Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 52 of 66
Found at i:18871873 original size:247 final size:245
Alignment explanation
Indices: 18871481--18871973 Score: 729
Period size: 247 Copynumber: 2.0 Consensus size: 245
18871471 AAAATTGAAG
* * * * *
18871481 CGGCTCAACTGAAGTTGATAAACTACTAAAGCAAATCTGAGGTGTGATATGCTGTTAGAAAATTA
1 CGGCTCAACGGAAGTTGATAAACTACTAAAGCAAATCTAAGGGGTGATACGCTATTAGAAAATTA
* *
18871546 GTTAAAAAATTAAAAAAAAAATTTGTCAAAAATTGAAGTTGATAAACTACTCAAACAAGTTTGGA
66 GTTAAAAAATTAAAAAAAAAATTTGTCAAAAATTAAAGATGATAAACTACTCAAACAAGTTTGGA
* * * ** * *
18871611 GTGTGATATACTATTTTTAAAGATAATTTTTGCCAACAAATTAAGAGAAAACTCTTCCTGAATAG
131 GTGTAATACACTATTTTCAAAGATAATTACTGCCAAAAAATTAAGAGAAAACTCTTCATGAATAG
* *
18871676 TTAGAAAATTAAAAGAAAAAATGTTGTCAAAAATTGAAGTTGATAAACTA
196 TTAGAAAATTAAAAGAAAAAATGTTGTCAAAAATTGAAGCTAATAAACTA
* *
18871726 CGGCTCAACGGAAGTTGATAAATTACTCCAA-CAAATCTAAGGGGTGATACGCTATTAGAAAATT
1 CGGCTCAACGGAAGTTGATAAACTACT-AAAGCAAATCTAAGGGGTGATACGCTATTAGAAAATT
* *
18871790 AGTTAGAAAATTAAAGAAAAAAATATTGTCAAAAATTAAAGATGATAAACTATTCAAACAAGTTT
65 AGTTAAAAAATTAAA-AAAAAAAT-TTGTCAAAAATTAAAGATGATAAACTACTCAAACAAGTTT
*
18871855 -GAGGTGTAATACACTATTTTCAAAGATAATTACTGCCAAAAAATTAAGAGAAAACTCTTTATGA
128 GGA-GTGTAATACACTATTTTCAAAGATAATTACTGCCAAAAAATTAAGAGAAAACTCTTCATGA
* *
18871919 ATAGTTAGAAAATTAAAAGAAAAAGTGTTGTCGAAAATTGAAGCTAATAAACTA
192 ATAGTTAGAAAATTAAAAGAAAAAATGTTGTCAAAAATTGAAGCTAATAAACTA
18871973 C
1 C
18871974 TCAAACAAGT
Statistics
Matches: 221, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
245 68 0.31
246 12 0.05
247 141 0.64
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (245 bp):
CGGCTCAACGGAAGTTGATAAACTACTAAAGCAAATCTAAGGGGTGATACGCTATTAGAAAATTA
GTTAAAAAATTAAAAAAAAAATTTGTCAAAAATTAAAGATGATAAACTACTCAAACAAGTTTGGA
GTGTAATACACTATTTTCAAAGATAATTACTGCCAAAAAATTAAGAGAAAACTCTTCATGAATAG
TTAGAAAATTAAAAGAAAAAATGTTGTCAAAAATTGAAGCTAATAAACTA
Found at i:18872503 original size:39 final size:39
Alignment explanation
Indices: 18872459--18872538 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
18872449 AAAAACTACC
*
18872459 TATTAATGTAGCTACAGCACCGAAATTACCTAACAATGG
1 TATTAATGTAGCTACAACACCGAAATTACCTAACAATGG
*
18872498 TATTAATGTAGCTACAACACCGAAATTACCTAGCAATGG
1 TATTAATGTAGCTACAACACCGAAATTACCTAACAATGG
18872537 TA
1 TA
18872539 CTCTTTCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (39 bp):
TATTAATGTAGCTACAACACCGAAATTACCTAACAATGG
Found at i:18874643 original size:20 final size:20
Alignment explanation
Indices: 18874618--18874668 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
18874608 CATAAATATC
*
18874618 CAAGTTTCTAGCA-ACTTCTT
1 CAAGTTTCCAGCAGA-TTCTT
18874638 CAAGTTTCCAGCAGATTCTT
1 CAAGTTTCCAGCAGATTCTT
*
18874658 CAAGCTTCCAG
1 CAAGTTTCCAG
18874669 TAACTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (20 bp):
CAAGTTTCCAGCAGATTCTT
Found at i:18882999 original size:26 final size:26
Alignment explanation
Indices: 18882969--18883177 Score: 204
Period size: 26 Copynumber: 8.4 Consensus size: 26
18882959 TAGACATTAC
*
18882969 GTGACT-GATTTTTAATAAGGCATTGT
1 GTGACTAG-TTTTTGATAAGGCATTGT
* *
18882995 GTGACTAGTTTCTGATAAGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGT
**
18883021 GTGACT-GACTTTG----GGCATTGT
1 GTGACTAGTTTTTGATAAGGCATTGT
18883042 GTGACTAGTTTTTGATAAGGCATTGT
1 GTGACTAGTTTTTGATAAGGCATTGT
* *
18883068 GTGACTAGTTTCTGATAAGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGT
*
18883094 GTGACTAG---TTGAT-AGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGT
* *
18883116 GTAACTAGTTTTTGATAAGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGT
* ** *
18883142 GTGACTAGTTTCTGATAACCCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGT
*
18883168 ATGACTAGTT
1 GTGACTAGTT
18883178 GATAGGTATT
Statistics
Matches: 155, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
21 13 0.08
22 21 0.14
23 4 0.03
25 9 0.06
26 107 0.69
27 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.37
Consensus pattern (26 bp):
GTGACTAGTTTTTGATAAGGCATTGT
Found at i:18883046 original size:73 final size:72
Alignment explanation
Indices: 18882944--18883174 Score: 311
Period size: 73 Copynumber: 3.2 Consensus size: 72
18882934 ATTTTGGATG
* * *
18882944 TTGCGTGACTTACTTTAGACATTACGTGACT-GATTTTTAATAAGGCATTGTGTGACTAGTTTCT
1 TTGCGTGAC-TACTTTAGGCATTGCGTGACTAG-TTTTTGATAAGGCATTGTGTGACTAGTTTCT
18883008 GATAAGGCA
64 GATAAGGCA
* *
18883017 TTGCGTGACTGACTTTGGGCATTGTGTGACTAGTTTTTGATAAGGCATTGTGTGACTAGTTTCTG
1 TTGCGTGACT-ACTTTAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGTGTGACTAGTTTCTG
18883082 ATAAGGCA
65 ATAAGGCA
* * *
18883090 TTGCGTGACTAGTTGATAGGCATTGCGTAACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
1 TTGCGTGACTACTT--TAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGTGTGACTAGTTTCT
**
18883155 GATAACCCA
64 GATAAGGCA
*
18883164 TTGCATGACTA
1 TTGCGTGACTA
18883175 GTTGATAGGT
Statistics
Matches: 141, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
72 4 0.03
73 74 0.52
74 63 0.45
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (72 bp):
TTGCGTGACTACTTTAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGTGTGACTAGTTTCTGA
TAAGGCA
Found at i:18883132 original size:48 final size:49
Alignment explanation
Indices: 18883034--18883245 Score: 172
Period size: 48 Copynumber: 4.4 Consensus size: 49
18883024 ACTGACTTTG
* * *
18883034 GGCATTGTGTGACTAGTTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAG---TTGATAAGGCATTGCGTAACTAGTTTCTGATAA
*
18883086 GGCATTGCGTGACTAGTTGAT-AGGCATTGCGTAACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTGATAAGGCATTGCGTAACTAGTTTCTGATAA
** * *
18883134 GGCATTGCGTGACTAGTTTCTGATAACCCATTGCATGACTAG--T-TGAT-A
1 GGCATTGCGTGACTAG--T-TGATAAGGCATTGCGTAACTAGTTTCTGATAA
* * * * *
18883182 GGTATTGCATGACTTGTT-AGTAAGGCATTGCGTAACTTG-TT-AG-TAA
1 GGCATTGCGTGACTAGTTGA-TAAGGCATTGCGTAACTAGTTTCTGATAA
*
18883228 GACATTGCGTGACTAGTT
1 GGCATTGCGTGACTAGTT
18883246 ACTAAGACAT
Statistics
Matches: 132, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 16 0.12
46 18 0.14
48 54 0.41
49 9 0.07
50 2 0.02
51 4 0.03
52 28 0.21
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (49 bp):
GGCATTGCGTGACTAGTTGATAAGGCATTGCGTAACTAGTTTCTGATAA
Found at i:18883155 original size:74 final size:74
Alignment explanation
Indices: 18882977--18883189 Score: 313
Period size: 74 Copynumber: 2.9 Consensus size: 74
18882967 ACGTGACTGA
* * *
18882977 TTTTTAATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACTGACTT--TGGGCATT
1 TTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACT-AGTTGATAGGCATT
* *
18883040 GTGTGACTAG
65 GCGTAACTAG
18883050 TTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTG
1 TTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTG
18883115 CGTAACTAG
66 CGTAACTAG
* ** * *
18883124 TTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAACCCATTGCATGACTAGTTGATAGGTATTG
1 TTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTG
18883189 C
66 C
18883190 ATGACTTGTT
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
72 3 0.02
73 49 0.38
74 76 0.59
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (74 bp):
TTTTTGATAAGGCATTGTGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTGATAGGCATTG
CGTAACTAG
Found at i:18883211 original size:23 final size:23
Alignment explanation
Indices: 18883162--18883257 Score: 88
Period size: 23 Copynumber: 4.2 Consensus size: 23
18883152 TCTGATAACC
*
18883162 CATTGCATGACTAGTT-G-ATAGG
1 CATTGCATGACTAGTTAGTA-AGA
* * *
18883184 TATTGCATGACTTGTTAGTAAGG
1 CATTGCATGACTAGTTAGTAAGA
* * *
18883207 CATTGCGTAACTTGTTAGTAAGA
1 CATTGCATGACTAGTTAGTAAGA
* *
18883230 CATTGCGTGACTAGTTACTAAGA
1 CATTGCATGACTAGTTAGTAAGA
18883253 CATTG
1 CATTG
18883258 TGTGAATTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.22
23 48 0.76
24 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (23 bp):
CATTGCATGACTAGTTAGTAAGA
Found at i:18883262 original size:23 final size:23
Alignment explanation
Indices: 18883185--18883262 Score: 102
Period size: 23 Copynumber: 3.4 Consensus size: 23
18883175 GTTGATAGGT
* *
18883185 ATTGCATGACTTGTTAGTAAGGC
1 ATTGCGTGACTTGTTAGTAAGAC
*
18883208 ATTGCGTAACTTGTTAGTAAGAC
1 ATTGCGTGACTTGTTAGTAAGAC
* *
18883231 ATTGCGTGACTAGTTACTAAGAC
1 ATTGCGTGACTTGTTAGTAAGAC
*
18883254 ATTGTGTGA
1 ATTGCGTGA
18883263 ATTAGGCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (23 bp):
ATTGCGTGACTTGTTAGTAAGAC
Found at i:18883317 original size:22 final size:22
Alignment explanation
Indices: 18883286--18883354 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
18883276 TAAAAATCAA
*
18883286 TCACGCAATGTATAAAAACTAG
1 TCACGTAATGTATAAAAACTAG
* * * *
18883308 TCATGTAATGTCT-AAAACCAA
1 TCACGTAATGTATAAAAACTAG
18883329 TCACGTAATG-ACTAAAAACTAG
1 TCACGTAATGTA-TAAAAACTAG
18883351 TCAC
1 TCAC
18883355 ATGGTGATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (22 bp):
TCACGTAATGTATAAAAACTAG
Found at i:18883336 original size:21 final size:21
Alignment explanation
Indices: 18883278--18883345 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
18883268 GCATTGCTTA
* * *
18883278 AAAATCAATCACGCAATGTAT
1 AAAACCAATCACGTAATGTCT
* * *
18883299 AAAAACTAGTCATGTAATGTCT
1 -AAAACCAATCACGTAATGTCT
*
18883321 AAAACCAATCACGTAATGACT
1 AAAACCAATCACGTAATGTCT
18883342 AAAA
1 AAAA
18883346 ACTAGTCACA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.24
Consensus pattern (21 bp):
AAAACCAATCACGTAATGTCT
Found at i:18883448 original size:2 final size:2
Alignment explanation
Indices: 18883441--18883475 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18883431 AAAGCCTAAA
18883441 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
18883476 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18885299 original size:34 final size:34
Alignment explanation
Indices: 18885255--18885320 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
18885245 TTAAACTTTC
*
18885255 CCTTAATGCCTCACTTCCCCTCTTTCCCTTAAGG
1 CCTTAATGCCTCACTTACCCTCTTTCCCTTAAGG
* *
18885289 CCTTATTGCCTCACTTACTCTCTTTCCCTTAA
1 CCTTAATGCCTCACTTACCCTCTTTCCCTTAA
18885321 TGCTTCTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.15, C:0.39, G:0.06, T:0.39
Consensus pattern (34 bp):
CCTTAATGCCTCACTTACCCTCTTTCCCTTAAGG
Found at i:18890956 original size:43 final size:43
Alignment explanation
Indices: 18890893--18890976 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
18890883 ATATCAATAG
*
18890893 GAGAACAGGTACTGGCTACAGAATAACAGGCTAGATAATCTCA
1 GAGAACAGGTACTGGATACAGAATAACAGGCTAGATAATCTCA
* *
18890936 GAGAACTGGTACTGGATACAGAATCACAGGCTAGATAATCT
1 GAGAACAGGTACTGGATACAGAATAACAGGCTAGATAATCT
18890977 GCTGCCTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (43 bp):
GAGAACAGGTACTGGATACAGAATAACAGGCTAGATAATCTCA
Found at i:18898034 original size:23 final size:23
Alignment explanation
Indices: 18897974--18898035 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
18897964 ATCCTCCATG
*
18897974 TACAATCTTCAAAAT-CTCTAGG
1 TACAATCTTCAAAATCCTCTAGA
*
18897996 TA-AGTGATTTTC-AAATCCTCTAGA
1 TACA---ATCTTCAAAATCCTCTAGA
18898020 TACAATCTTCAAAATC
1 TACAATCTTCAAAATC
18898036 ATCGAGTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 11
0.69 0.07 0.24
Matches are distributed among these distances:
21 1 0.03
22 7 0.23
23 9 0.29
24 13 0.42
25 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (23 bp):
TACAATCTTCAAAATCCTCTAGA
Found at i:18898045 original size:46 final size:46
Alignment explanation
Indices: 18897956--18898047 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
18897946 ACCTTTAGCA
* *
18897956 ATTTTTAAATCCTCCATGTACAATCTTCAAAATCTCTAGGTAAGTG
1 ATTTTCAAATCCTCCATGTACAATCTTCAAAATCTCGAGGTAAGTG
*
18898002 ATTTTCAAATCCTCTA-GATACAATCTTCAAAATCATCGA-GTAAGTG
1 ATTTTCAAATCCTCCATG-TACAATCTTCAAAATC-TCGAGGTAAGTG
18898048 CTTCCGAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 1 0.02
46 37 0.90
47 3 0.07
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (46 bp):
ATTTTCAAATCCTCCATGTACAATCTTCAAAATCTCGAGGTAAGTG
Found at i:18898258 original size:66 final size:64
Alignment explanation
Indices: 18898084--18898278 Score: 164
Period size: 66 Copynumber: 3.0 Consensus size: 64
18898074 TAGGTAAGCA
* * * * *
18898084 TTGGATCTAAGATTGGAAATCTCTAGAATTGACATCCAGTTTTGA-TATCGATCTATCGATAAAT
1 TTGGATATAAGATTGGAAATCTC-AAAATTGACATCCAGTTTT-ACTAT-GATCCATCCATGAAT
18898148 CC
63 CC
* * * * *
18898150 CTAGATCA-ACGATTAGAAATCCTCAAAATTGAC-GCCAGGTTTTACTACTGATCCATCCATGAA
1 TTGGAT-ATAAGATTGGAAAT-CTCAAAATTGACATCCA-GTTTTACTA-TGATCCATCCATGAA
18898213 TCC
62 TCC
* *
18898216 TTGGATATAAGATTGGAAATCTTCAAAATTGACATCGAGTTTTGCTATTGATCCA-CTCATGAA
1 TTGGATATAAGATTGGAAATC-TCAAAATTGACATCCAGTTTTACTA-TGATCCATC-CATGAA
18898279 CAACATAAAG
Statistics
Matches: 102, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
65 7 0.07
66 89 0.87
67 6 0.06
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (64 bp):
TTGGATATAAGATTGGAAATCTCAAAATTGACATCCAGTTTTACTATGATCCATCCATGAATCC
Found at i:18900896 original size:14 final size:14
Alignment explanation
Indices: 18900873--18900918 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
18900863 AAGAAAAATT
18900873 AAAA-ATATATAAA
1 AAAATATATATAAA
18900886 AAAATATATATATAA
1 AAAATATATATA-AA
*
18900901 AAAATGA-AAATAAA
1 AAAAT-ATATATAAA
18900915 AAAA
1 AAAA
18900919 AAGGGAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 11 0.38
16 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAATATATATAAA
Found at i:18913499 original size:20 final size:20
Alignment explanation
Indices: 18913452--18913505 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
18913442 NNNNAAAAAA
18913452 AAAATAGTAATAATAAGAAAT
1 AAAATAG-AATAATAAGAAAT
*
18913473 AAGAATAGAA-AATATGATAAT
1 AA-AATAGAATAATAAGA-AAT
18913494 AAAATAG-ATAAT
1 AAAATAGAATAAT
18913506 TGCATTAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.03
20 14 0.48
21 9 0.31
22 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAATAGAATAATAAGAAAT
Found at i:18919557 original size:2 final size:2
Alignment explanation
Indices: 18919552--18919583 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18919542 GGAATGAGAG
*
18919552 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18919584 GTCTTGCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18920849 original size:2 final size:2
Alignment explanation
Indices: 18920835--18920867 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
18920825 TTTTTTTTTT
*
18920835 TG TG T- TG TA TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
18920868 CACGTGGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:18927841 original size:21 final size:20
Alignment explanation
Indices: 18927821--18927859 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18927811 ATTTAGTGAG
18927821 GAGAG-GAGAAAGAATATTGA
1 GAGAGAGAGAAAGAA-ATTGA
*
18927841 GATAGAGAGAAAGAAATTG
1 GAGAGAGAGAAAGAAATTG
18927860 TATTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.15
Consensus pattern (20 bp):
GAGAGAGAGAAAGAAATTGA
Found at i:18941475 original size:10 final size:10
Alignment explanation
Indices: 18941453--18941485 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18941443 TTTTGCATGA
*
18941453 TAAA-TAAAA
1 TAAATTAAAT
18941462 TAAATTAAAT
1 TAAATTAAAT
18941472 TAAATTAAAT
1 TAAATTAAAT
18941482 TAAA
1 TAAA
18941486 ACTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAATTAAAT
Found at i:18944649 original size:3 final size:3
Alignment explanation
Indices: 18944630--18944665 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
18944620 TACTATCTGA
* *
18944630 GTT GTT ATT GAT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
18944666 AATTACAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:18950100 original size:35 final size:36
Alignment explanation
Indices: 18950041--18950139 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 36
18950031 CCATTACAAG
* ** *
18950041 TGAATCACTACTTCACGTAAAACAACTACAAGAA-T
1 TGAATCACTACTTCATGTGGAACAACTAAAAGAAGT
* *
18950076 TGAATTACTACTTCATGTGGAACAACTAAAATAAGT
1 TGAATCACTACTTCATGTGGAACAACTAAAAGAAGT
* *
18950112 TG-AGCACTACTCCATGTGGAACAACTAA
1 TGAATCACTACTTCATGTGGAACAACTAA
18950140 TACAAGTGGA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 51 0.94
36 3 0.06
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.25
Consensus pattern (36 bp):
TGAATCACTACTTCATGTGGAACAACTAAAAGAAGT
Found at i:18950429 original size:29 final size:29
Alignment explanation
Indices: 18950346--18950431 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 29
18950336 ATTTACCTTA
* * **
18950346 TTCTCTTGTACTTGTTCATGTATAGTTTC
1 TTCTCTTGTACCTGTTCATGTACAACTTC
* * ** *
18950375 TTCTCTTATACCTATTCACATGCAACTTC
1 TTCTCTTGTACCTGTTCATGTACAACTTC
*
18950404 TTCTCTCGTACCTGTTCATGTACAACTT
1 TTCTCTTGTACCTGTTCATGTACAACTT
18950432 TTATTTATTA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (29 bp):
TTCTCTTGTACCTGTTCATGTACAACTTC
Found at i:18959702 original size:16 final size:17
Alignment explanation
Indices: 18959681--18959714 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18959671 AAAAACAAAT
*
18959681 AAAATG-AGAAAATGAA
1 AAAATGTAGAAAAAGAA
18959697 AAAATGTAGAAAAAGAA
1 AAAATGTAGAAAAAGAA
18959714 A
1 A
18959715 CAAAAGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (17 bp):
AAAATGTAGAAAAAGAA
Found at i:18962667 original size:15 final size:15
Alignment explanation
Indices: 18962647--18962681 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18962637 ATAGTAACAT
*
18962647 GTTACTACCTAAGGC
1 GTTACTACCCAAGGC
*
18962662 GTTACTACCCAAGGT
1 GTTACTACCCAAGGC
18962677 GTTAC
1 GTTAC
18962682 AATACAACGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (15 bp):
GTTACTACCCAAGGC
Found at i:18980809 original size:26 final size:27
Alignment explanation
Indices: 18980780--18980832 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
18980770 ACATGGATGG
18980780 TGAGTTTAGTGCA-TAGCTAGATTCCA
1 TGAGTTTAGTGCATTAGCTAGATTCCA
18980806 TGAGTTTAGTGCATTAGCTAGATTCCA
1 TGAGTTTAGTGCATTAGCTAGATTCCA
18980833 ATGGGATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
TGAGTTTAGTGCATTAGCTAGATTCCA
Found at i:18984982 original size:31 final size:31
Alignment explanation
Indices: 18984947--18985008 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
18984937 AGTCTCTATA
* *
18984947 TAATTCTTAACATGCTATCATTGACCAAATT
1 TAATTCATAACATACTATCATTGACCAAATT
* *
18984978 TAATTCATAATATACTATCATTGGCCAAATT
1 TAATTCATAACATACTATCATTGACCAAATT
18985009 GATGCTTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (31 bp):
TAATTCATAACATACTATCATTGACCAAATT
Found at i:18987752 original size:56 final size:56
Alignment explanation
Indices: 18987596--18987728 Score: 266
Period size: 56 Copynumber: 2.4 Consensus size: 56
18987586 ATTATTTTTG
18987596 TTTCTTTAGTTCTTTGTTTAATTTACCATAATATAGTATCATTTTTTCTCAATTTA
1 TTTCTTTAGTTCTTTGTTTAATTTACCATAATATAGTATCATTTTTTCTCAATTTA
18987652 TTTCTTTAGTTCTTTGTTTAATTTACCATAATATAGTATCATTTTTTCTCAATTTA
1 TTTCTTTAGTTCTTTGTTTAATTTACCATAATATAGTATCATTTTTTCTCAATTTA
18987708 TTTCTTTAGTTCTTTGTTTAA
1 TTTCTTTAGTTCTTTGTTTAA
18987729 AGATTTTACC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.59
Consensus pattern (56 bp):
TTTCTTTAGTTCTTTGTTTAATTTACCATAATATAGTATCATTTTTTCTCAATTTA
Found at i:18998343 original size:22 final size:22
Alignment explanation
Indices: 18998303--18998358 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
18998293 GACATTCTGC
*
18998303 TATCATTAAG-AA-AAAGGATA
1 TATCATAAAGAAACAAAGGATA
*
18998323 TATCGTAAAGAAACAAAGGATA
1 TATCATAAAGAAACAAAGGATA
18998345 TATCATAAAGAAAC
1 TATCATAAAGAAAC
18998359 TAGATAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 8 0.26
21 2 0.06
22 21 0.68
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
TATCATAAAGAAACAAAGGATA
Found at i:19000432 original size:30 final size:30
Alignment explanation
Indices: 19000391--19000462 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
19000381 ATGTCGACAC
*
19000391 CATCTGATCCATGACCTTCAACATCAACAG
1 CATCAGATCCATGACCTTCAACATCAACAG
* * *
19000421 CATCAGATCCATTACCTTCAATATCAACTG
1 CATCAGATCCATGACCTTCAACATCAACAG
19000451 CATCAGATCCAT
1 CATCAGATCCAT
19000463 CACCATCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.26
Consensus pattern (30 bp):
CATCAGATCCATGACCTTCAACATCAACAG
Found at i:19000705 original size:30 final size:30
Alignment explanation
Indices: 19000671--19000727 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19000661 TGCTACTACC
*
19000671 GCTCCCACTTCCTGCTG-GGCTTCCACTCCT
1 GCTCCCAC-TCCTACTGCGGCTTCCACTCCT
*
19000701 GCTCCTACTCCTACTGCGGCTTCCACT
1 GCTCCCACTCCTACTGCGGCTTCCACT
19000728 GTCACTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.09, C:0.46, G:0.16, T:0.30
Consensus pattern (30 bp):
GCTCCCACTCCTACTGCGGCTTCCACTCCT
Found at i:19000735 original size:12 final size:12
Alignment explanation
Indices: 19000720--19000784 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
19000710 CCTACTGCGG
19000720 CTTCCACTGTCA
1 CTTCCACTGTCA
*
19000732 CTTCCACTATCA
1 CTTCCACTGTCA
*
19000744 CTGCTGTCACTGTCA
1 CT--T-CCACTGTCA
*
19000759 CTAT-CACTATCA
1 CT-TCCACTGTCA
19000771 CTTCCACTGTCA
1 CTTCCACTGTCA
19000783 CT
1 CT
19000785 AGCACTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 1 0.02
12 31 0.72
14 2 0.05
15 9 0.21
ACGTcount: A:0.20, C:0.38, G:0.08, T:0.34
Consensus pattern (12 bp):
CTTCCACTGTCA
Found at i:19000751 original size:21 final size:21
Alignment explanation
Indices: 19000726--19000766 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19000716 GCGGCTTCCA
19000726 CTGTCACT-TCCACTATCACTG
1 CTGTCACTGT-CACTATCACTG
19000747 CTGTCACTGTCACTATCACT
1 CTGTCACTGTCACTATCACT
19000767 ATCACTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.20, C:0.37, G:0.10, T:0.34
Consensus pattern (21 bp):
CTGTCACTGTCACTATCACTG
Found at i:19000778 original size:18 final size:18
Alignment explanation
Indices: 19000724--19000790 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
19000714 CTGCGGCTTC
*
19000724 CACTGTCACTTCCACTAT
1 CACTATCACTTCCACTAT
*
19000742 CACTGCTGTCACTGT-CACTAT
1 CA---CTATCACT-TCCACTAT
*
19000763 CACTATCACTTCCACTGT
1 CACTATCACTTCCACTAT
*
19000781 CACTAGCACT
1 CACTATCACT
19000791 ATTTGCCTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
17 1 0.02
18 23 0.56
21 16 0.39
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.09, T:0.31
Consensus pattern (18 bp):
CACTATCACTTCCACTAT
Found at i:19001000 original size:30 final size:30
Alignment explanation
Indices: 19000957--19001018 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
19000947 GCTTGCTACT
* * *
19000957 GGAGCAGGGGTCTGGTCATGGTTTTCTTCA
1 GGAGCAGGAGTCTGATCATGGTTATCTTCA
* *
19000987 GGAGCTGGAGTCTGATGATGGTTATCTTCA
1 GGAGCAGGAGTCTGATCATGGTTATCTTCA
19001017 GG
1 GG
19001019 TGAACTGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.15, G:0.37, T:0.32
Consensus pattern (30 bp):
GGAGCAGGAGTCTGATCATGGTTATCTTCA
Found at i:19004437 original size:2 final size:2
Alignment explanation
Indices: 19004430--19004465 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19004420 TTATAGTTGA
19004430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19004466 CTTGATCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19016175 original size:5 final size:5
Alignment explanation
Indices: 19016141--19016171 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
19016131 ACTGACTAGT
*
19016141 ATTGA ATTGA ATTGA ATTGA ATTGA ACTGA A
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA A
19016172 CTGAGACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (5 bp):
ATTGA
Found at i:19020991 original size:28 final size:28
Alignment explanation
Indices: 19020959--19021015 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19020949 TAGAATCCTA
19020959 AAATAAGAATTATGCTTTTACTATACAT
1 AAATAAGAATTATGCTTTTACTATACAT
19020987 AAATAAGAATTATGCTTTTACTATACAT
1 AAATAAGAATTATGCTTTTACTATACAT
19021015 A
1 A
19021016 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (28 bp):
AAATAAGAATTATGCTTTTACTATACAT
Found at i:19031079 original size:16 final size:15
Alignment explanation
Indices: 19031049--19031099 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
19031039 CGAGCAATAG
19031049 CAAAAACAAGAAAAA
1 CAAAAACAAGAAAAA
* *
19031064 TAAAAACAATGCAAAA
1 CAAAAACAA-GAAAAA
*
19031080 CAAAAACAAAAAGAAA
1 CAAAAACAAGAA-AAA
19031096 CAAA
1 CAAA
19031100 GCTGAAACCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.76, C:0.14, G:0.06, T:0.04
Consensus pattern (15 bp):
CAAAAACAAGAAAAA
Found at i:19037119 original size:6 final size:6
Alignment explanation
Indices: 19037108--19037139 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
19037098 TGAGTTAACT
19037108 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TT
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TT
19037140 CTTAATTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCC
Found at i:19038194 original size:13 final size:14
Alignment explanation
Indices: 19038176--19038204 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19038166 ATATTACATT
19038176 AATTATAAA-AAAA
1 AATTATAAACAAAA
19038189 AATTATAAACAAAA
1 AATTATAAACAAAA
19038203 AA
1 AA
19038205 ATAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AATTATAAACAAAA
Found at i:19040061 original size:21 final size:21
Alignment explanation
Indices: 19040035--19040081 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
19040025 AAGGAAAATA
19040035 TATTGTTGCGGATTACGTAAT
1 TATTGTTGCGGATTACGTAAT
19040056 TATTGTTGCGGATTACGTAAT
1 TATTGTTGCGGATTACGTAAT
19040077 TATTG
1 TATTG
19040082 AATATTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (21 bp):
TATTGTTGCGGATTACGTAAT
Found at i:19040472 original size:32 final size:31
Alignment explanation
Indices: 19040436--19040520 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 31
19040426 TTTTAATATC
*
19040436 ATATATTTTATTTTTATTTTTATTATAATCTT
1 ATATATTTTATTTTTATTTTTAATATAAT-TT
19040468 ATATATTTTATTTTTATTTTTTAATATAATTT
1 ATATATTTTATTTTTA-TTTTTAATATAATTT
* *
19040500 TTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
19040521 AATTTTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
32 31 0.65
33 17 0.35
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (31 bp):
ATATATTTTATTTTTATTTTTAATATAATTT
Found at i:19040490 original size:7 final size:6
Alignment explanation
Indices: 19040441--19040526 Score: 55
Period size: 6 Copynumber: 13.5 Consensus size: 6
19040431 ATATCATATA
* * * *
19040441 TTTTAT TTTTAT TTTTAT TATAAT CTTATAT ATTTTAT TTTTATT TTTTAA
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT -TTTTAT TTTTA-T TTTTAT
* * * *
19040492 TATAAT TTTTAT ATTATAT ATTTTAT TTTAAT TTT
1 TTTTAT TTTTAT -TTTTAT -TTTTAT TTTTAT TTT
19040527 GTTTACCTAT
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
6 36 0.59
7 25 0.41
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAT
Found at i:19040509 original size:39 final size:39
Alignment explanation
Indices: 19040466--19040617 Score: 114
Period size: 39 Copynumber: 3.6 Consensus size: 39
19040456 TATTATAATC
19040466 TTATATATTTTATTTTTATTTTTTAATATAATTTTTATA
1 TTATATATTTTATTTTTATTTTTTAATATAATTTTTATA
*
19040505 TTATATATTTTATTTTAATTTTGTTTACCTATATATATAAATTTTA-A
1 TTATATATTTTATTTTTA-TTT-TTTA---ATATA-AT---TTTTATA
* * *
19040552 TTTCTTATATTTTA-TTTTATTTTATT--TTTGATTTTTATA
1 -TT-ATATATTTTATTTTTATTTT-TTAATATAATTTTTATA
19040591 TTATATATTTTATTTTAATATTTTTTA
1 TTATATATTTTATTTT--TATTTTTTA
19040618 TTTTAATTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 33
0.70 0.05 0.26
Matches are distributed among these distances:
37 9 0.10
38 10 0.11
39 20 0.22
40 9 0.10
41 6 0.07
42 2 0.02
44 5 0.06
45 2 0.02
46 1 0.01
47 6 0.07
48 11 0.12
49 9 0.10
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (39 bp):
TTATATATTTTATTTTTATTTTTTAATATAATTTTTATA
Found at i:19040565 original size:15 final size:14
Alignment explanation
Indices: 19040545--19040625 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
19040535 ATATATATAA
19040545 ATTTTAATTTCTTAT
1 ATTTTAATTT-TTAT
* *
19040560 ATTTTATTTTATTTT
1 ATTTTAATTT-TTAT
*
19040575 ATTTTTGATTTTTAT
1 A-TTTTAATTTTTAT
* *
19040590 ATTAT-ATATTT-T
1 ATTTTAATTTTTAT
*
19040602 ATTTTAATATTTTTT
1 ATTTTAAT-TTTTAT
19040617 ATTTTAATT
1 ATTTTAATT
19040626 ATAACGTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
12 5 0.10
13 7 0.13
14 7 0.13
15 26 0.50
16 7 0.13
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (14 bp):
ATTTTAATTTTTAT
Found at i:19040569 original size:5 final size:5
Alignment explanation
Indices: 19040545--19040622 Score: 52
Period size: 5 Copynumber: 15.2 Consensus size: 5
19040535 ATATATATAA
* * * *
19040545 ATTTT AATTT CTTAT ATTTT ATTTT ATTTT ATTTTT GATTTTT ATATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT -A-TTTT ATTTT
* *
19040593 A-TAT ATTTT ATTTT AATATT -TTTT ATTTT A
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT A
19040623 ATTATAACGT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
4 5 0.09
5 36 0.64
6 9 0.16
7 6 0.11
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:19040585 original size:7 final size:6
Alignment explanation
Indices: 19040545--19040621 Score: 50
Period size: 7 Copynumber: 11.8 Consensus size: 6
19040535 ATATATATAA
* *
19040545 ATTTTA ATTTCTT ATATTTT A-TTTT A-TTTT ATTTTT GATTTTT ATATTAT
1 ATTTTT ATTT-TT AT-TTTT ATTTTT ATTTTT ATTTTT -ATTTTT AT-TTTT
19040595 ATATTTT ATTTTAAT ATTTTTT ATTTT
1 AT-TTTT ATTTT--T A-TTTTT ATTTT
19040622 AATTATAACG
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
5 10 0.17
6 17 0.28
7 25 0.42
8 4 0.07
9 4 0.07
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:19040605 original size:32 final size:32
Alignment explanation
Indices: 19040423--19040621 Score: 102
Period size: 32 Copynumber: 5.8 Consensus size: 32
19040413 CTCTTAAATA
*
19040423 TATTTTTAATATCATATATTTTATTTTTATTTT
1 TATTTTT-ATATTATATATTTTATTTTTATTTT
* * *
19040456 TATTATAATCTTATATATTTTATTTTTATTTTTTAAT
1 TATTTTTATATTATATATTTTATTTTTA---TTT--T
*
19040493 ATAATTTTTATATTATATATTTTATTTTAATTTT
1 -T-ATTTTTATATTATATATTTTATTTTTATTTT
** *
19040527 GT-TTACCTATATATATAAATTTTAATTTCTTATATTT
1 -TATT-TTTATAT-TATATATTTT-ATTT-TTAT-TTT
*
19040564 TA-TTTTAT-TT-TAT-TTTTGATTTTTATATTA
1 TATTTTTATATTATATATTTT-ATTTTTAT-TTT
* *
19040594 TATATTTTATTTTAATATTTTTTATTTT
1 TAT-TTTTATATT-ATATATTTTATTTT
19040622 AATTATAACG
Statistics
Matches: 129, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
30 9 0.07
31 8 0.06
32 29 0.22
33 13 0.10
34 12 0.09
35 18 0.14
36 12 0.09
37 4 0.03
38 1 0.01
39 23 0.18
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (32 bp):
TATTTTTATATTATATATTTTATTTTTATTTT
Found at i:19040979 original size:15 final size:15
Alignment explanation
Indices: 19040961--19040994 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19040951 ATTATATATA
*
19040961 ATTATAAATAATGTG
1 ATTATAAACAATGTG
19040976 ATTATAAACAATGTG
1 ATTATAAACAATGTG
19040991 ATTA
1 ATTA
19040995 CATTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (15 bp):
ATTATAAACAATGTG
Found at i:19041286 original size:33 final size:34
Alignment explanation
Indices: 19041206--19041302 Score: 99
Period size: 33 Copynumber: 2.8 Consensus size: 34
19041196 AATATATTTT
* * * *
19041206 TAATATTATATATACATTATTTTTATTTTTTATTA
1 TAATCTTATATAT-TATTATTTTTATTTCTTAATA
19041241 TAATCTTATATATT-TTATTTTTATTTCTTAATA
1 TAATCTTATATATTATTATTTTTATTTCTTAATA
*
19041274 TAAT-TATTTATATTATATATATTTTATTT
1 TAATCT-TATATATTAT-TAT-TTTTATTT
19041303 AAAAAAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
32 1 0.02
33 28 0.53
34 1 0.02
35 15 0.28
36 8 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (34 bp):
TAATCTTATATATTATTATTTTTATTTCTTAATA
Found at i:19046230 original size:19 final size:18
Alignment explanation
Indices: 19046209--19046249 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
19046199 ATTTTTAAAA
*
19046209 TTATTA-TTA-TATAATT
1 TTATTAGTTATTATATTT
19046225 TTATTAGTTTATTATATTT
1 TTATTAG-TTATTATATTT
19046244 TTATTA
1 TTATTA
19046250 ATTAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
18 3 0.14
19 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATTAGTTATTATATTT
Found at i:19062023 original size:30 final size:31
Alignment explanation
Indices: 19061960--19062028 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
19061950 TTTAAGTAAA
* * * *
19061960 TTTTTATTTTTCTGTTACATTTAATTAAGTT
1 TTTTTATTTTTATGTTACAATTAAATAAATT
*
19061991 TTTTTATTTTTATTTTA-AATTAAATAAATT
1 TTTTTATTTTTATGTTACAATTAAATAAATT
*
19062021 TTTATATT
1 TTTTTATT
19062029 AATAGTAGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (31 bp):
TTTTTATTTTTATGTTACAATTAAATAAATT
Found at i:19062024 original size:22 final size:23
Alignment explanation
Indices: 19061996--19062049 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
19061986 AAGTTTTTTT
*
19061996 ATTTTTATTTTAA-ATTAAATAA
1 ATTTTTATTTTAATAGTAAATAA
* * *
19062018 ATTTTTATATTAATAGTAGATTA
1 ATTTTTATTTTAATAGTAAATAA
19062041 ATTTTTATT
1 ATTTTTATT
19062050 AATTAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTTTTATTTTAATAGTAAATAA
Found at i:19080223 original size:2 final size:2
Alignment explanation
Indices: 19080216--19080274 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
19080206 NNNNNNNNNN
19080216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19080258 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
19080275 CAACAAAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19087597 original size:35 final size:35
Alignment explanation
Indices: 19087527--19087714 Score: 208
Period size: 35 Copynumber: 5.4 Consensus size: 35
19087517 CACTTGATTA
19087527 AAATTATTTAATTAAGT--TGT-G-CCTAATTAATT
1 AAATTATTTAATTAAGTCAT-TAGACCTAATTAATT
* * *
19087559 AAATTATTTAATTAAATAATTAGACCTAATTAAAT
1 AAATTATTTAATTAAGTCATTAGACCTAATTAATT
* *
19087594 AAATTATTTAATTAAGTCATTTGGCCTAATTAATT
1 AAATTATTTAATTAAGTCATTAGACCTAATTAATT
* *
19087629 AAATTATTTAATTAAGTCATTGAGTA--TTATTGATT
1 AAATTATTTAATTAAGTCATT-AG-ACCTAATTAATT
* *
19087664 AAATTTTTTAATTAAGTCATTAGACCTAATTGATT
1 AAATTATTTAATTAAGTCATTAGACCTAATTAATT
*
19087699 AAAATTGTTTAATTAA
1 -AAATTATTTAATTAA
19087715 CACTACAAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
32 16 0.12
33 2 0.02
34 4 0.03
35 96 0.72
36 15 0.11
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (35 bp):
AAATTATTTAATTAAGTCATTAGACCTAATTAATT
Found at i:19087905 original size:28 final size:29
Alignment explanation
Indices: 19087864--19087923 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
19087854 ACCCGACTGG
19087864 ATTTCCGTTGGAAA-TGAAGTTCCAACGGA
1 ATTTCCGTTGGAAATTG-AGTTCCAACGGA
*
19087893 ATTT-CGTTGGAAATTGATTTCCAACGGA
1 ATTTCCGTTGGAAATTGAGTTCCAACGGA
19087921 ATT
1 ATT
19087924 ATTTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (29 bp):
ATTTCCGTTGGAAATTGAGTTCCAACGGA
Found at i:19088848 original size:15 final size:15
Alignment explanation
Indices: 19088828--19088857 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19088818 CAATGCTTTC
19088828 TTATTTTATTTGATT
1 TTATTTTATTTGATT
19088843 TTATTTTATTTGATT
1 TTATTTTATTTGATT
19088858 AATTTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTGATT
Found at i:19089396 original size:33 final size:33
Alignment explanation
Indices: 19089354--19089419 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
19089344 AAAAATCTTT
*
19089354 CAATATTGTTGCTAAACATTAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
*
19089387 CAATCTTGTTGCTAAACATGAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
19089420 TTAACTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (33 bp):
CAATATTGTTGCTAAACATGAAGAAAATGGTAG
Found at i:19090045 original size:20 final size:22
Alignment explanation
Indices: 19090000--19090101 Score: 82
Period size: 20 Copynumber: 5.0 Consensus size: 22
19089990 ATTACACAAA
19090000 CAAATATATATAATAAAAATTAAT
1 CAAATA-ATATAAT-AAAATTAAT
19090024 CAAGA-AATA-AATAAAA-TAAT
1 CAA-ATAATATAATAAAATTAAT
19090044 CAAATAATATAAT-AAA--AAT
1 CAAATAATATAATAAAATTAAT
19090063 -AAA-AAT-TAATTAAAATTAAT
1 CAAATAATATAA-TAAAATTAAT
*
19090083 TAAA-AA-ATAATAAAATTAA
1 CAAATAATATAATAAAATTAA
19090102 ATAAAAAACC
Statistics
Matches: 69, Mismatches: 0, Indels: 22
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.04
17 4 0.06
18 6 0.09
19 4 0.06
20 26 0.38
21 15 0.22
22 3 0.04
23 3 0.04
24 4 0.06
25 1 0.01
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (22 bp):
CAAATAATATAATAAAATTAAT
Found at i:19090079 original size:10 final size:10
Alignment explanation
Indices: 19090064--19090107 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
19090054 AATAAAAATA
19090064 AAAATTAATT
1 AAAATTAATT
19090074 AAAATTAATT
1 AAAATTAATT
*
19090084 AAAAAATAA-T
1 -AAAATTAATT
*
19090094 AAAATTAAAT
1 AAAATTAATT
19090104 AAAA
1 AAAA
19090108 AACCAAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTAATT
Found at i:19090106 original size:20 final size:20
Alignment explanation
Indices: 19090045--19090109 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
19090035 TAAAATAATC
* *
19090045 AAATAATATAATAAAAATAAA
1 AAATAATAAAAT-TAAATAAA
* *
19090066 AATTAATTAAAATTAATTAAA
1 AAATAA-TAAAATTAAATAAA
19090087 AAATAATAAAATTAAATAAA
1 AAATAATAAAATTAAATAAA
19090107 AAA
1 AAA
19090110 CCAAGAGGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.43
21 16 0.43
22 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAATAAAATTAAATAAA
Found at i:19090531 original size:175 final size:175
Alignment explanation
Indices: 19090225--19090577 Score: 471
Period size: 175 Copynumber: 2.0 Consensus size: 175
19090215 TTGTCAAATC
** *
19090225 GAGGGATTACCGATGGAAGGAAGAGATATTTAAGGTTTTGGGTGACCGAGCTTCAAGCCACCGGT
1 GAGGGATTACCGACAGAAGGAAGAGATATTTAAGGTTTTGGGTGACCGAGCTTCAAGCCAACGGT
* * * * * * *
19090290 GGCGGGGAAGGTGAGAGAGAAGGAGAACGTGGCCTGTGGAGGGAAAAGGTTAGAGAGAAATGAGA
66 GGAGGGGAAGGTGAGAGAGAAAGAGAAAGCGGCCTGCGAAGGGAAAAGGTTAGAGAAAAATGAGA
19090355 GGGTGGCCACGGCTA-A-AGAGAAACGGGGAAAAAAGAAAATGAAGG
131 GGGTGGCCACGGCTAGAGAGAGAAA--GGGAAAAAAGAAAATGAAGG
* * *
19090400 GAGGGATTACCGGCAGAGGGAAGAGATATTTAGGGTTTTGGGTGACCGAGCTTCAAGCCAACGGT
1 GAGGGATTACCGACAGAAGGAAGAGATATTTAAGGTTTTGGGTGACCGAGCTTCAAGCCAACGGT
* *
19090465 GGAGGGGAAGGTGAGAGAGAAAGAGAAAGCGG-TTGACGAAGGGAAAAGTTTAGA-AAAAAGTGA
66 GGAGGGGAAGGTGAGAGAGAAAGAGAAAGCGGCCTG-CGAAGGGAAAAGGTTAGAGAAAAA-TGA
** * *
19090528 GAGGGTGGCTGCGTCTAGAGAGAGAAAGGGAAAGAAGAAAATGAAGG
129 GAGGGTGGCCACGGCTAGAGAGAGAAAGGGAAAAAAGAAAATGAAGG
19090575 GAG
1 GAG
19090578 AGGAGAAAAA
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
174 6 0.04
175 141 0.91
176 1 0.01
177 7 0.05
ACGTcount: A:0.36, C:0.10, G:0.40, T:0.14
Consensus pattern (175 bp):
GAGGGATTACCGACAGAAGGAAGAGATATTTAAGGTTTTGGGTGACCGAGCTTCAAGCCAACGGT
GGAGGGGAAGGTGAGAGAGAAAGAGAAAGCGGCCTGCGAAGGGAAAAGGTTAGAGAAAAATGAGA
GGGTGGCCACGGCTAGAGAGAGAAAGGGAAAAAAGAAAATGAAGG
Found at i:19092569 original size:72 final size:75
Alignment explanation
Indices: 19092469--19092628 Score: 227
Period size: 72 Copynumber: 2.1 Consensus size: 75
19092459 TTTTGATAGA
* *
19092469 TTTCCAACAGAAAATTTTTCGTTAGAAATTCCGTCGGACATGGTGGTCTCCTTTTTTTTTTGCT-
1 TTTCCAAC-GAAAA-TTTTCGTTAGAAATTCCGTCAGAAATGGTGGTCTCCTTTTTTTTTTGCTA
*
19092533 CCCCAAAA-ATT
64 CCCAAAAATATT
* *
19092544 TTTCCAACGAAAA-TTTCGTTGGAAATTCCGTCAGAAATGGTGGTCTCCTTTTTTTTTTGCTAGC
1 TTTCCAACGAAAATTTTCGTTAGAAATTCCGTCAGAAATGGTGGTCTCCTTTTTTTTTTGCTACC
19092608 CAAAAATATT
66 CAAAAATATT
*
19092618 TTTTCAACGAA
1 TTTCCAACGAA
19092629 TTTCCAATGA
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
72 45 0.58
73 6 0.08
74 18 0.23
75 8 0.10
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (75 bp):
TTTCCAACGAAAATTTTCGTTAGAAATTCCGTCAGAAATGGTGGTCTCCTTTTTTTTTTGCTACC
CAAAAATATT
Found at i:19096735 original size:30 final size:29
Alignment explanation
Indices: 19096696--19096781 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
19096686 TTTTAACCAG
* * *
19096696 AAATTAAAATATAAAAAATTATTTAATTT
1 AAATAAAAATATAAAAATTTATTTAATGT
**
19096725 AAAATAAAAATATAAAAATTTAATCAAATGT
1 -AAATAAAAATATAAAAATTT-ATTTAATGT
*
19096756 ATATAAAAATATAAAAATTTATTTAA
1 AAATAAAAATATAAAAATTTATTTAA
19096782 ATTTTTTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 4 0.09
30 37 0.79
31 6 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
AAATAAAAATATAAAAATTTATTTAATGT
Found at i:19097671 original size:31 final size:31
Alignment explanation
Indices: 19097633--19097691 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
19097623 GGGGCCCAAC
19097633 CAAGAACAATAGTAGCTTGATTGTTTAAAAT
1 CAAGAACAATAGTAGCTTGATTGTTTAAAAT
* *
19097664 CAAGAACAATGGTGGCTTGATTGTTTAA
1 CAAGAACAATAGTAGCTTGATTGTTTAA
19097692 TTTCTGCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (31 bp):
CAAGAACAATAGTAGCTTGATTGTTTAAAAT
Found at i:19107357 original size:2 final size:2
Alignment explanation
Indices: 19107350--19107376 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19107340 AAATCCAAAC
19107350 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
19107377 TGTCGCTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19108368 original size:18 final size:19
Alignment explanation
Indices: 19108322--19108369 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
19108312 TTTGAAAAGC
**
19108322 TTTTAAAAAAAAGTAACTT
1 TTTTAAAAAAAAGTAAAAT
**
19108341 TTTTTTAAAAAA-TAAAAT
1 TTTTAAAAAAAAGTAAAAT
19108359 TTTTAAAAAAA
1 TTTTAAAAAAA
19108370 GAGCTTCAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTTAAAAAAAAGTAAAAT
Found at i:19110467 original size:31 final size:31
Alignment explanation
Indices: 19110432--19110497 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
19110422 TATATAAGCT
*
19110432 TAATCCTAATCATAATCTAATTTTAAGTAAC
1 TAATCCTAATCATAATCTAACTTTAAGTAAC
*
19110463 TAATCCTAATTATAATCTAACTTTAAGTAAC
1 TAATCCTAATCATAATCTAACTTTAAGTAAC
19110494 TAAT
1 TAAT
19110498 ATTATTATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (31 bp):
TAATCCTAATCATAATCTAACTTTAAGTAAC
Found at i:19121849 original size:27 final size:26
Alignment explanation
Indices: 19121818--19121874 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
19121808 TATAAATATT
19121818 TAAATGATC-AATTACTAATATTTTAAA
1 TAAATGA-CAAATTACTAATA-TTTAAA
* *
19121845 TAAATTACAAATTATTAATATTTAAA
1 TAAATGACAAATTACTAATATTTAAA
19121871 -AAAT
1 TAAAT
19121875 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 7 0.26
27 16 0.59
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAATGACAAATTACTAATATTTAAA
Found at i:19121980 original size:130 final size:131
Alignment explanation
Indices: 19121833--19122105 Score: 401
Period size: 132 Copynumber: 2.1 Consensus size: 131
19121823 GATCAATTAC
* *
19121833 TAATATTTTAAATAAATTACAAATTATTAATATTTAAAAA-ATAAT-AAAATAAATATTCATAAT
1 TAATATTTTAAATAAATTACAAATTATTAATATTTAAAAATAAAATAAAAATAAATAATCATAAT
* * *
19121896 AACATTTAAATTATAAATACAATATTAATATTTTAAAATATTGAA-GATTAAACTATAAATAAAG
66 AACATTTAAACTATAAATAAAATATTAATATTTTAAAATATT-AATGATT-AACTATAAATAAAA
19121960 TAT
129 TAT
**
19121963 TAATATTTTAAATAAATTATGAATTATTAATATTTAAAAATAAAATAAAAATAAATAATCATAAT
1 TAATATTTTAAATAAATTACAAATTATTAATATTTAAAAATAAAATAAAAATAAATAATCATAAT
* * * *
19122028 AACATTTAAACTATATATAAAATATTCATATTTTAAAATATTAATTATTAAGTATAAATAAAATA
66 AACATTTAAACTATAAATAAAATATTAATATTTTAAAATATTAATGATTAACTATAAATAAAATA
19122093 T
131 T
19122094 TAATA-TTTAAAT
1 TAATATTTTAAAT
19122106 GATCAACGAT
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
130 45 0.35
131 26 0.20
132 58 0.45
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (131 bp):
TAATATTTTAAATAAATTACAAATTATTAATATTTAAAAATAAAATAAAAATAAATAATCATAAT
AACATTTAAACTATAAATAAAATATTAATATTTTAAAATATTAATGATTAACTATAAATAAAATA
T
Found at i:19122249 original size:27 final size:27
Alignment explanation
Indices: 19122218--19122275 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
19122208 TATTAATATT
* * *
19122218 TAAATTATTAATTAGTCATATTTTAAA
1 TAAATTATAAATTAGTAATATTTAAAA
*
19122245 TAAATTATAAATTATTAATATTTAAAA
1 TAAATTATAAATTAGTAATATTTAAAA
19122272 TAAA
1 TAAA
19122276 ATAAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TAAATTATAAATTAGTAATATTTAAAA
Found at i:19122292 original size:27 final size:27
Alignment explanation
Indices: 19122235--19122292 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
19122225 TTAATTAGTC
* * * *
19122235 ATATTTTAAATAAATTATAAATTATTA
1 ATATTTAAAATAAAATATAAATAATAA
19122262 ATATTTAAAATAAAATA-AAATAATAA
1 ATATTTAAAATAAAATATAAATAATAA
19122288 TATAT
1 -ATAT
19122293 AATAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATTTAAAATAAAATATAAATAATAA
Found at i:19122296 original size:13 final size:13
Alignment explanation
Indices: 19122260--19122305 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
19122250 TATAAATTAT
*
19122260 TAATATTTAA-AA
1 TAATATATAATAA
* *
19122272 TAAAATAAAATAA
1 TAATATATAATAA
19122285 TAATATATAATAA
1 TAATATATAATAA
19122298 T-ATATATA
1 TAATATATA
19122306 CCAGGAGACC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 14 0.50
13 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:19123748 original size:24 final size:24
Alignment explanation
Indices: 19123721--19123797 Score: 154
Period size: 24 Copynumber: 3.2 Consensus size: 24
19123711 CTATTGGTTG
19123721 AAACTTTAATGCCATTCATCTCCA
1 AAACTTTAATGCCATTCATCTCCA
19123745 AAACTTTAATGCCATTCATCTCCA
1 AAACTTTAATGCCATTCATCTCCA
19123769 AAACTTTAATGCCATTCATCTCCA
1 AAACTTTAATGCCATTCATCTCCA
19123793 AAACT
1 AAACT
19123798 ATCATAGGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (24 bp):
AAACTTTAATGCCATTCATCTCCA
Found at i:19135109 original size:29 final size:30
Alignment explanation
Indices: 19135074--19135173 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 30
19135064 AGGTTTGATG
*
19135074 AATATTAATATTTAACTTAAAATATTA-AA
1 AATATTAATATTTAAATTAAAATATTATAA
*
19135103 AATATTAATATTTAATTTTAAAATAATTAATTTAA
1 AATATTAATATTTAA-ATTAAAAT-ATT-A--TAA
19135138 AATATTAATATTTAAATTATACAATATTATTAA
1 AATATTAATATTTAAATTA-A-AATATTA-TAA
19135171 AAT
1 AAT
19135174 TAAAAAAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
29 15 0.25
30 7 0.11
31 3 0.05
32 1 0.02
33 7 0.11
34 4 0.07
35 21 0.34
36 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
AATATTAATATTTAAATTAAAATATTATAA
Found at i:19135127 original size:15 final size:14
Alignment explanation
Indices: 19135109--19135153 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
19135099 TAAAAATATT
19135109 AATATTTAATTTTAA
1 AATA-TTAATTTTAA
19135124 AATAATTAA-TTTAA
1 AAT-ATTAATTTTAA
19135138 AATATTAATATTTAA
1 AATATTAAT-TTTAA
19135153 A
1 A
19135154 TTATACAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
15 13 0.48
16 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATTAATTTTAA
Found at i:19135145 original size:22 final size:22
Alignment explanation
Indices: 19135080--19135145 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
19135070 GATGAATATT
* *
19135080 AATATTTAACTTAAAATATTAA
1 AATAATTAATTTAAAATATTAA
* *
19135102 AA-ATATTAATATT-TAATTTTAA
1 AATA-ATTAAT-TTAAAATATTAA
19135124 AATAATTAATTTAAAATATTAA
1 AATAATTAATTTAAAATATTAA
19135146 TATTTAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 3 0.09
22 28 0.82
23 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATAATTAATTTAAAATATTAA
Found at i:19135312 original size:74 final size:73
Alignment explanation
Indices: 19135220--19135375 Score: 206
Period size: 74 Copynumber: 2.1 Consensus size: 73
19135210 TTAAATTTTT
* * *
19135220 ATTTATAAATAGAATAAATCTTACTAATAATTATAAA-AAAAAATATTTCAATGATCATCATTTG
1 ATTTAT-AATAGAATAAATCTTACTAATAATTA-AAATAAAAAATATTACAATAATCATCATTTA
19135284 ATGAATACAC
64 ATGAATACAC
* ** *
19135294 ATTTATAATAGATTTAAATCTTACTAATAATTAAAATAAAAAATATTACAATAATTGTTATTTAA
1 ATTTATAATAGA-ATAAATCTTACTAATAATTAAAATAAAAAATATTACAATAATCATCATTTAA
*
19135359 TGAATACAT
65 TGAATACAC
19135368 ATTTATAA
1 ATTTATAA
19135376 GTATAGGTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
73 9 0.12
74 63 0.88
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.38
Consensus pattern (73 bp):
ATTTATAATAGAATAAATCTTACTAATAATTAAAATAAAAAATATTACAATAATCATCATTTAAT
GAATACAC
Found at i:19137558 original size:27 final size:28
Alignment explanation
Indices: 19137526--19137580 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
19137516 TTATTTAAAA
*
19137526 ATATTTAAATAAATTTTTAT-TTTTATT
1 ATATTTAAATAAATCTTTATATTTTATT
* *
19137553 ATATTTAATTCAATCTTTATATTTTATT
1 ATATTTAAATAAATCTTTATATTTTATT
19137581 TTGAATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTTAAATAAATCTTTATATTTTATT
Found at i:19137865 original size:19 final size:20
Alignment explanation
Indices: 19137843--19137891 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
19137833 ATTATTTACA
19137843 AAAATTATTTAAATTTTT-T
1 AAAATTATTTAAATTTTTAT
* *
19137862 AAAATGATTTTAGATTTTTAT
1 AAAATTA-TTTAAATTTTTAT
19137883 AAATATTAT
1 AAA-ATTAT
19137892 ACCATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.25
20 10 0.42
21 5 0.21
22 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
AAAATTATTTAAATTTTTAT
Found at i:19140120 original size:2 final size:2
Alignment explanation
Indices: 19140110--19140139 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19140100 CTTTACTCTC
*
19140110 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19140140 AATAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:19143525 original size:27 final size:27
Alignment explanation
Indices: 19143487--19143539 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
19143477 AATAGATAAG
* *
19143487 AATAAAGTAAAATAATTATTATGTAAA
1 AATAAAATAAAATAATTATTACGTAAA
19143514 AATAAAATAAAATAATTATTACGTAA
1 AATAAAATAAAATAATTATTACGTAA
19143540 TTTAGTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (27 bp):
AATAAAATAAAATAATTATTACGTAAA
Found at i:19143857 original size:15 final size:15
Alignment explanation
Indices: 19143829--19143905 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
19143819 TTTATTTAAA
*
19143829 ATATTTATAATTTAT
1 ATATTAATAATTTAT
*
19143844 ATATTAATATTTTAATT
1 ATATTAATAATTT-A-T
*
19143861 ATAATTAATAATTAAT
1 AT-ATTAATAATTTAT
* *
19143877 ATTTTAAAAATATTA-
1 ATATTAATAAT-TTAT
19143892 ATATT--TAATTTAT
1 ATATTAATAATTTAT
19143905 A
1 A
19143906 ATTTAAATGT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
12 3 0.06
13 4 0.08
15 22 0.46
16 6 0.12
17 4 0.08
18 9 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTAATAATTTAT
Found at i:19144035 original size:133 final size:133
Alignment explanation
Indices: 19143732--19144011 Score: 310
Period size: 133 Copynumber: 2.1 Consensus size: 133
19143722 TATTTAAAAT
* * ** *
19143732 ATTAATAATTGATAATTT--AAATATTAATATTTTATTTATAATTTAAAATGTTATTATGATTAT
1 ATTAATAATTAATATTTTAAAAATATTAATATTAAATTTATAATTTAAAATGTTATTACGATTAT
* * * **
19143795 TTATTTTTGTTTTATTTTTTATAATTTATTTAAAATATTTATAATTTATATATTAATATTTTAAT
66 TTATTTTTATTTTATTTTTTATAA-TTATTTAAAATATTTATAATTGATATATAAATATTAGAAT
19143860 TATA
130 TATA
*
19143864 ATTAATAATTAATATTTTAAAAATATTAATATTTAATTTATAATTT-AAATGTTATTACGATTAT
1 ATTAATAATTAATATTTTAAAAATATTAATATTAAATTTATAATTTAAAATGTTATTACGATTAT
* * *
19143928 TTATTTTTATTTTA-TTTTTA-AA-TA-TTAAGA-ATTTCTAATTGATTTA-AAATATTAAGAAT
66 TTATTTTTATTTTATTTTTTATAATTATTTAAAATATTTATAATTGATATATAAATATT-AGAAT
*
19143987 TGGTA
130 T-ATA
19143992 ATTTAGAT-ATTAATATTTTA
1 A-TTA-ATAATTAATATTTTA
19144012 TTTATAATTT
Statistics
Matches: 129, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
126 6 0.05
127 17 0.13
128 8 0.06
129 17 0.13
130 2 0.02
131 2 0.02
132 22 0.17
133 30 0.23
134 25 0.19
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (133 bp):
ATTAATAATTAATATTTTAAAAATATTAATATTAAATTTATAATTTAAAATGTTATTACGATTAT
TTATTTTTATTTTATTTTTTATAATTATTTAAAATATTTATAATTGATATATAAATATTAGAATT
ATA
Found at i:19144044 original size:42 final size:43
Alignment explanation
Indices: 19143998--19144097 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
19143988 GGTAATTTAG
* *
19143998 ATATTAATATTTTATTTATAA-TTTAATCATTAAAAT-TTTAAA
1 ATATTAATATTTTATTTATAAGTTAAAT-ATTAAAATGATTAAA
**
19144040 ATATTAAT-TCTTTATTTATAAGTTAAATATTATTATGATTAAA
1 ATATTAATAT-TTTATTTATAAGTTAAATATTAAAATGATTAAA
19144083 ATATTAATACTTTTA
1 ATATTAATA-TTTTA
19144098 ATTAATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 1 0.02
42 25 0.51
43 18 0.37
44 4 0.08
45 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (43 bp):
ATATTAATATTTTATTTATAAGTTAAATATTAAAATGATTAAA
Found at i:19144420 original size:21 final size:22
Alignment explanation
Indices: 19144396--19144448 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
19144386 AATAATTTTA
*
19144396 ATTAATTTTTAAAATGTA-AAT
1 ATTAATTTTTAAAATATATAAT
**
19144417 ATT-ATTTTTTTAATATATAAT
1 ATTAATTTTTAAAATATATAAT
19144438 ATGTAATTTTT
1 AT-TAATTTTT
19144449 TAAACTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.42
21 8 0.31
22 1 0.04
23 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
ATTAATTTTTAAAATATATAAT
Found at i:19144429 original size:22 final size:22
Alignment explanation
Indices: 19144401--19144452 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
19144391 TTTTAATTAA
* *
19144401 TTTTTAAAATGTAAATAT-TATT
1 TTTTTAAAATAT-AATATGTAAT
*
19144423 TTTTTAATATATAATATGTAAT
1 TTTTTAAAATATAATATGTAAT
19144445 TTTTTAAA
1 TTTTTAAA
19144453 CTTATAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTTAAAATATAATATGTAAT
Found at i:19147678 original size:24 final size:23
Alignment explanation
Indices: 19147644--19147689 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
19147634 CTAAATAGGT
*
19147644 TAATTGATTGATATTTGCATGGCC
1 TAATTGATTGATATGTG-ATGGCC
*
19147668 TAATTGTTTGATATGTGATGGC
1 TAATTGATTGATATGTGATGGC
19147690 TTGATTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (23 bp):
TAATTGATTGATATGTGATGGCC
Found at i:19148262 original size:31 final size:30
Alignment explanation
Indices: 19148189--19148272 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
19148179 TGCCACATCA
* *
19148189 AAGGGACTAAATTGAATAAAAATATATAAT
1 AAGGGACTAAATTGAATAAAATTAGATAAT
* * **
19148219 ATAGAGATTAAATTGAATAAAATTGAGATGTT
1 A-AGGGACTAAATTGAATAAAATT-AGATAAT
*
19148251 AAGGGACTAAATTGAAAAAAAT
1 AAGGGACTAAATTGAATAAAAT
19148273 ATTTAAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
30 1 0.02
31 37 0.86
32 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (30 bp):
AAGGGACTAAATTGAATAAAATTAGATAAT
Found at i:19149690 original size:32 final size:33
Alignment explanation
Indices: 19149620--19149691 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
19149610 TTAACGTGTC
*
19149620 AGTGCCACGTCAGCATTACCACACAATCATATT
1 AGTGCCACGTCAGCATTACCACACAATCATATG
* *
19149653 AGTGCCACGT-GGCATTACCACATC-ATCATGTG
1 AGTGCCACGTCAGCATTACCACA-CAATCATATG
*
19149685 GGTGCCA
1 AGTGCCA
19149692 TATCATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.68
33 11 0.32
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (33 bp):
AGTGCCACGTCAGCATTACCACACAATCATATG
Found at i:19150009 original size:19 final size:19
Alignment explanation
Indices: 19149987--19150026 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19149977 ATATCTATTA
19149987 TATTTCATAATATCCAATG
1 TATTTCATAATATCCAATG
* **
19150006 TATTTCCTCTTATCCAATG
1 TATTTCATAATATCCAATG
19150025 TA
1 TA
19150027 CATATTTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTTCATAATATCCAATG
Found at i:19150107 original size:22 final size:23
Alignment explanation
Indices: 19150081--19150123 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19150071 TATGTATATT
*
19150081 TCTATCTAT-TAAGTTCATTTTC
1 TCTATCTATATAAATTCATTTTC
*
19150103 TCTATTTATATAAATTCATTT
1 TCTATCTATATAAATTCATTT
19150124 CGCCTTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.56
Consensus pattern (23 bp):
TCTATCTATATAAATTCATTTTC
Found at i:19154159 original size:149 final size:148
Alignment explanation
Indices: 19153879--19154167 Score: 411
Period size: 149 Copynumber: 1.9 Consensus size: 148
19153869 ATTAATTTGC
* *
19153879 CCCTAGAGTGGCAATATAGCTCAATTGAGGGGGAGCATATATGGACCATGCATTGTACTCTTTTT
1 CCCTAGAGTGGCAACATAGCTCAATTGAGGGGGAGCATATATGGACCATGCACTGTACTCTTTTT
* * * * * *
19153944 TCCTTCTAATCGATTTTTTCCCATTAGGTTTTTTTGATTTAAGGTTTTTAATGAGGTAGTATAAT
66 TCCTTCTAATCGATTTTTTCCCACTAGGTTTTTCTGACTTAAAGTTTTTAATGAGGCAGTAAAAT
19154009 GGACATTCAAAGGATAGA
131 GGACATTCAAAGGATAGA
* *
19154027 CCCTAGAAGTGGCAACATGGCTTAATTGAGGGGGAGCA-ATTATGGACCATGCACTGTACTCTTT
1 CCCTAG-AGTGGCAACATAGCTCAATTGAGGGGGAGCATA-TATGGACCATGCACTGTACTCTTT
* * * *
19154091 TTTCCTTCTAATTGGTTTTTGTCCTACTAGG-TTTTCTGGCTTAAAGTTTTTAATGAGGCAGTAA
64 TTTCCTTCTAATCGATTTTT-TCCCACTAGGTTTTTCTGACTTAAAGTTTTTAATGAGGCAGTAA
19154155 AATGGACATTCAA
128 AATGGACATTCAA
19154168 GGAAGAATGT
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
148 7 0.06
149 109 0.88
150 8 0.06
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (148 bp):
CCCTAGAGTGGCAACATAGCTCAATTGAGGGGGAGCATATATGGACCATGCACTGTACTCTTTTT
TCCTTCTAATCGATTTTTTCCCACTAGGTTTTTCTGACTTAAAGTTTTTAATGAGGCAGTAAAAT
GGACATTCAAAGGATAGA
Found at i:19154223 original size:19 final size:19
Alignment explanation
Indices: 19154201--19154242 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19154191 GAATATCCTT
19154201 TGTAT-TTCATAATATCCAA
1 TGTATATTC-TAATATCCAA
* *
19154220 TGTATATTCTTATATCGAA
1 TGTATATTCTAATATCCAA
19154239 TGTA
1 TGTA
19154243 CATATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (19 bp):
TGTATATTCTAATATCCAA
Found at i:19154488 original size:24 final size:24
Alignment explanation
Indices: 19154456--19154503 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
19154446 CTAATATTCT
*
19154456 CTTTTAAAGTTATATTTCACAACA
1 CTTTCAAAGTTATATTTCACAACA
*
19154480 CTTTCAAAGTTATATTTTACAACA
1 CTTTCAAAGTTATATTTCACAACA
19154504 AATTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (24 bp):
CTTTCAAAGTTATATTTCACAACA
Found at i:19154700 original size:24 final size:28
Alignment explanation
Indices: 19154673--19154724 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
19154663 GCTTTTATTC
19154673 CTCATTG-TGATT-T-T-TTATTTGTTT
1 CTCATTGATGATTGTATGTTATTTGTTT
19154697 CTCATTGATGATTGTATGTTATTTGTTT
1 CTCATTGATGATTGTATGTTATTTGTTT
19154725 TATTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
26 1 0.04
27 1 0.04
28 10 0.42
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (28 bp):
CTCATTGATGATTGTATGTTATTTGTTT
Found at i:19174905 original size:23 final size:23
Alignment explanation
Indices: 19174874--19174920 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
19174864 ATATATATAT
*
19174874 ATATGTATATTTATATGATCAAA
1 ATATATATATTTATATGATCAAA
19174897 ATATATATATTTATATGATCAAA
1 ATATATATATTTATATGATCAAA
19174920 A
1 A
19174921 GAGAGATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (23 bp):
ATATATATATTTATATGATCAAA
Found at i:19178734 original size:16 final size:17
Alignment explanation
Indices: 19178704--19178736 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
19178694 TTCTTCTTTT
19178704 TATTTATATTATTTAAC
1 TATTTATATTATTTAAC
19178721 TATTTATA-TATTTAAC
1 TATTTATATTATTTAAC
19178737 CATTATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTTAAC
Found at i:19184846 original size:35 final size:35
Alignment explanation
Indices: 19184807--19184940 Score: 117
Period size: 35 Copynumber: 3.8 Consensus size: 35
19184797 TTCCATATGG
* * *
19184807 AGTAGTGC-TCTACTTATTCTAGTTGTTCTATGTTA
1 AGTAGTGCTTC-ACTTGTTCTAGTTGTTCTACGTGA
* * *
19184842 AGTAGTGTTTCACTTGTTCTAATTGTTTTACGTGA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCTACGTGA
* * * *
19184877 AGTAGCGCTTCACTTGTTCTAGTTATTCTGCATGA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCTACGTGA
** * * *
19184912 AGTAGCACTTTATTTGTTCTAATTGTTCT
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCT
19184941 CTGTACAATA
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
35 78 0.98
36 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (35 bp):
AGTAGTGCTTCACTTGTTCTAGTTGTTCTACGTGA
Found at i:19192442 original size:30 final size:32
Alignment explanation
Indices: 19192384--19192466 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 32
19192374 GAAAAAAATT
*
19192384 AAAATAAAATATATAATATAAAAAATTATATTAA
1 AAAATAAAA-ATATAATAT-AAAAATTATAATAA
*
19192418 AAAATAAAAATAT-ATAT-AAGATTATAATAA
1 AAAATAAAAATATAATATAAAAATTATAATAA
*
19192448 AAAATAAAAATAAAATATA
1 AAAATAAAAATATAATATA
19192467 TGACATTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 23 0.52
31 4 0.09
32 4 0.09
33 4 0.09
34 9 0.20
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (32 bp):
AAAATAAAAATATAATATAAAAATTATAATAA
Found at i:19192502 original size:70 final size:70
Alignment explanation
Indices: 19192376--19192523 Score: 165
Period size: 70 Copynumber: 2.1 Consensus size: 70
19192366 CTTTTAAAGA
* * *
19192376 AAAAAATTAAAATAAAATATATAATATAAAAAATTATATTAAAAAATAAAAATATATATAAGAT-
1 AAAAAATAAAAATAAAATATATAACATAAAAAATTATATTAAAAAATAAAAATATATA-AAAATG
*
19192440 TATAAT
65 AATAAT
* * * * * * *
19192446 AAAAAATAAAAATAAAATATATGACATTAAAAA-TATATTTAAGAGATGATATTATATAAAAATG
1 AAAAAATAAAAATAAAATATATAACATAAAAAATTATA-TTAAAAAATAAAAATATATAAAAATG
19192510 AATAAT
65 AATAAT
19192516 AAAAAATA
1 AAAAAATA
19192524 CAAGTAATAG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 8 0.12
70 57 0.88
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (70 bp):
AAAAAATAAAAATAAAATATATAACATAAAAAATTATATTAAAAAATAAAAATATATAAAAATGA
ATAAT
Found at i:19197127 original size:17 final size:17
Alignment explanation
Indices: 19197101--19197135 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19197091 TTGCACTCCT
19197101 TAATTATTTTATTAATA
1 TAATTATTTTATTAATA
* *
19197118 TAATTTTTTTCTTAATA
1 TAATTATTTTATTAATA
19197135 T
1 T
19197136 CTTTAAGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TAATTATTTTATTAATA
Found at i:19202820 original size:2 final size:2
Alignment explanation
Indices: 19202813--19202850 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
19202803 TTATCATTAA
19202813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19202851 TAATNGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19202964 original size:2 final size:2
Alignment explanation
Indices: 19202906--19202952 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
19202896 TATCATTAAA
* *
19202906 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AC CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19202947 AT AT AT
1 AT AT AT
19202953 TTATGCATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19206157 original size:67 final size:67
Alignment explanation
Indices: 19206049--19206185 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
19206039 TGTACAACTT
*
19206049 CGAACCTACTACACATAGAGTTAAAAAGGAAATATTTCTTGTGGGGTTTTTGGGTGGTACAGTCC
1 CGAACCTACCACACATAGAGTTAAAAAGGAAATATTTCTTGTGGGGTTTTTGGGTGGTACAGTCC
19206114 AA
66 AA
**
19206116 CGAACCTACCACACATAGAGTTAAAAAGGAAATATTTCTTGTGGGGTTTTTGGGTGGTATTGTCC
1 CGAACCTACCACACATAGAGTTAAAAAGGAAATATTTCTTGTGGGGTTTTTGGGTGGTACAGTCC
19206181 AA
66 AA
19206183 CGA
1 CGA
19206186 CTATGACATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (67 bp):
CGAACCTACCACACATAGAGTTAAAAAGGAAATATTTCTTGTGGGGTTTTTGGGTGGTACAGTCC
AA
Found at i:19215472 original size:20 final size:20
Alignment explanation
Indices: 19215423--19215468 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
19215413 AAAAAAATCT
19215423 AATTTTTTAAAAAGTTTTTG
1 AATTTTTTAAAAAGTTTTTG
*
19215443 AATTATTTAAAAA-TTTTT-
1 AATTTTTTAAAAAGTTTTTG
19215461 AATTTTTT
1 AATTTTTT
19215469 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
AATTTTTTAAAAAGTTTTTG
Found at i:19225137 original size:2 final size:2
Alignment explanation
Indices: 19225130--19225160 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19225120 TGACCTCTTC
19225130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19225161 TTTGGAGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19227368 original size:214 final size:213
Alignment explanation
Indices: 19226811--19227431 Score: 819
Period size: 208 Copynumber: 2.9 Consensus size: 213
19226801 TCTGTAATTA
* *
19226811 TATATATATATATATGAAATTAATAATATAACTTATATGTTATAATGA-TTTATATTAAAGTTTG
1 TATATATATATATAT--AATTAAT-ACATAACTTATATGTTATAAT-ATTTTATATAAAAGTTTG
* * * * **
19226875 TATAAATAACAACTAGTTATAAACAAGATGTTACAAAATCTAAGATAATACCTAATAAACTTATT
62 TATAAATAACAACTAATTATAAAAAATATGTTATAAAATCTAAGATAATAATTAATAAACTTATT
* * *
19226940 AAGTGTAATCATATAAATAAAGTTTATTATAAGTTATAGTAATACTTATGTATAAATTAAATATA
127 AAGTGTAATTATATAAATAAAATTTATTATAAGTTATAGTAATATTTATGTATAAATT-AA-ATA
* *
19227005 TGTATGTATAATATATTACTTTAT
190 TGTATATATAACATATTACTTTAT
** * * *
19227029 TATATATATA-AT-TAA-GGATAC--AAGTTACATGTTAT-A-ATGTTATATAAAAGTTTGTATA
1 TATATATATATATATAATTAATACATAACTTATATGTTATAATATTTTATATAAAAGTTTGTATA
* * * * *
19227087 AATAATAACTAATTATAAATAATATGTTATAAAATCTAAGGTGATAATTAATAAAGTTATTAAGT
66 AATAACAACTAATTATAAAAAATATGTTATAAAATCTAAGATAATAATTAATAAACTTATTAAGT
*
19227152 GTAATTATATAAATAAAATATATTATAAGTTATAGTAATATTTATGTATAAATTAAATATGTATA
131 GTAATTATATAAATAAAATTTATTATAAGTTATAGTAATATTTATGTATAAATTAAATATGTATA
19227217 TATAACATATTACTTTAT
196 TATAACATATTACTTTAT
*
19227235 TATATATATATATATAATTAATGACATAACTTATATGTTATAATATTTTATATCAAAGTTTGTAT
1 TATATATATATATATAATTAAT-ACATAACTTATATGTTATAATATTTTATATAAAAGTTTGTAT
* * * * *
19227300 AAAAAACAACAAATTCTAAAAAATATATTATAAAATCTAAGATAATAATTAATAAATTTATTAAG
65 AAATAACAACTAATTATAAAAAATATGTTATAAAATCTAAGATAATAATTAATAAACTTATTAAG
* * *
19227365 TGTAATTATATAAAT-AAATTTATGATAAATTATAGTAATATTTATGTATAAATTAAATATATAT
130 TGTAATTATATAAATAAAATTTATTATAAGTTATAGTAATATTTATGTATAAATTAAATATGTAT
19227429 ATA
195 ATA
19227432 ATATTTATAC
Statistics
Matches: 352, Mismatches: 42, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
206 35 0.10
207 5 0.01
208 126 0.36
209 3 0.01
210 14 0.04
212 13 0.04
213 51 0.14
214 92 0.26
216 1 0.00
217 2 0.01
218 10 0.03
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (213 bp):
TATATATATATATATAATTAATACATAACTTATATGTTATAATATTTTATATAAAAGTTTGTATA
AATAACAACTAATTATAAAAAATATGTTATAAAATCTAAGATAATAATTAATAAACTTATTAAGT
GTAATTATATAAATAAAATTTATTATAAGTTATAGTAATATTTATGTATAAATTAAATATGTATA
TATAACATATTACTTTAT
Found at i:19227404 original size:24 final size:23
Alignment explanation
Indices: 19227368--19227428 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
19227358 TATTAAGTGT
19227368 AATTATATAAATAAATTTATG-ATA
1 AATTATATAAAT--ATTTATGTATA
19227392 AATTATAGT-AATATTTATGTATA
1 AATTATA-TAAATATTTATGTATA
* *
19227415 AATTAAATATATAT
1 AATTATATAAATAT
19227429 ATAATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 8 0.25
23 13 0.41
24 10 0.31
25 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (23 bp):
AATTATATAAATATTTATGTATA
Found at i:19227428 original size:23 final size:21
Alignment explanation
Indices: 19227375--19227428 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
19227365 TGTAATTATA
19227375 TAAATAA-ATTTATGATAAAT
1 TAAATAATATTTATGATAAAT
*
19227395 TATAGTAATATTTATGTATAAAT
1 TA-AATAATATTTATG-ATAAAT
19227418 TAAATATATAT
1 TAAATA-ATAT
19227429 ATAATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 4 0.14
22 10 0.36
23 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (21 bp):
TAAATAATATTTATGATAAAT
Found at i:19227445 original size:27 final size:26
Alignment explanation
Indices: 19227411--19227464 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
19227401 AATATTTATG
19227411 TATAAATTAAATATATAT-ATAATATT
1 TATAAATTAAATATAT-TCATAATATT
*
19227437 TATACAATTATATATATTCATAATATT
1 TATA-AATTAAATATATTCATAATATT
19227464 T
1 T
19227465 TTATATTACG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TATAAATTAAATATATTCATAATATT
Found at i:19243271 original size:2 final size:2
Alignment explanation
Indices: 19243264--19243294 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19243254 GATAAACCCC
*
19243264 GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
19243295 GGTACCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19243486 original size:26 final size:25
Alignment explanation
Indices: 19243457--19243508 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
19243447 GAGAGATTGG
* *
19243457 GAAAAAGAAAGAGAGGGAGAGACAGA
1 GAAAAAGAAAGACAGAGAGAGA-AGA
*
19243483 GAAAGAGAAAGACAGAGAGAGAAGA
1 GAAAAAGAAAGACAGAGAGAGAAGA
19243508 G
1 G
19243509 TTGAAAGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.58, C:0.04, G:0.38, T:0.00
Consensus pattern (25 bp):
GAAAAAGAAAGACAGAGAGAGAAGA
Found at i:19246817 original size:6 final size:6
Alignment explanation
Indices: 19246806--19246956 Score: 157
Period size: 6 Copynumber: 25.8 Consensus size: 6
19246796 AGCCAATGAT
* * * * *
19246806 ATATAC ATATAC ATATAT ACATAC ATATAC ATATAT ACATAT ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* * *
19246854 ATATAC ATATAC ATATAC ATACAT ATATAT ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* * * *
19246902 ATAT-- ATATAC ATATAC --ATAC ATATAT ATATAT ATATAT ATATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
19246946 ATATAT ATATA
1 ATATAC ATATA
19246957 GTGGTTCATA
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
4 8 0.06
6 120 0.94
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.38
Consensus pattern (6 bp):
ATATAC
Found at i:19246831 original size:18 final size:18
Alignment explanation
Indices: 19246804--19247126 Score: 208
Period size: 18 Copynumber: 17.7 Consensus size: 18
19246794 AAAGCCAATG
19246804 ATATATACATATACATAT
1 ATATATACATATACATAT
*
19246822 ATACATACATATACATAT
1 ATATATACATATACATAT
* *
19246840 ATACATATATATACATAT
1 ATATATACATATACATAT
* *
19246858 ACATATACATATACATAC
1 ATATATACATATACATAT
*
19246876 ATATATATATATACATAT
1 ATATATACATATACATAT
* *
19246894 ACATATACATATATATACAT
1 ATATATACATATACAT--AT
* *
19246914 ATACATACATATATATAT
1 ATATATACATATACATAT
* *
19246932 ATATATATATATATATAT
1 ATATATACATATACATAT
* * *
19246950 ATATATA-GTGGTTCATA-
1 ATATATACAT-ATACATAT
* * *
19246967 A-AGATACGGGATGTA-AAAT
1 ATATATAC---ATATACATAT
* * *
19246986 GTNAGATACATATATACATAC
1 AT-ATATAC--ATATACATAT
*
19247007 ATATA-ATATATACATAT
1 ATATATACATATACATAT
19247024 ATATA-ACATATACATAT
1 ATATATACATATACATAT
* * *
19247041 ACATATACATACATATATT
1 ATATATACATATACATA-T
* ** **
19247060 ATGTATATGTATATGTAT
1 ATATATACATATACATAT
*
19247078 ATATATACATATACATAC
1 ATATATACATATACATAT
* *
19247096 ATATATATATATATATAT
1 ATATATACATATACATAT
*
19247114 ATATATATATATA
1 ATATATACATATA
19247127 TATAGTGGTT
Statistics
Matches: 239, Mismatches: 53, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
16 4 0.02
17 31 0.13
18 157 0.66
19 15 0.06
20 23 0.10
21 9 0.04
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (18 bp):
ATATATACATATACATAT
Found at i:19246835 original size:10 final size:10
Alignment explanation
Indices: 19246808--19246956 Score: 126
Period size: 10 Copynumber: 14.9 Consensus size: 10
19246798 CCAATGATAT
19246808 ATACATATAC
1 ATACATATAC
19246818 AT--ATATAC
1 ATACATATAC
19246826 ATACATATAC
1 ATACATATAC
19246836 AT--ATATAC
1 ATACATATAC
*
19246844 ATATATATAC
1 ATACATATAC
19246854 ATATACATATAC
1 --ATACATATAC
* *
19246866 ATATACATAC
1 ATACATATAC
* *
19246876 ATATATATAT
1 ATACATATAC
19246886 ATACATATAC
1 ATACATATAC
*
19246896 ATATACATATAT
1 --ATACATATAC
19246908 ATACATATAC
1 ATACATATAC
*
19246918 ATACATATAT
1 ATACATATAC
* *
19246928 ATATATATAT
1 ATACATATAC
* *
19246938 ATATATATAT
1 ATACATATAC
*
19246948 ATATATATA
1 ATACATATA
19246957 GTGGTTCATA
Statistics
Matches: 120, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
8 16 0.13
10 86 0.72
12 18 0.15
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.38
Consensus pattern (10 bp):
ATACATATAC
Done.