
Period size: 80 Copynumber: 2.4 Consensus size: 81
19449973 GCTGGAAATT
* * * *
19449983 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19450048 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
19450064 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGCTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19450127 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19450143 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19450172 ATCGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 85 0.98
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19453338 original size:40 final size:39
Alignment explanation
Indices: 19453173--19453356 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
19453163 AAATTGAATG
* * *
19453173 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
19453213 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
19453253 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
19453293 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
19453332 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
19453357 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:19453381 original size:80 final size:81
Alignment explanation
Indices: 19453213--19453401 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
19453203 GCTGGAAATT
* * * *
19453213 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19453278 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
19453294 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19453357 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19453373 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19453402 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19461456 original size:40 final size:39
Alignment explanation
Indices: 19461291--19461474 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
19461281 AAATTGAATG
* * *
19461291 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
19461331 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
19461371 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
19461411 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
19461450 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
19461475 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:19461499 original size:80 final size:81
Alignment explanation
Indices: 19461331--19461519 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
19461321 GCTGGAAATT
* * * *
19461331 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19461396 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
19461412 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19461475 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19461491 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19461520 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19467176 original size:89 final size:89
Alignment explanation
Indices: 19467083--19467553 Score: 502
Period size: 89 Copynumber: 5.3 Consensus size: 89
19467073 AAATAGTAGA
19467083 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
19467148 AGTAGAGCAGGTTGAAG-TACCAAG
66 AGTAGAGCAGGTTGAAGATA-CAAG
* * *
19467172 TCTTATTTCCCTGAAGTTGCAGTGTAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
* *
19467237 AGTAGAGTAAGTTGAAG-TACTAAG
66 AGTAGAGCAGGTTGAAGATAC-AAG
* ** * * * *
19467261 TCTTATTTCCCTGAAGTTGCAGTGGAATAGA-CTGAAGATAGTAGATCTTATCTCCCTGATGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATC-GAAGATAACAAACCTTATCTCTCTGAAGTTG
* ** * * *
19467325 CAATAGAATAGATCGAAGATAACAAA
65 CAGTAGAGCAGGTTGAAGAT-ACAAG
* * * ** * * * ** *
19467351 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TACCAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
* * * **
19467415 AGTGGAACAGGCTGAAGATAGTAG
66 AGTAGAGCAGGTTGAAGATACAAG
* * * *
19467439 ATCTTATCTCCCTGAAGTTGCAATGGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTG
* *
19467504 CAGTGGAGCAGGTTGAAGTTA-AAG
65 CAGTAGAGCAGGTTGAAGATACAAG
19467528 TCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
19467554 GCAGACTGAA
Statistics
Matches: 315, Mismatches: 60, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
88 29 0.09
89 214 0.68
90 70 0.22
91 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGC
AGTAGAGCAGGTTGAAGATACAAG
Found at i:19467231 original size:134 final size:134
Alignment explanation
Indices: 19466990--19467567 Score: 551
Period size: 134 Copynumber: 4.3 Consensus size: 134
19466980 GTCATCATAG
** ** * * *
19466990 CAAACCTTATCTTTCTGAAGTTGCAGTAGAGTAGGTTGAAG-TACCAAG-TCTTATTTCCTTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATA-CAAGATCTTATCTCCCTGAA
* * * ** * * * * * *
19467053 GTTGCAGTGGAACAGA-CTGAAAATAGTAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCG
65 GTTGCAATGGAATAGATC-GAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTG
19467117 AAGATAA
129 AAG-TAA
* * * *
19467124 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TACCAAG-TCTTATTTCCCTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATA-CAAGATCTTATCTCCCTGAA
* * *
19467187 GTTGCAGTGTAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGTAGTAGAGTA-AGTTG
65 GTTGCAATGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TTG
19467251 AAGT-A
129 AAGTAA
** * * * * ** *
19467256 CTAAGTCTTATTTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGTAGATCTTATCTCCCTGAT
1 C-AAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATACAAGATCTTATCTCCCTGAA
* * *
19467321 GTTGCAATAGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA
65 GTTGCAATGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGA
*
19467386 AGTAC
130 AGTAA
** * **
19467391 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGGCTGAAGATAGTAGATCTTATCTCCCTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATACAAGATCTTATCTCCCTGAAG
* * * * * *
19467456 TTGCAATGGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTAGCAGTGGAGCAGGTTGAA
66 TTGCAATGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAA
*
19467521 GTTA
131 GTAA
** * * *
19467525 -AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATA
19467568 GCAGATTTTG
Statistics
Matches: 389, Mismatches: 48, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
132 2 0.01
133 76 0.20
134 309 0.79
135 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (134 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTAGAACAGGCTGAAGATACAAGATCTTATCTCCCTGAAG
TTGCAATGGAATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAA
GTAA
Found at i:19467378 original size:223 final size:223
Alignment explanation
Indices: 19466990--19467418 Score: 759
Period size: 223 Copynumber: 1.9 Consensus size: 223
19466980 GTCATCATAG
* * *
19466990 CAAACCTTATCTTTCTGAAGTTGCAGTAGAGTAGGTTGAAGTACCAAGTCTTATTTCCTTGAAGT
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAAGTTGAAGTACCAAGTCTTATTTCCCTGAAGT
* *
19467055 TGCAGTGGAACAGACTGAAAATAGTAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAG
66 TGCAGTGGAACAGACTGAAAATAGTAGATCTTATCTCCCTGAAGTTGCAATAGAATAGATCGAAG
*
19467120 ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATTTCCCTG
131 ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTG
19467185 AAGTTGCAGTGTAATAGATCGAAGATAA
196 AAGTTGCAGTGTAATAGATCGAAGATAA
* *
19467213 CAAACCTTATCTCTCTGAAGTTGTAGTAGAGTAAGTTGAAGTACTAAGTCTTATTTCCCTGAAGT
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAAGTTGAAGTACCAAGTCTTATTTCCCTGAAGT
* * *
19467278 TGCAGTGGAATAGACTGAAGATAGTAGATCTTATCTCCCTGATGTTGCAATAGAATAGATCGAAG
66 TGCAGTGGAACAGACTGAAAATAGTAGATCTTATCTCCCTGAAGTTGCAATAGAATAGATCGAAG
19467343 ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTG
131 ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTG
19467408 AAGTTGCAGTG
196 AAGTTGCAGTG
19467419 GAACAGGCTG
Statistics
Matches: 195, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
223 195 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (223 bp):
CAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAAGTTGAAGTACCAAGTCTTATTTCCCTGAAGT
TGCAGTGGAACAGACTGAAAATAGTAGATCTTATCTCCCTGAAGTTGCAATAGAATAGATCGAAG
ATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTCCCTG
AAGTTGCAGTGTAATAGATCGAAGATAA
Found at i:19467641 original size:133 final size:133
Alignment explanation
Indices: 19467197--19467610 Score: 445
Period size: 134 Copynumber: 3.1 Consensus size: 133
19467187 GTTGCAGTGT
** * * ** * * *
19467197 AATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGTAGTAGAGTAAGTTGAAGTACTAAGT
1 AATAGATAAAAGATAGCAAACCTTATCTCTCAGAAGTTACAGTGGAGCAGGTTGAAGTAC-AAGT
* * * * * **
19467262 CTTATTTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGTAGATCTTATCTCCCTGATGTTGCA
65 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGATCTTATCCCCCTGAAGTCACA
19467327 ATAG
130 ATAG
** * * * *
19467331 AATAGATCGAAGATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGT
1 AATAGATAAAAGATAGCAAACCTTATCTCTCAGAAGTTACAGTGGAGCAGGTTGAAGTA-CAAGT
* * * **
19467396 CTTATCTCCCTGAAGTTGCAGTGGAACAGGCTGAAGATAGTAGATCTTATCTCCCTGAAGTTGCA
65 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGATCTTATCCCCCTGAAGTCACA
*
19467461 ATGG
130 ATAG
* *
19467465 AATAGATCAAAGATAGCAAACCTTATCTCTCTGAAG-TAGCAGTGGAGCAGGTTGAAGTTA-AAG
1 AATAGATAAAAGATAGCAAACCTTATCTCTCAGAAGTTA-CAGTGGAGCAGGTTGAAG-TACAAG
* * * *
19467528 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATTTTGTCCCCCTGCAGTCAC
64 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGATCTTATCCCCCTGAAGTCAC
*
19467593 AGTAG
129 AATAG
*
19467598 AGTAGATTAAAAG
1 AATAGA-TAAAAG
19467611 CTACAAGGCT
Statistics
Matches: 251, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
133 68 0.27
134 180 0.72
135 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (133 bp):
AATAGATAAAAGATAGCAAACCTTATCTCTCAGAAGTTACAGTGGAGCAGGTTGAAGTACAAGTC
TTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGATCTTATCCCCCTGAAGTCACAA
TAG
Found at i:19492993 original size:40 final size:40
Alignment explanation
Indices: 19492928--19493131 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
19492918 CGGAATACAA
* ** * * *
19492928 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
19492968 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
19493008 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
19493048 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * *
19493088 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGG-ACTTAGC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTA-TTAGC
19493128 CCGG
1 CCGG
19493132 GTATCATTCA
Statistics
Matches: 152, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 150 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:19493286 original size:64 final size:64
Alignment explanation
Indices: 19493218--19493406 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
19493208 GAACACAAAC
19493218 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
19493282 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
19493339 AC
63 AT
19493341 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
19493405 AT
1 AT
19493407 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:19493317 original size:123 final size:123
Alignment explanation
Indices: 19493098--19493438 Score: 610
Period size: 123 Copynumber: 2.8 Consensus size: 123
19493088 CCGGATATAG
* * * * * *
19493098 TCACTAGCACAATTGCCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAAT
1 TCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATAT
*
19493163 CAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATA
66 CAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATA
19493221 TCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATAT
1 TCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATAT
19493286 CAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATA
66 CAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATA
*
19493344 TCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGT
1 TCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATAT
19493409 CAATAATCATTACACATCCATATTTCATTT
66 CAATAATCATTACACATCCATATTTCATTT
19493439 CACATAATTC
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 210 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (123 bp):
TCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATAT
CAATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATA
Found at i:19496180 original size:18 final size:18
Alignment explanation
Indices: 19496138--19496172 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19496128 TTGCCTCAAA
19496138 TTCAAATCTTTTTGAGTC
1 TTCAAATCTTTTTGAGTC
19496156 TTCAAATCTTTTTGAGT
1 TTCAAATCTTTTTGAGT
19496173 TATCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (18 bp):
TTCAAATCTTTTTGAGTC
Found at i:19498076 original size:29 final size:29
Alignment explanation
Indices: 19497941--19498075 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
19497931 GCTTGGAAGG
19497941 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
19497970 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
19497999 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
19498028 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
19498057 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
19498076 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:19504641 original size:40 final size:40
Alignment explanation
Indices: 19504398--19504620 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
19504388 TGGATGATAA
* * *
19504398 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
19504438 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19504478 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19504518 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19504558 CCGGGCTATGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19504598 CCGGGCTATGTCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
19504621 CGAGCGAATA
Statistics
Matches: 176, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 175 0.99
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19512764 original size:120 final size:120
Alignment explanation
Indices: 19512526--19512783 Score: 360
Period size: 120 Copynumber: 2.2 Consensus size: 120
19512516 TGGATGATAA
* *
19512526 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * * *
19512591 TGCGAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGATACTATAT
* * *
19512646 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATTCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
19512710 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGTGA-ATAGCTATAT
65 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGATA-CTATAT
* *
19512766 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19512784 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
119 17 0.14
120 106 0.86
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGATACTATAT
Found at i:19512769 original size:40 final size:40
Alignment explanation
Indices: 19512526--19512748 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
19512516 TGGATGATAA
* * *
19512526 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
19512566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19512606 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19512646 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19512686 TCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19512726 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
19512749 CGAGTGAATA
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 172 0.99
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19515465 original size:46 final size:47
Alignment explanation
Indices: 19515358--19515479 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
19515348 TGTCTTCGAC
** * *
19515358 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
19515408 ATGGGCCTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
19515454 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
19515480 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:19515849 original size:30 final size:30
Alignment explanation
Indices: 19515815--19515875 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
19515805 TCCTTTACTC
*
19515815 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
19515845 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
19515875 A
1 A
19515876 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:19529582 original size:55 final size:53
Alignment explanation
Indices: 19529454--19529655 Score: 233
Period size: 53 Copynumber: 3.8 Consensus size: 53
19529444 ATTAGGATTT
* *
19529454 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * * *
19529507 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTC-ATAAGGC
* * * * * *
19529562 AAAGATCCCATGTAAAACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
19529615 AAGGATACCACGTAAGACCATGTCACGACATGGCAATGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTA
19529656 TGTTTAAAAA
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
53 75 0.62
54 7 0.06
55 39 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:19536964 original size:53 final size:53
Alignment explanation
Indices: 19536879--19537084 Score: 232
Period size: 53 Copynumber: 3.8 Consensus size: 53
19536869 ATTAGGGTTT
* * *
19536879 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * * * * * *
19536932 AAGGATATCATGTAAGACCTTGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
19536987 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * * *
19537040 AAGGATACCACGTAAGACCATGTCAAGAGATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
19537085 TAAAAAGGAA
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
53 78 0.62
54 8 0.06
55 39 0.31
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:19544736 original size:40 final size:40
Alignment explanation
Indices: 19544681--19544763 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
19544671 ATCAACAAAG
* * * *
19544681 GAGAAAGTTTTTTCACGTTGTGAAGTACTATTTCTGGGAA
1 GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
19544721 GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
1 GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
19544761 GAG
1 GAG
19544764 CTATATTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (40 bp):
GAGAAAGATTCTTCACGATGTGAAGTACTATTTCTAGGAA
Found at i:19545712 original size:25 final size:25
Alignment explanation
Indices: 19545678--19545732 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
19545668 ATGGCATGAC
19545678 AAGCACATTCGAGTTCGAGAATTTG
1 AAGCACATTCGAGTTCGAGAATTTG
19545703 AAGCACATTCGAGTTCGAGAATTTG
1 AAGCACATTCGAGTTCGAGAATTTG
19545728 AAGCA
1 AAGCA
19545733 AGTCAGCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (25 bp):
AAGCACATTCGAGTTCGAGAATTTG
Found at i:19547218 original size:25 final size:24
Alignment explanation
Indices: 19547171--19547228 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
19547161 TAGTTTTCTT
*
19547171 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAATTTCATTCAATTA
*
19547195 GTTAATTTTTCAA-TTCATTGAATTA
1 -TTAATTTTT-AATTTCATTCAATTA
19547220 TTAATTTTT
1 TTAATTTTT
19547229 TTTTATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 9 0.30
25 19 0.63
26 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (24 bp):
TTAATTTTTAATTTCATTCAATTA
Found at i:19547236 original size:14 final size:14
Alignment explanation
Indices: 19547217--19547246 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19547207 ATTCATTGAA
19547217 TTATTAATTTTTTT
1 TTATTAATTTTTTT
19547231 TTATTAATTTTTTT
1 TTATTAATTTTTTT
19547245 TT
1 TT
19547247 GAGAAAATAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTAATTTTTTT
Found at i:19549820 original size:56 final size:57
Alignment explanation
Indices: 19549752--19549862 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
19549742 CACCTATCTA
* * * * *
19549752 TGGCCCACTAGGCTC-AATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTAGGCCCAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTATG
*
19549808 TGGCCCATTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
1 TGGCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
19549863 CAGTCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 23 0.49
57 24 0.51
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
TGGCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATG
Found at i:19549858 original size:28 final size:28
Alignment explanation
Indices: 19549750--19549860 Score: 125
Period size: 28 Copynumber: 3.9 Consensus size: 28
19549740 CACACCTATC
* * *
19549750 TATGGCCCACTAGGCTCAATCTCTTTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
* * *
19549778 TATGGCCCATTAGGCCCATTCACATTTA
1 TATGGCCCACTAGGCCCAATCACATTCA
* *
19549806 TGTGGCCCATTAGGCCCAAATCACATTCA
1 TATGGCCCACTAGGCCC-AATCACATTCA
19549835 TATGG-CCACTAGGCCCAAATCACATT
1 TATGGCCCACTAGGCCC-AATCACATT
19549861 TACAGTCATG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 58 0.82
29 13 0.18
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:19553974 original size:16 final size:16
Alignment explanation
Indices: 19553953--19553984 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19553943 AAATTTGAGA
19553953 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
19553969 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
19553985 GCGTTACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:19556666 original size:13 final size:14
Alignment explanation
Indices: 19556640--19556672 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19556630 ATAAAATATA
19556640 AATTTATATTTAAT
1 AATTTATATTTAAT
19556654 AATTTAT-TTTAAT
1 AATTTATATTTAAT
19556667 ATATTT
1 A-ATTT
19556673 CATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:19566044 original size:27 final size:27
Alignment explanation
Indices: 19566008--19566111 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
19565998 CAGTGACGGT
* *
19566008 AATATAATCGGCACACAGCCATGGGTA
1 AATATAATCGGCACAAAGCCATAGGTA
* * * * *
19566035 AATATGATCGACACAGAGTCATCA-ATA
1 AATATAATCGGCACAAAGCCAT-AGGTA
* * * *
19566062 AATATGATAGGCACATAGCCACAGGTA
1 AATATAATCGGCACAAAGCCATAGGTA
* *
19566089 AATACAATTGGCACAAAGCCATA
1 AATATAATCGGCACAAAGCCATA
19566112 ATCAAGACAG
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 57 0.98
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
AATATAATCGGCACAAAGCCATAGGTA
Found at i:19566590 original size:27 final size:27
Alignment explanation
Indices: 19566452--19566578 Score: 191
Period size: 27 Copynumber: 4.7 Consensus size: 27
19566442 TACCTTATAG
*
19566452 GGGTATTTCGGTAATTTTACACTACAA
1 GGGTATTTCGATAATTTTACACTACAA
* *
19566479 GGGTATTTAGATAATTTTACACTACAC
1 GGGTATTTCGATAATTTTACACTACAA
* * *
19566506 GGATATTTCGGTAATTTTACACTATAA
1 GGGTATTTCGATAATTTTACACTACAA
*
19566533 GGGTATTTTGATAATTTTACACTACAA
1 GGGTATTTCGATAATTTTACACTACAA
19566560 GGGTATTTCGATAATTTTA
1 GGGTATTTCGATAATTTTA
19566579 TAAACTAGGG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACACTACAA
Found at i:19575828 original size:30 final size:30
Alignment explanation
Indices: 19575794--19575854 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
19575784 TCCTTAACTC
19575794 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
19575824 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
19575854 A
1 A
19575855 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:19581145 original size:3 final size:3
Alignment explanation
Indices: 19581137--19581174 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19581127 AGTAAAAATA
19581137 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19581175 ACAAATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19582888 original size:31 final size:31
Alignment explanation
Indices: 19582842--19582916 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
19582832 ACGGTTACTG
*
19582842 GGCCAAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
19582873 GGCCGAAGCTTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
19582904 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
19582917 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:19582987 original size:42 final size:42
Alignment explanation
Indices: 19582940--19583031 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
19582930 TGGCCCATAG
* * *
19582940 GCCCATTTCAATATCACATGTAATG-TCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATG-AAAGACCAATGAATGTATGCAA
19582982 GCCCATTTCAATATCACATGAAAGACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAAGACCAATGAATGTATGCAA
*
19583024 GCCTATTT
1 GCCCATTT
19583032 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAAGACCAATGAATGTATGCAA
Found at i:19583207 original size:25 final size:25
Alignment explanation
Indices: 19583179--19583248 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
19583169 CTCTTTTAAT
19583179 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
19583204 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
19583229 AAATGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
19583249 TGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:19584209 original size:27 final size:27
Alignment explanation
Indices: 19584183--19584327 Score: 123
Period size: 27 Copynumber: 5.3 Consensus size: 27
19584173 ATCTACAAAC
*
19584183 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
19584210 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
19584239 TAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
19584266 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** **
19584293 TGAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
19584320 CAAGGGTA
1 CAAGGGTA
19584328 AAACGATAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 68 0.72
28 7 0.07
29 17 0.18
30 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:19584320 original size:54 final size:54
Alignment explanation
Indices: 19584158--19584642 Score: 231
Period size: 54 Copynumber: 8.9 Consensus size: 54
19584148 TCATCCTACA
* * * *** * * *
19584158 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
* * * *
19584212 ATGGTATTTCT-ATAATTTTTAGAAAGTTAAGGGTATTTCT-GTAATTTTGTAAATC-
1 AGGGTATTT-TGGTAA-TTTTACAAA-TTGAGGGTATTT-TAGTAATTTTGTAAATCG
* *
19584267 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTGTAAATCA
1 A-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
**** * ** ***** * *
19584322 AGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
*** * ** * *** * *
19584376 AGGGTAAAATAGTAATTTTAGGAATTAAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
*** * ** * * *****
19584430 AGGGTAAAATGGTAATTCTGTAAATCGAGGGAAAAACGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
* * *
19584484 AGGGTACTTTGGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTAT-AATCG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
* ** * ** * * * ** *
19584537 ACGGTATTTTAATAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
* ** *
19584591 AAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAGTAAA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTT-GTAAA
19584643 CTAAAGTATT
Statistics
Matches: 334, Mismatches: 87, Indels: 19
0.76 0.20 0.04
Matches are distributed among these distances:
53 42 0.13
54 238 0.71
55 20 0.06
56 34 0.10
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGTAAATCG
Found at i:19584497 original size:27 final size:27
Alignment explanation
Indices: 19584252--19584642 Score: 221
Period size: 27 Copynumber: 14.5 Consensus size: 27
19584242 GGGTATTTCT
* *
19584252 GTAATTTTGTAAATC-AGGGGTATTTTG
1 GTAATTTTATAAATCGA-GGGTAATTTG
* * *
19584279 GTAATTTTACAAATTGAGGGTATTTTG
1 GTAATTTTATAAATCGAGGGTAATTTG
* * ***
19584306 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAATTTG
* * * ***
19584333 ATAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAATTTG
* ** *
19584360 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAATTTG
** ** ** *
19584387 GTAATTTTAGGAATTAAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAATTTG
* **
19584414 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAATTTG
* * * ***
19584441 GTAATTCTGTAAATCGAGGGAAAAACG
1 GTAATTTTATAAATCGAGGGTAATTTG
* *
19584468 GTAATTTTGTAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAATTTG
* * * * *
19584495 GTAATTTTACAAATTGAGGGCATTTTA
1 GTAATTTTATAAATCGAGGGTAATTTG
* * *
19584522 GTAATTTTAT-AATCGACGGTATTTTA
1 GTAATTTTATAAATCGAGGGTAATTTG
* * * *
19584548 ATAATTTTATAAACCGGGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAATTTG
* * * *
19584575 GTAATTTTACAAGTCGAAGGT-ATTTCA
1 GTAATTTTATAAATCGAGGGTAATTT-G
* * *
19584602 GTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTATAAATCGAGGGTAATTTG
19584629 GTAATTTTAGTAAA
1 GTAATTTTA-TAAA
19584643 CTAAAGTATT
Statistics
Matches: 291, Mismatches: 68, Indels: 9
0.79 0.18 0.02
Matches are distributed among these distances:
26 25 0.09
27 259 0.89
28 7 0.02
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.37
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAATTTG
Found at i:19584570 original size:80 final size:81
Alignment explanation
Indices: 19584469--19584643 Score: 235
Period size: 80 Copynumber: 2.2 Consensus size: 81
19584459 GGAAAAACGG
* * * * * *
19584469 TAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTA-TA
1 TAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAA
19584533 ATCGACGGTATTTTAA
66 ATCGACGGTATTTTAA
* * *
19584549 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAA
1 TAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAA
* *
19584614 ATCGAGGGTATTTTAG
66 ATCGACGGTATTTTAA
19584630 TAATTTTAGTAAAC
1 TAATTTTA-TAAAC
19584644 TAAAGTATTC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 54 0.66
81 23 0.28
82 5 0.06
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
TAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAA
ATCGACGGTATTTTAA
Found at i:19587694 original size:22 final size:23
Alignment explanation
Indices: 19587661--19587703 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
19587651 AGTACTCACC
19587661 ACTTTTTGTGTTT-GAAGGGAAT
1 ACTTTTTGTGTTTGGAAGGGAAT
19587683 ACTTGTTT-TGTTTGGAAGGGA
1 ACTT-TTTGTGTTTGGAAGGGA
19587704 TATTGGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.44
Consensus pattern (23 bp):
ACTTTTTGTGTTTGGAAGGGAAT
Found at i:19594338 original size:40 final size:40
Alignment explanation
Indices: 19594255--19594440 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
19594245 TCGAATGATG
* * * *
19594255 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGCTTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTAC-TAAA
**
19594295 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19594335 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19594375 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
19594416 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
19594441 AACTAGTAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.90
41 12 0.09
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19594458 original size:80 final size:80
Alignment explanation
Indices: 19594255--19594473 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 80
19594245 TCGAATGATG
* **
19594255 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GCTTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCT-AGTAGC-TATATCCGGGTTAAGATCCGAAGGCAT
19594318 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
* * * *
19594335 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATATCCGGGTTAAGAT-CCGAAGGCAT
*
19594398 TTGTGTGAGTTACTATAA
64 TTGTGCGAGTTACTA-AA
* **
19594416 -CCGAGCTATGTCCCGAAGGCATTTGAACTAGTAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGTTAAGA-TCCGAAGG
19594474 TACGTGATTC
Statistics
Matches: 118, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
79 16 0.14
80 91 0.77
81 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:19601339 original size:34 final size:33
Alignment explanation
Indices: 19601296--19601359 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
19601286 TAGTAGTAAT
*
19601296 AGTCTGGGCCTAAGCCCATTTCAGTATCAGTGGC
1 AGTCAGGGCCTAAGCCCATTTCAGTA-CAGTGGC
*
19601330 AGTCAGGGCCTTAGCCCATTTCAGTACAGT
1 AGTCAGGGCCTAAGCCCATTTCAGTACAGT
19601360 ATGCAAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (33 bp):
AGTCAGGGCCTAAGCCCATTTCAGTACAGTGGC
Found at i:19603174 original size:12 final size:12
Alignment explanation
Indices: 19603157--19603184 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19603147 TCCTAATACA
19603157 CTCCTAAAATCC
1 CTCCTAAAATCC
19603169 CTCCTAAAATCC
1 CTCCTAAAATCC
19603181 CTCC
1 CTCC
19603185 AAGACCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.25
Consensus pattern (12 bp):
CTCCTAAAATCC
Done.