Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 44 of 276
Found at i:13750437 original size:26 final size:26
Alignment explanation
Indices: 13750396--13750467 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
13750386 TCTCATCCCT
* *
13750396 ATTTTA-CCCTTATAAAATTTTGACG
1 ATTTTACCCCTGATAAAATTTTAACG
*
13750421 ATTTTACCCCTGATAAAATTTTAATG
1 ATTTTACCCCTGATAAAATTTTAACG
* * *
13750447 ATTTTGCCCTTGGTAAAATTT
1 ATTTTACCCCTGATAAAATTT
13750468 CAAAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 6 0.15
26 34 0.85
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (26 bp):
ATTTTACCCCTGATAAAATTTTAACG
Found at i:13754858 original size:20 final size:19
Alignment explanation
Indices: 13754833--13754884 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
13754823 AGAAAACATA
*
13754833 AAAAATTATTAAGAATTATC
1 AAAAATTATTAA-AAGTATC
*
13754853 AAAAA-T-TTAAAAGTATT
1 AAAAATTATTAAAAGTATC
13754870 AAAAATTATTTAAAA
1 AAAAATTA-TTAAAA
13754885 CAACAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 1 0.04
20 11 0.41
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATTATTAAAAGTATC
Found at i:13754966 original size:20 final size:20
Alignment explanation
Indices: 13754941--13754997 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
13754931 TTTCTAAATT
*
13754941 AATTATAAAAAATGATAGAA
1 AATTATAAAAAATGATAAAA
*
13754961 AATTATTAAGAAAT-ATAAAA
1 AATTA-TAAAAAATGATAAAA
*
13754981 AATATATAAATAATGAT
1 AAT-TATAAAAAATGAT
13754998 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAATGATAAAA
Found at i:13755010 original size:30 final size:29
Alignment explanation
Indices: 13754976--13755049 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
13754966 TTAAGAAATA
13754976 TAAAAAATATATAAATAATGATTAATTTTTT
1 TAAAAAATATATAAA-AATGA-TAATTTTTT
* * *
13755007 AAAAAAAT-TATAAAATTTATAATTTTTT
1 TAAAAAATATATAAAAATGATAATTTTTT
13755035 TAAAAAAT-TATAAAA
1 TAAAAAATATATAAAA
13755050 TTTATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 23 0.59
29 3 0.08
30 6 0.15
31 7 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (29 bp):
TAAAAAATATATAAAAATGATAATTTTTT
Found at i:13755030 original size:28 final size:28
Alignment explanation
Indices: 13754998--13755055 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
13754988 AAATAATGAT
13754998 TAATTTTTTAAAAAAATTATAAAATTTA
1 TAATTTTTTAAAAAAATTATAAAATTTA
*
13755026 TAATTTTTTTAAAAAATTATAAAATTTA
1 TAATTTTTTAAAAAAATTATAAAATTTA
13755054 TA
1 TA
13755056 TATATGCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATTTTTTAAAAAAATTATAAAATTTA
Found at i:13755222 original size:11 final size:11
Alignment explanation
Indices: 13755163--13755229 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
13755153 CCTACTTTGT
*
13755163 TAATTTTTTAA
1 TAATTATTTAA
*
13755174 TAACTT-TTAAA
1 TAA-TTATTTAA
*
13755185 TAATT-TTCAA
1 TAATTATTTAA
*
13755195 TAATTATAT-A
1 TAATTATTTAA
*
13755205 CAATTATTTAA
1 TAATTATTTAA
13755216 TAATTATTTAA
1 TAATTATTTAA
13755227 TAA
1 TAA
13755230 ACAAACTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
10 19 0.41
11 25 0.54
12 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATTATTTAA
Found at i:13755258 original size:10 final size:10
Alignment explanation
Indices: 13755243--13755322 Score: 66
Period size: 10 Copynumber: 8.5 Consensus size: 10
13755233 AACTGAAATT
13755243 TTTTTAATAA
1 TTTTTAATAA
13755253 TTTTTAATAA
1 TTTTTAATAA
13755263 -TTTTAA-AA
1 TTTTTAATAA
13755271 -TTTT-AT-A
1 TTTTTAATAA
*
13755278 TTTTTTATAA
1 TTTTTAATAA
*
13755288 ATTTTAAT-A
1 TTTTTAATAA
*
13755297 TTTTAAAATAA
1 TTTT-TAATAA
13755308 -TTTTATATAA
1 TTTTTA-ATAA
13755318 TTTTT
1 TTTTT
13755323 TTCATAATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
7 2 0.04
8 10 0.18
9 13 0.23
10 27 0.47
11 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:13755268 original size:19 final size:18
Alignment explanation
Indices: 13755243--13755322 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
13755233 AACTGAAATT
13755243 TTTTTAATAATTTTTAATA
1 TTTTTAATAA-TTTTAATA
*
13755262 ATTTTAA-AATTTT-ATA
1 TTTTTAATAATTTTAATA
*
13755278 TTTTTTATAAATTTTAATA
1 TTTTTAAT-AATTTTAATA
*
13755297 TTTTAAAATAATTTTATATAA
1 TTTT-TAATAATTTTA-AT-A
13755318 TTTTT
1 TTTTT
13755323 TTCATAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.16
17 4 0.08
18 8 0.16
19 20 0.41
20 4 0.08
21 5 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAATAATTTTAATA
Found at i:13755283 original size:17 final size:16
Alignment explanation
Indices: 13755244--13755305 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 16
13755234 ACTGAAATTT
13755244 TTTTAATAATTTTTAATAA
1 TTTTAA-AA-TTTTAAT-A
*
13755263 TTTTAAAATTTTATATT
1 TTTTAAAATTTTA-ATA
13755280 TTTTATAAATTTTAATA
1 TTTTA-AAATTTTAATA
13755297 TTTTAAAAT
1 TTTTAAAAT
13755306 AATTTTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.10
17 17 0.44
18 12 0.31
19 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTAAAATTTTAATA
Found at i:13755290 original size:26 final size:25
Alignment explanation
Indices: 13755252--13755301 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
13755242 TTTTTTAATA
13755252 ATTTTTAATAATTTTAAAATTTTAT
1 ATTTTTAATAATTTTAAAATTTTAT
* *
13755277 ATTTTTTATAAATTTTAATATTTTA
1 ATTTTTAAT-AATTTTAAAATTTTA
13755302 AAATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTTTAATAATTTTAAAATTTTAT
Found at i:13755438 original size:32 final size:32
Alignment explanation
Indices: 13755402--13755568 Score: 280
Period size: 32 Copynumber: 5.2 Consensus size: 32
13755392 ATTGGACAAC
*
13755402 TGTCTAGGTTCATTTGAATATAGACAATTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
* *
13755434 TGTCTAGGTTCATTTGAATATAAACAACCATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
*
13755466 TGTCTAGGTTCATTTGAATATAGACAATTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
* *
13755498 TGTCTAGGTTCATTTGAATATAAACAACCATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
13755530 TGTCTAGGTTCATTTGAATATAGACAACTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
13755562 TGTCTAG
1 TGTCTAG
13755569 ATTCGTCTTC
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 124 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (32 bp):
TGTCTAGGTTCATTTGAATATAGACAACTATT
Found at i:13755474 original size:64 final size:64
Alignment explanation
Indices: 13755402--13755568 Score: 325
Period size: 64 Copynumber: 2.6 Consensus size: 64
13755392 ATTGGACAAC
13755402 TGTCTAGGTTCATTTGAATATAGACAATTATTTGTCTAGGTTCATTTGAATATAAACAACCATT
1 TGTCTAGGTTCATTTGAATATAGACAATTATTTGTCTAGGTTCATTTGAATATAAACAACCATT
13755466 TGTCTAGGTTCATTTGAATATAGACAATTATTTGTCTAGGTTCATTTGAATATAAACAACCATT
1 TGTCTAGGTTCATTTGAATATAGACAATTATTTGTCTAGGTTCATTTGAATATAAACAACCATT
*
13755530 TGTCTAGGTTCATTTGAATATAGACAACTATTTGTCTAG
1 TGTCTAGGTTCATTTGAATATAGACAATTATTTGTCTAG
13755569 ATTCGTCTTC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 102 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (64 bp):
TGTCTAGGTTCATTTGAATATAGACAATTATTTGTCTAGGTTCATTTGAATATAAACAACCATT
Found at i:13756669 original size:16 final size:17
Alignment explanation
Indices: 13756637--13756669 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13756627 TTTATAAGTA
*
13756637 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
13756654 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
13756670 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:13757172 original size:46 final size:46
Alignment explanation
Indices: 13757005--13757172 Score: 246
Period size: 46 Copynumber: 3.7 Consensus size: 46
13756995 TGATGTCATA
* * * *
13757005 GTATCTTTCAACTATGGTTTTACTCGTTTTCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATG
* *
13757051 GTATCTTTCAAACATGGTCTTACTCATTTTCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATG
* **
13757097 GTATCTTTCAACCATGGTCTTATTCATTTCCCATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATG
*
13757143 GTATCTTTCAACCATGGTCTTACACATTTC
1 GTATCTTTCAACCATGGTCTTACTCATTTC
13757173 ATATCAGAGA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATG
Found at i:13757279 original size:54 final size:54
Alignment explanation
Indices: 13757213--13758051 Score: 1678
Period size: 54 Copynumber: 15.5 Consensus size: 54
13757203 TCCTTACAGT
13757213 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757267 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757321 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757375 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757429 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757483 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757537 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757591 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757645 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757699 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757753 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757807 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757861 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757915 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13757969 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
13758023 GGGATTACCAGTCCAGGCTAAATCCCCTG
1 GGGATTACCAGTCCAGGCTAAATCCCCTG
13758052 CAACGACAAT
Statistics
Matches: 785, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 785 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:13759660 original size:10 final size:11
Alignment explanation
Indices: 13759638--13759670 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
13759628 CTCTACACTA
13759638 TTTCTCTTCAT
1 TTTCTCTTCAT
13759649 TTTCTCTT-AT
1 TTTCTCTTCAT
13759659 TTTCTCTTCAT
1 TTTCTCTTCAT
13759670 T
1 T
13759671 AACATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTCTCTTCAT
Found at i:13761604 original size:26 final size:27
Alignment explanation
Indices: 13761540--13761605 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
13761530 CAATGATAAG
* *
13761540 GAAAGAAATAAAGAAAGAAAAGAAGGA
1 GAAAGAAACAAAGAAAGAAAAGAAGAA
*
13761567 GAAA-AAACAAAGAAAGTAAAGAA-AA
1 GAAAGAAACAAAGAAAGAAAAGAAGAA
13761592 GAAAGATAA-AAAGA
1 GAAAGA-AACAAAGA
13761606 GAAAAGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.15
26 23 0.68
27 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.05
Consensus pattern (27 bp):
GAAAGAAACAAAGAAAGAAAAGAAGAA
Found at i:13763306 original size:90 final size:90
Alignment explanation
Indices: 13763140--13763319 Score: 281
Period size: 90 Copynumber: 2.0 Consensus size: 90
13763130 ATTTGATAAG
* *
13763140 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGTAACACCGTTTACCCAGTTCAGTTGCTG
1 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCGTTTACCCAGTTCAGTTACTG
*
13763205 GGCTCAGGCTACAAGATGCTACAGT
66 GACTCAGGCTACAAGATGCTACAGT
* * *
13763230 TCAAATTAGGCTTCCCCGTTATACTTAGGGAGCTTTGCAACACCTTTTACCCGGTTCAGTTACTG
1 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCGTTTACCCAGTTCAGTTACTG
*
13763295 GACTC-GAGCTACAGGATGCTACAGT
66 GACTCAG-GCTACAAGATGCTACAGT
13763320 AAATAACATA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 1 0.01
90 81 0.99
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (90 bp):
TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCGTTTACCCAGTTCAGTTACTG
GACTCAGGCTACAAGATGCTACAGT
Found at i:13764093 original size:23 final size:22
Alignment explanation
Indices: 13764049--13764093 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
13764039 AAATGCACCA
**
13764049 ATTCAACATCTCAAATTGTAAC
1 ATTCAACATCTCAAATACTAAC
*
13764071 ATTCAAGCCTCTCAAATACTAAC
1 ATTCAA-CATCTCAAATACTAAC
13764094 CAACATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (22 bp):
ATTCAACATCTCAAATACTAAC
Found at i:13766202 original size:25 final size:25
Alignment explanation
Indices: 13766174--13766225 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
13766164 TTTGGCTTGA
**
13766174 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
13766199 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
13766224 CA
1 CA
13766226 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:13772911 original size:19 final size:20
Alignment explanation
Indices: 13772884--13772921 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13772874 TTTCATGATG
*
13772884 AAAATCTTCT-AAGTTTTCC
1 AAAAGCTTCTAAAGTTTTCC
13772903 AAAAGCTTCTAAAGTTTTC
1 AAAAGCTTCTAAAGTTTTC
13772922 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAAGCTTCTAAAGTTTTCC
Found at i:13790609 original size:44 final size:44
Alignment explanation
Indices: 13790547--13790641 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 44
13790537 TTAGCTCTCG
*
13790547 ATATAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATAT-ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
13790592 ATATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
*
13790636 CTATAT
1 ATATAT
13790642 CCGGACTTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 44 0.92
45 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
ATATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:13795259 original size:12 final size:11
Alignment explanation
Indices: 13795233--13795267 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
13795223 AAACATATAT
*
13795233 ATAAATATAAA
1 ATAAATAAAAA
13795244 ATAAATAAATAA
1 ATAAATAAA-AA
13795256 ATAAATAAAAA
1 ATAAATAAAAA
13795267 A
1 A
13795268 CCACAGTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:13805791 original size:81 final size:81
Alignment explanation
Indices: 13805692--13806026 Score: 661
Period size: 81 Copynumber: 4.1 Consensus size: 81
13805682 CTACAAGCCT
13805692 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
1 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
13805757 AGAACTTCCCTGGAAA
66 AGAACTTCCCTGGAAA
13805773 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
1 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
13805838 AGAACTTCCCTGGAAA
66 AGAACTTCCCTGGAAA
*
13805854 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGTTGCAACCGCTGAAGAAGGTGATCCGGA
1 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
13805919 AGAACTTCCCTGGAAA
66 AGAACTTCCCTGGAAA
13805935 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
1 CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
13806000 AGAACTTCCCTGGAAA
66 AGAACTTCCCTGGAAA
13806016 CTGAACTTCGA
1 CTGAACTTCGA
13806027 TGGGGCATCA
Statistics
Matches: 252, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 252 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (81 bp):
CTGAACTTCGACTTCCCGAATGAAGACCTGATGTGTGCTGCAACCGCTGAAGAAGGTGATCCGGA
AGAACTTCCCTGGAAA
Found at i:13809115 original size:131 final size:132
Alignment explanation
Indices: 13808687--13809196 Score: 765
Period size: 132 Copynumber: 3.9 Consensus size: 132
13808677 ACAGATATCA
*
13808687 TTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCAA
1 TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCAA
* *
13808752 AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTGAAATTTTAGATCT
66 AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
13808817 TG
131 TG
* *
13808819 TTTCCCTGAAGTTGTAGTGAAGCGGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCAA
1 TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCAA
* *
13808884 AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGATCT
66 AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
13808949 TG
131 TG
* * * *
13808951 TTTCCCTGAAGTTGCAGTGAAG-AGGATTGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGCG
1 TTTCCCTGAAGTTGCAGTGAAGCA-GATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
*
13809015 AAGTAGATTTAGGCCACCAACCTA-CTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
65 AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
13809079 TTG
130 TTG
* * * * * * * **
13809082 TTTCCCTGAAGTTACAGTGGAA-CAGATCAAAGACGGTGGATCTAGTCTTCGTGAAGTTGCAGTG
1 TTTCCCTGAAGTTGCAGT-GAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCA
** *
13809146 AAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
65 AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
13809197 CGAAGATTGC
Statistics
Matches: 345, Mismatches: 29, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
131 110 0.32
132 235 0.68
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
TTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCAA
AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
TG
Found at i:13809167 original size:263 final size:264
Alignment explanation
Indices: 13808687--13809195 Score: 790
Period size: 263 Copynumber: 1.9 Consensus size: 264
13808677 ACAGATATCA
*
13808687 TTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGCAA
1 TTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGCAA
13808752 AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTGAAATTTTAGATCT
66 AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTGAAATTTTAGATCT
** * * *
13808817 TGTTTCCCTGAAGTTGTAGTGAAGCGGATCGAAGACGGTGAATCTTGGCTTCCTAAAGTTGCAGC
131 TGTTTCCCTGAAGTTACAGTGAAGCAGATCAAAGACGGTGAATCTAGGCTTCCTAAAGTTGCAGC
** *
13808882 AAAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGAT
196 AAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGAT
13808947 CTTG
261 CTTG
* * *
13808951 TTTCCCTGAAGTTGCAGTGAAG-AGGATTGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGCG
1 TTTCCCTGAAGTTGCAGTGAAGTA-GATCGAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGCA
* * *
13809015 AAGTAGATTTAGGCCACCAACCTA-CTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
65 AAGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTGAAATTTTAGATC
* * * *
13809079 TTGTTTCCCTGAAGTTACAGTGGAA-CAGATCAAAGACGGTGGATCTAGTCTTCGTGAAGTTGCA
130 TTGTTTCCCTGAAGTTACAGT-GAAGCAGATCAAAGACGGTGAATCTAGGCTTCCTAAAGTTGCA
**
13809143 GTGAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
194 GCAAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
13809196 CCGAAGATTG
Statistics
Matches: 222, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
263 138 0.62
264 84 0.38
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (264 bp):
TTTCCCTGAAGTTGCAGTGAAGTAGATCGAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGCAA
AGCAGATTTAGGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAATAGGCTGAAATTTTAGATCT
TGTTTCCCTGAAGTTACAGTGAAGCAGATCAAAGACGGTGAATCTAGGCTTCCTAAAGTTGCAGC
AAAGCAGATTTACACAACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGAT
CTTG
Found at i:13810962 original size:112 final size:113
Alignment explanation
Indices: 13810815--13811048 Score: 282
Period size: 113 Copynumber: 2.1 Consensus size: 113
13810805 GATTCACAAA
*
13810815 AAGCGCCGCAAAAAAATAAGGCCAACGACGTCG-TTT-ATTGAGTTTTTGGGCCATTAGCGGCGT
1 AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCATTG-GTTTTTGGGCCATTAGCGGCGT
*
13810878 TTT-TACAAAAGCGCC-CTAATGCTCCTG-TCTTTAGCGGCG-TTTTCTGAG
65 TTTCT-CAAAAGCGCCGCTAATGAT-CTGTTCTTTAGCGGCGTTTTTCTG-G
* * * * *
13810926 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTGTTTTTTGGGCCTTTAGCGGCGT
1 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCGTTTTCATTGGTTTTTGGGCCATTAGCGGCGT
* * * *
13810991 TTTCTTAAAAGCGCCGCTAATGATTTGTTTTTTAGCGGCGTTTTTCTGT
65 TTTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
13811040 AAGCGCCGC
1 AAGCGCCGC
13811049 TAATAGTAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
111 15 0.14
112 15 0.14
113 37 0.35
114 31 0.30
115 7 0.07
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (113 bp):
AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCATTGGTTTTTGGGCCATTAGCGGCGTT
TTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
Found at i:13811428 original size:18 final size:21
Alignment explanation
Indices: 13811382--13811430 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
13811372 TAGTTCGACT
13811382 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
13811403 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
13811421 AAATTAATAT
1 AAATTAATAT
13811431 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:13811714 original size:15 final size:16
Alignment explanation
Indices: 13811696--13811726 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13811686 GCTTTAAGAC
13811696 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
13811711 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
13811727 CGTGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Found at i:13812030 original size:7 final size:7
Alignment explanation
Indices: 13812018--13812095 Score: 75
Period size: 7 Copynumber: 11.1 Consensus size: 7
13812008 TCGGATGTAA
13812018 GGGTTTG
1 GGGTTTG
13812025 GGGTTTG
1 GGGTTTG
13812032 GGGTTTG
1 GGGTTTG
13812039 GGGTTTG
1 GGGTTTG
*
13812046 GGATTTG
1 GGGTTTG
* *
13812053 GGTTTTT
1 GGGTTTG
* *
13812060 GAGTTTA
1 GGGTTTG
* *
13812067 GAGTTTA
1 GGGTTTG
**
13812074 ATGTTTG
1 GGGTTTG
13812081 GGGTTTG
1 GGGTTTG
13812088 GGGTTTG
1 GGGTTTG
13812095 G
1 G
13812096 AAATTTAAGG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (7 bp):
GGGTTTG
Found at i:13812917 original size:230 final size:230
Alignment explanation
Indices: 13812513--13813021 Score: 752
Period size: 230 Copynumber: 2.2 Consensus size: 230
13812503 AAGAAAACGG
*
13812513 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
* * ** ** *
13812578 CGGGAACGGTGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
*
13812643 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
* * **
13812708 AACGTCGCAAACTCGAAATGGTGTTACGAAAAATGA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
*
13812744 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
*
13812809 CAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
* * *
13812873 AAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
*
13812938 AACGCCGCAAAATCGAAATGGTGTTACGGAAAACAA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
* *** *
13812974 CGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCCGCAA
1 CGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAA
13813022 ATTTGCATTA
Statistics
Matches: 251, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
230 159 0.63
231 88 0.35
232 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (230 bp):
CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAACTATGTTTTCTTTGTTAC
AGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTTA
AAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATAA
ACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
Found at i:13813373 original size:19 final size:19
Alignment explanation
Indices: 13813351--13813394 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13813341 CAGACATCTC
*
13813351 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
13813370 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
13813389 CCCCAA
1 CCCCAA
13813395 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:13815435 original size:20 final size:20
Alignment explanation
Indices: 13815410--13815471 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
13815400 TACAATTTCT
13815410 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
13815430 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
* *
13815449 TAACTTATATCATGTTAAGA
1 TAACTTATATAATATTAAGA
13815469 TAA
1 TAA
13815472 AAAATTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:13815566 original size:51 final size:52
Alignment explanation
Indices: 13815510--13815793 Score: 425
Period size: 51 Copynumber: 5.6 Consensus size: 52
13815500 CATTTGACTG
*
13815510 ACATAATACAT-TTAACTTACAACTTACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTT
* * *
13815561 ACATAATACAT-TTAACTTGCAACTTACACAATACATAATAACTTATAACTT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTT
* * *
13815612 ACATAATACATAATAACTTACAACTTACATAATACAT-TTAACTTGCAACTT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTT
* * *
13815663 ACACAATACATAATAACTTATAACTTACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTT
* *
13815715 ACATAATACAT-TTAACTTACAACTTACACAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTT
13815765 ACATAATACATAATAACTTACAACTTACA
1 ACATAATACATAATAACTTACAACTTACA
13815794 TTTAACTTAC
Statistics
Matches: 212, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
50 24 0.11
51 144 0.68
52 44 0.21
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (52 bp):
ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTT
Found at i:13815611 original size:77 final size:76
Alignment explanation
Indices: 13815514--13815794 Score: 490
Period size: 77 Copynumber: 3.7 Consensus size: 76
13815504 TGACTGACAT
* *
13815514 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATTTAACTT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
13815579 GCAACTTACAC
66 GCAACTTACAC
*
13815590 AATACATAATAACTTATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
13815655 TGCAACTTACAC
65 TGCAACTTACAC
*
13815667 AATACATAATAACTTATAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
13815732 TACAACTTACAC
65 TGCAACTTACAC
*
13815744 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
13815795 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
76 49 0.25
77 149 0.75
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
GCAACTTACAC
Found at i:13815722 original size:19 final size:19
Alignment explanation
Indices: 13815592--13815710 Score: 61
Period size: 19 Copynumber: 6.2 Consensus size: 19
13815582 ACTTACACAA
*
13815592 TACATAATA-ACTTATAACT
1 TACATAATACA-TAATAACT
13815611 TACATAATACATAATAACT
1 TACATAATACATAATAACT
* *
13815630 TACA-ACTTACATAATACATT
1 TACATA-ATACATAATA-ACT
* * * *
13815650 TAACTTGCA-ACTTACACAA--
1 T-ACAT-AATACATA-ATAACT
*
13815669 TACATAATA-ACTTATAACT
1 TACATAATACA-TAATAACT
13815688 TACATAATACATAATAACT
1 TACATAATACATAATAACT
13815707 TACA
1 TACA
13815711 ACTTACATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 24
0.66 0.12 0.21
Matches are distributed among these distances:
17 4 0.05
18 6 0.08
19 50 0.68
20 5 0.07
21 7 0.09
22 2 0.03
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATACATAATAACT
Found at i:13815802 original size:11 final size:10
Alignment explanation
Indices: 13815786--13815839 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
13815776 AATAACTTAC
13815786 AACTTACATTT
1 AACTTACA-TT
13815797 AACTTACA-T
1 AACTTACATT
13815806 AA--TACATTT
1 AACTTACA-TT
13815815 AACTTACA-T
1 AACTTACATT
13815824 AACTTACA-T
1 AACTTACATT
13815833 AACTTAC
1 AACTTAC
13815840 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:13815823 original size:18 final size:18
Alignment explanation
Indices: 13815760--13815825 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
13815750 TTTAACTTAC
*
13815760 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
13815779 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
13815797 AACTTACATAATACATTT
1 AACTTACATAATACATTT
13815815 AACTTACATAA
1 AACTTACATAA
13815826 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:13815835 original size:18 final size:18
Alignment explanation
Indices: 13815682--13815839 Score: 69
Period size: 18 Copynumber: 9.0 Consensus size: 18
13815672 ATAATAACTT
*
13815682 ATAACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
13815701 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
13815717 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
13815735 --AACTTACACAA--TAC
1 ATAACTTACATAACTTAC
13815749 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
13815767 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
13815786 --AACTTACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
13815804 ATAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
13815822 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
13815840 CATTGCAATT
Statistics
Matches: 111, Mismatches: 4, Indels: 49
0.68 0.02 0.30
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.13
17 1 0.01
18 60 0.54
19 16 0.14
20 6 0.05
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:13821316 original size:21 final size:21
Alignment explanation
Indices: 13821290--13821360 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
13821280 CTACAACTTA
* *
13821290 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
13821311 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
13821332 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
13821353 AAGCAGAG
1 AAGCAGAG
13821361 CAGAGTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:13821603 original size:14 final size:14
Alignment explanation
Indices: 13821584--13821617 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13821574 ATTGCTATTG
13821584 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
13821598 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
13821612 TTTGCT
1 GTTGCT
13821618 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:13821734 original size:40 final size:40
Alignment explanation
Indices: 13821677--13821929 Score: 182
Period size: 42 Copynumber: 6.1 Consensus size: 40
13821667 TAGTGGCGTT
*
13821677 TTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCG
1 TTTGTA-AAAA-CGCCACTAAAGAACATGTTCTTTAGCGGCG
* * * *
13821719 TTTGTAAAAATGCCACTAAAGAACATGGTCTTTAGTGGCATT
1 TTTGTAAAAACGCCACTAAAGAACATGTTCTTTAGCGGC--G
* * *
13821761 TTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 TTTGTAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG
* ** * * * * *
13821801 TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATT
1 --TTTGTAAAAACGCCACTAAAGAACATGTTCTTTAGCGGC--G
* * *
13821845 TTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 TTTGTAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG
* ** * * * *
13821885 TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCG
1 --TTTGTAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG
13821927 TTT
1 TTT
13821930 TTGTTTGTAA
Statistics
Matches: 174, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
40 28 0.16
41 4 0.02
42 142 0.82
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTGTAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG
Found at i:13821785 original size:42 final size:42
Alignment explanation
Indices: 13821734--13821931 Score: 274
Period size: 42 Copynumber: 4.7 Consensus size: 42
13821724 AAAAATGCCA
*
13821734 CTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAACGCCG
1 CTAAAGAACATGGTCTTTAGCGGCATTTTTTT-CTAAACGCCG
* * *
13821776 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAACGCCG
*
13821818 CTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAACGCCG
1 CTAAAGAACATGGTCTTTAGCGGCATTTTTTT-CTAAACGCCG
* * *
13821860 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAACGCCG
* *
13821902 CTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CTAAAGAACATGGTCTTTAGCGGCATTTTT
13821932 GTTTGTAAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.01
42 136 0.98
43 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (42 bp):
CTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAACGCCG
Found at i:13821901 original size:126 final size:124
Alignment explanation
Indices: 13821686--13821931 Score: 323
Period size: 126 Copynumber: 2.0 Consensus size: 124
13821676 TTTTGTATAA
* * *
13821686 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAATGCCACTAAAGAACATGGTCTT
1 AAGCGCCACTAAAGAACATGGTCTTTAGCGGCGTTTGTAAAAACGCCACTAAAGAACATGGTCTT
* * *
13821751 TAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
66 TAGCGGCATTTTTTTACAAACGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCT
* * * * * * *
13821810 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCACTAAAGAACATGGTCTTTAGCGGC--GTTTGTAAAAACGCCACTAAAGAACATGGTC
* *
13821875 TTTAGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
64 TTTAGCGGCATTTTTTTAC-AAACGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
13821932 GTTTGTAAAC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
124 28 0.27
125 1 0.01
126 75 0.72
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (124 bp):
AAGCGCCACTAAAGAACATGGTCTTTAGCGGCGTTTGTAAAAACGCCACTAAAGAACATGGTCTT
TAGCGGCATTTTTTTACAAACGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCT
Found at i:13821931 original size:84 final size:84
Alignment explanation
Indices: 13821667--13821920 Score: 379
Period size: 84 Copynumber: 3.0 Consensus size: 84
13821657 ATCCCAAAAA
* * * * ** *
13821667 TAGTGGCGTTTTTGTATA-AAAGCGCCACTAAAGAACATGTTCTTTTGCGGCG--TTTGTAAAAA
1 TAGTGGCATTTTT-T-TACAAA-CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
* *
13821729 TGCCACTAAAGAACATGGTCTT
63 CGCCGCTAAAGAACATGGTCTT
13821751 TAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
1 TAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
13821816 CGCTAAAGAACATGGTCTT
66 CGCTAAAGAACATGGTCTT
13821835 TAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
1 TAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
13821900 CGCTAAAGAACATGGTCTT
66 CGCTAAAGAACATGGTCTT
13821919 TA
1 TA
13821921 ACGGCGTTTT
Statistics
Matches: 158, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
82 30 0.19
83 4 0.03
84 124 0.78
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (84 bp):
TAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
CGCTAAAGAACATGGTCTT
Found at i:13823987 original size:131 final size:131
Alignment explanation
Indices: 13823742--13824014 Score: 332
Period size: 131 Copynumber: 2.1 Consensus size: 131
13823732 GAATTCTTTA
* * * *
13823742 AAACAAAGGCGATATTCGATTCTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACGAAGGCGATATTCGATTCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
* ** * * * * * * * *
13823807 TTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTTACCCATGTCTTTTGAAAATCCCT
66 TTCGCGTTCACTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCCCT
13823872 T
131 T
* *
13823873 AAACGAAGGCGATATTTGATAT-TTGGTAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAA
1 AAACGAAGGCGATATTCGAT-TCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAA
* * * *
13823937 TTTCGCGTTCACTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAAATCCT
65 TTTCGCGTTCACTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCCC
13824002 TT
130 TT
13824004 AAGACGAAGGC
1 AA-ACGAAGGC
13824015 AATACTCGGT
Statistics
Matches: 119, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
131 110 0.92
132 9 0.08
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (131 bp):
AAACGAAGGCGATATTCGATTCTTGGCAACTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
TTCGCGTTCACTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCCCT
T
Found at i:13824042 original size:131 final size:131
Alignment explanation
Indices: 13823776--13824064 Score: 301
Period size: 131 Copynumber: 2.2 Consensus size: 131
13823766 GGCAATTCGT
* * ** * * * *
13823776 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTT
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTCAAAATAATCAAAGATCCCTTC
* * * * * * * * **
13823841 AGAATTTTACCCATGTCTTTTGAAAATCCCTTAAACGAAGGCGATATTTGATATTTGGTAACTCG
66 AAAATTTCACCCATGTCTTCTAAAAATCCCTTAAACGAAGGCAATACTCGATATTCGACAACTCG
13823906 C
131 C
* *
13823907 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTTAAAATAATCAAATATCCCTTC
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTCAAAATAATCAAAGATCCCTTC
* * * * * *
13823972 AAAATTTCACTCATGTCTTCTAAAAATCCTTTAAGACGAAGGCAATACTCGGTGTTCGACAATTT
66 AAAATTTCACCCATGTCTTCTAAAAATCCCTTAA-ACGAAGGCAATACTCGATATTCGACAACTC
13824037 G-
130 GC
* * *
13824038 GGAATCATGCCCTATCGTGCTCGGTTG
1 GGAATCGTGCCCTAACGTGCTGGGTTG
13824065 TGATTTCTCG
Statistics
Matches: 128, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
131 107 0.84
132 21 0.16
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (131 bp):
GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTCACTCAAAATAATCAAAGATCCCTTC
AAAATTTCACCCATGTCTTCTAAAAATCCCTTAAACGAAGGCAATACTCGATATTCGACAACTCG
C
Found at i:13833620 original size:22 final size:22
Alignment explanation
Indices: 13833595--13833643 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
13833585 AGTTTTCTCC
*
13833595 TTATTTTACTATTATTTTATTA
1 TTATTTTACTACTATTTTATTA
* ** *
13833617 TTATGTTGTTACTATTTTATTG
1 TTATTTTACTACTATTTTATTA
13833639 TTATT
1 TTATT
13833644 GTTTGAATAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.67
Consensus pattern (22 bp):
TTATTTTACTACTATTTTATTA
Found at i:13833708 original size:30 final size:30
Alignment explanation
Indices: 13833672--13833734 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13833662 ACTTATTTTA
*
13833672 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
13833702 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
13833732 TTG
1 TTG
13833735 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:13833853 original size:18 final size:18
Alignment explanation
Indices: 13833818--13833857 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
13833808 GAGATATTTA
*
13833818 TTTTGATATTTTTAATAT
1 TTTTGATATTTATAATAT
13833836 TTTTGATATATTATATATAT
1 TTTTGATAT-TTATA-ATAT
13833856 TT
1 TT
13833858 AAAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTGATATTTATAATAT
Found at i:13840515 original size:29 final size:31
Alignment explanation
Indices: 13840473--13840547 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 31
13840463 AATATCTTAG
* *
13840473 GTTACATTTTAGTCACTTATGTT-TGAAA-T
1 GTTACATTTTAGTCACTTACGTTATCAAATT
*
13840502 GTTACGTTTTAGTCACTTACGTTATCAAATT
1 GTTACATTTTAGTCACTTACGTTATCAAATT
*
13840533 GTAACATTTTAGTCA
1 GTTACATTTTAGTCA
13840548 TTAAGCCGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 21 0.54
30 4 0.10
31 14 0.36
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCAAATT
Found at i:13841963 original size:15 final size:14
Alignment explanation
Indices: 13841937--13841975 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
13841927 TTGGCGCTTA
13841937 AATTTTTTTTATAT
1 AATTTTTTTTATAT
*
13841951 AATTTTTTATTATTT
1 AATTTTTT-TTATAT
13841966 AAGTTTTTTT
1 AA-TTTTTTT
13841976 GGTACCGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 8 0.36
16 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
AATTTTTTTTATAT
Found at i:13846768 original size:45 final size:44
Alignment explanation
Indices: 13846700--13846790 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
13846690 TCATAGTGGG
* *
13846700 ATAAAGTAATGAGTGATGTCATTCCTGACCAAGTGGCAGCTTAA
1 ATAAAGTAACGAGTGATGGCATTCCTGACCAAGTGGCAGCTTAA
*
13846744 ATANAAGTAACGAGTGATGGCATTCCTGCCCAAGTGGCAGCTTAA
1 ATA-AAGTAACGAGTGATGGCATTCCTGACCAAGTGGCAGCTTAA
13846789 AT
1 AT
13846791 CCATGCATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 3 0.07
45 40 0.93
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (44 bp):
ATAAAGTAACGAGTGATGGCATTCCTGACCAAGTGGCAGCTTAA
Found at i:13854720 original size:24 final size:23
Alignment explanation
Indices: 13854682--13854730 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
13854672 GAATTATATT
13854682 TATTTTAATAGTAATTAATATTTA
1 TATTTTAATAGTAATTAAT-TTTA
** *
13854706 TATTTTAATTTTAATTTATTTTA
1 TATTTTAATAGTAATTAATTTTA
13854729 TA
1 TA
13854731 GATTTAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTTAATAGTAATTAATTTTA
Found at i:13855792 original size:21 final size:21
Alignment explanation
Indices: 13855768--13855807 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13855758 TTTAATAGTT
*
13855768 AAGATTATATTTTTATTTGTA
1 AAGATTATATTTGTATTTGTA
13855789 AAGATTATATTTGTATTTG
1 AAGATTATATTTGTATTTG
13855808 AGTTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
AAGATTATATTTGTATTTGTA
Found at i:13855882 original size:14 final size:16
Alignment explanation
Indices: 13855851--13855890 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
13855841 TTAATTTGTA
13855851 ATAATAATTTGTATATT
1 ATAAT-ATTTGTATATT
13855868 ATAATATTT-TA-ATT
1 ATAATATTTGTATATT
13855882 ATAATATTT
1 ATAATATTT
13855891 AGATTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 4 0.17
17 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATAATATTTGTATATT
Found at i:13855899 original size:13 final size:14
Alignment explanation
Indices: 13855865--13855912 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
13855855 TAATTTGTAT
13855865 ATTATAATATTTTA-
1 ATTATAATA-TTTAG
13855879 ATTATAATATTTAG
1 ATTATAATATTTAG
*
13855893 ATT-TAATGTTTAAG
1 ATTATAATATTT-AG
13855907 ATTATA
1 ATTATA
13855913 TTTTAGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.37
14 17 0.57
15 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTATAATATTTAG
Found at i:13864838 original size:6 final size:6
Alignment explanation
Indices: 13864827--13864857 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13864817 TAGTTTCCAA
13864827 AAAATG AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A
13864858 TCCATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:13865060 original size:25 final size:26
Alignment explanation
Indices: 13865009--13865066 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
13864999 TTTTTTCTCG
* *
13865009 AAATTTTACTAGGGGCAAAATCGTCA
1 AAATTTTACCAGGGGCAAAATCATCA
*
13865035 AAATTTTACCA-GGGTAAAATCATCA
1 AAATTTTACCAGGGGCAAAATCATCA
13865060 AAATTTT
1 AAATTTT
13865067 GTTGGGAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAGGGGCAAAATCATCA
Found at i:13868951 original size:35 final size:35
Alignment explanation
Indices: 13868902--13869038 Score: 150
Period size: 35 Copynumber: 3.9 Consensus size: 35
13868892 AACGTAGATT
13868902 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* * *
13868937 CCTTACTGAGTTGTGAAATGTAGGTATGGTATTAT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* ** * * * **
13868972 CCATATTGAGTT-AAAAACGAAGGTATAGCATTTC
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* *
13869006 CCATACTGAGTTGTGAAATGTAGGTATGATATT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATT
13869039 TCAATGAGGA
Statistics
Matches: 80, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 25 0.31
35 55 0.69
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
Found at i:13871364 original size:329 final size:329
Alignment explanation
Indices: 13870766--13871427 Score: 1279
Period size: 329 Copynumber: 2.0 Consensus size: 329
13870756 ACCCTATTTA
13870766 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
1 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
*
13870831 ATCACGGATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
66 ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
13870896 TTTGTCCGATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
131 TTTGTCCGATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
13870961 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
196 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
*
13871026 CTTGAATATGATACTTGGCTGACTAAATTAACACTCTCTCTTACCCGTGGTAATCCCACATTTCC
261 CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
13871091 TTCC
326 TTCC
13871095 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
1 TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
13871160 ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
66 ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
* *
13871225 TTTGTCCTATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTCTT
131 TTTGTCCGATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
*
13871290 ATGAATTAACCTATGCTTGATCGCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
196 ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
13871355 CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
261 CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
13871420 TTCC
326 TTCC
13871424 TCGT
1 TCGT
13871428 GCTATATAAC
Statistics
Matches: 328, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
329 328 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (329 bp):
TCGTTATTCTAGTATTTCCTTATACCCTTCATTGTATGCCTCATTACTGAACACCCATATTTGCT
ATCACGAATTGGCAACACCTATTGGCGTTGTAACTAAGACTTCTCTATAATTTTGGATCCCTTAC
TTTGTCCGATTAATCCACTTAGAACTCTATATGTATTTGTCGTACTATTTAGATAGTATCTTATT
ATGAATTAACCTATGCTTGATCCCTTTCCTGAATGGGGTCTTATTCTAGTAACCTCATTCGCGGA
CTTGAATATGATACTTGGCTGACTAAATTAACACCCTCTCTTACCCGTGGTAATCCCACATTTCC
TTCC
Found at i:13872071 original size:68 final size:68
Alignment explanation
Indices: 13871957--13872099 Score: 180
Period size: 68 Copynumber: 2.1 Consensus size: 68
13871947 CCATATTGGT
* * * **
13871957 GGACTTTATTTGATGCCATAGCCCAACTATAGTCTTACACACTATGATCTGATGTTTACTATCCT
1 GGACTTTATATGATGCCATAGCCCAACTAGAGCCTTACACACTATGATCCCATGTTTACTATCCT
13872022 AGC
66 AGC
* * *
13872025 GGACTTTATATGTTGCCATAGCCCAACTAGGGCCTTACACTA-TATGATCCCATGTTTACTGTCC
1 GGACTTTATATGATGCCATAGCCCAACTAGAGCCTTACAC-ACTATGATCCCATGTTTACTATCC
* *
13872089 TGGG
65 TAGC
13872093 GGACTTT
1 GGACTTT
13872100 TGATTCTGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 63 0.98
69 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (68 bp):
GGACTTTATATGATGCCATAGCCCAACTAGAGCCTTACACACTATGATCCCATGTTTACTATCCT
AGC
Found at i:13874399 original size:43 final size:43
Alignment explanation
Indices: 13874327--13874445 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
13874317 CATAAAGCTC
* * * * *
13874327 ATACAATGCC-ATATCCCAGATATAGTCTTACATGTTATCTC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
13874368 ATATCGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
13874412 ATACAATGCCAATGTCCCAGACATGGTCTTACAT
1 ATACAATGCCAATGTCCCAGACATGGTCTTACAT
13874446 ACAATCTCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.05
42 6 0.09
43 52 0.81
44 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:13882077 original size:30 final size:30
Alignment explanation
Indices: 13882010--13882077 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
13882000 CACCCTTAAA
* *
13882010 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTC
*
13882040 ATATTTACACT-TTAGTCCTTCAAATTTTG
1 ATATTTACACTATTAGTCCTTCAAATTTTC
13882069 AGTATTTAC
1 A-TATTTAC
13882078 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAGTCCTTCAAATTTTC
Found at i:13887777 original size:45 final size:45
Alignment explanation
Indices: 13887685--13887847 Score: 170
Period size: 45 Copynumber: 3.6 Consensus size: 45
13887675 TGCCATAGTG
* * * * **
13887685 TCTTTCAGCTATGGTCTTACACA-TTTTATCATGGCGCCATAGTA
1 TCTTTCAACTATGGTCTTACTCATTTTTATCATGACACCATAACA
* * *
13887729 TCTTTCAACTATGATCTTACTCATTTTTATTATGACTCCATAACA
1 TCTTTCAACTATGGTCTTACTCATTTTTATCATGACACCATAACA
* * * *
13887774 TCTTTTAGCTATGG-CATTACTTATTTTTATGATGACACCATAACA
1 TCTTTCAACTATGGTC-TTACTCATTTTTATCATGACACCATAACA
13887819 TCTTT-AAGCTATGGTCTTACTCATTTTTA
1 TCTTTCAA-CTATGGTCTTACTCATTTTTA
13887848 GGCTTATAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
44 22 0.22
45 76 0.77
46 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCATTTTTATCATGACACCATAACA
Found at i:13891671 original size:2 final size:2
Alignment explanation
Indices: 13891664--13892489 Score: 1652
Period size: 2 Copynumber: 413.0 Consensus size: 2
13891654 TGAGACTAAC
13891664 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891706 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891748 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891790 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891832 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891874 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891916 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13891958 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892000 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892042 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892084 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892126 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892168 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892210 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892252 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892294 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892336 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892378 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892420 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892462 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13892490 TATATATTTA
Statistics
Matches: 824, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 824 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13896879 original size:24 final size:24
Alignment explanation
Indices: 13896843--13896889 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13896833 CGGAAAGATG
13896843 TAATCAGGGTTATAGTTGACAAAT
1 TAATCAGGGTTATAGTTGACAAAT
*
13896867 TAATCAGGTTTATAGTTGACAAA
1 TAATCAGGGTTATAGTTGACAAA
13896890 CTAACCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (24 bp):
TAATCAGGGTTATAGTTGACAAAT
Found at i:13898173 original size:15 final size:15
Alignment explanation
Indices: 13898150--13898202 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13898140 CTAATTAAGC
*
13898150 TTAAATTTTTGTTAA
1 TTAAGTTTTTGTTAA
**
13898165 TTAAGTTTTAATTAA
1 TTAAGTTTTTGTTAA
13898180 TTAA--TTTTGATTAA
1 TTAAGTTTTTG-TTAA
13898194 TTAAGTTTT
1 TTAAGTTTT
13898203 AGTATATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 16 0.53
16 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (15 bp):
TTAAGTTTTTGTTAA
Found at i:13898187 original size:14 final size:15
Alignment explanation
Indices: 13898161--13898203 Score: 70
Period size: 14 Copynumber: 2.9 Consensus size: 15
13898151 TAAATTTTTG
13898161 TTAATTAAGTTTTAA
1 TTAATTAAGTTTTAA
*
13898176 TTAATTAA-TTTTGA
1 TTAATTAAGTTTTAA
13898190 TTAATTAAGTTTTA
1 TTAATTAAGTTTTA
13898204 GTATATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
TTAATTAAGTTTTAA
Found at i:13901005 original size:19 final size:19
Alignment explanation
Indices: 13900965--13901006 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
13900955 TATGTTAATT
*
13900965 TAAAGTTAAATTAATAAGAA
1 TAAAGTTAAA-TAATAAAAA
13900985 TAAAGTTAAA-ACATAAAAA
1 TAAAGTTAAATA-ATAAAAA
13901004 TAA
1 TAA
13901007 TGGTCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 9 0.45
20 10 0.50
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
TAAAGTTAAATAATAAAAA
Found at i:13909116 original size:26 final size:26
Alignment explanation
Indices: 13909086--13909141 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
13909076 TGAAATGCCC
13909086 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13909112 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13909138 ATCA
1 ATCA
13909142 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13915139 original size:12 final size:12
Alignment explanation
Indices: 13915105--13915139 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13915095 AATTTTTCGT
*
13915105 GAAATTTCAAAA
1 GAAATTTCAAGA
13915117 GAAATTTCAAGA
1 GAAATTTCAAGA
13915129 GAAATTTCAAG
1 GAAATTTCAAG
13915140 GTGTATGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (12 bp):
GAAATTTCAAGA
Found at i:13924975 original size:32 final size:32
Alignment explanation
Indices: 13924929--13924989 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
13924919 TTAGATATTG
*
13924929 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATATTTCAAGCTTGTTAGATATTGAATTT
* *
13924961 ATTATATTTTAAGCTTGTTGGATATTGAA
1 ATTATATTTCAAGCTTGTTAGATATTGAA
13924990 ATGATTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (32 bp):
ATTATATTTCAAGCTTGTTAGATATTGAATTT
Found at i:13926006 original size:22 final size:22
Alignment explanation
Indices: 13925938--13926026 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
13925928 GATACTTTTA
13925938 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
13925961 ACT-TGG-ACAATACTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
13925984 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
* *
13926006 ATATGGTGTACTATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
13926027 GCACTTGGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 31 0.58
23 11 0.21
24 11 0.21
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:13926089 original size:68 final size:68
Alignment explanation
Indices: 13925941--13926089 Score: 192
Period size: 68 Copynumber: 2.2 Consensus size: 68
13925931 ACTTTTAATG
* * *
13925941 TGGTGTAATATTAGTTATGCACTTGGACAATACTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATACTGTTGTTATCATGTGGTGTAATACTAATTATC
13926006 ATA
66 ATA
* * * **
13926009 TGGTGTACTATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAATACTGTTGTTATCATGTGGTGTAATACTAATTAT-
* *
13926074 TATT
65 CATA
13926078 TGG-ATAATATTA
1 TGGTATAATATTA
13926090 TTAATTTCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
68 65 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATACTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:13926507 original size:29 final size:29
Alignment explanation
Indices: 13926475--13926558 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
13926465 AAATACAAAA
*
13926475 AAAAAATCATTTTTC-AGAAATTATTTTTC
1 AAAAAAT-ATTTTTCTAAAAATTATTTTTC
*
13926504 AAAAAAT-TATTTTCTAAAAATTATTTTTT
1 AAAAAATAT-TTTTCTAAAAATTATTTTTC
*
13926533 AAAAAATATTTTT-TAAAAAATATTTT
1 AAAAAATATTTTTCTAAAAATTATTTT
13926559 ACCTGAAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.02
28 17 0.35
29 30 0.61
30 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (29 bp):
AAAAAATATTTTTCTAAAAATTATTTTTC
Found at i:13926510 original size:15 final size:15
Alignment explanation
Indices: 13926475--13926558 Score: 95
Period size: 14 Copynumber: 5.9 Consensus size: 15
13926465 AAATACAAAA
*
13926475 AAAAAATCATTTTTC
1 AAAAAATTATTTTTC
*
13926490 -AGAAATTATTTTTC
1 AAAAAATTATTTTTC
13926504 AAAAAATTA-TTTTC
1 AAAAAATTATTTTTC
* *
13926518 TAAAAATTATTTTTT
1 AAAAAATTATTTTTC
*
13926533 AAAAAA-TATTTTTT
1 AAAAAATTATTTTTC
13926547 AAAAAA-TATTTT
1 AAAAAATTATTTT
13926559 ACCTGAAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
14 45 0.74
15 16 0.26
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (15 bp):
AAAAAATTATTTTTC
Found at i:13933501 original size:22 final size:22
Alignment explanation
Indices: 13933476--13933529 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
13933466 GTCGGACTAA
13933476 TGCCATGACACCCTATAGCCGG
1 TGCCATGACACCCTATAGCCGG
13933498 TGCCATGACACCCTATAGCCGG
1 TGCCATGACACCCTATAGCCGG
*
13933520 TGTCATGACA
1 TGCCATGACA
13933530 TCGATGGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (22 bp):
TGCCATGACACCCTATAGCCGG
Found at i:13936346 original size:18 final size:17
Alignment explanation
Indices: 13936299--13936346 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
13936289 ACTCATATTC
13936299 AATTGTAAATTTAAGCA
1 AATTGTAAATTTAAGCA
13936316 AATTGTAAATTTAAGCA
1 AATTGTAAATTTAAGCA
*
13936333 AATTTTACAATTTA
1 AATTGTA-AATTTA
13936347 TTCAATTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (17 bp):
AATTGTAAATTTAAGCA
Found at i:13946654 original size:79 final size:79
Alignment explanation
Indices: 13946514--13946735 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
13946504 TATTCGAATG
* * * **
13946514 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGC
13946579 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
13946595 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGC
13946658 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
13946674 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
13946736 TATGTGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.52
80 45 0.37
81 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:13946716 original size:40 final size:40
Alignment explanation
Indices: 13946514--13946721 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
13946504 TATTCGAATG
* * *
13946514 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
13946555 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
13946595 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
13946634 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
13946674 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
13946714 ATATCCGG
1 ATATCCGG
13946722 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.25
40 81 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:13950084 original size:136 final size:137
Alignment explanation
Indices: 13949836--13950094 Score: 398
Period size: 136 Copynumber: 1.9 Consensus size: 137
13949826 GAGCCATAAA
* *
13949836 TGGGTTTGCTCACACAAGCTGACGATCGGAATGTAGCTACACAATGCTGCTCACACAAGCTGACT
1 TGGGTTTACTCACACAAGCTGACGATCGGAATGTAGCTACACAATACTGCTCACACAAGCTGACT
* *
13949901 AGTATCCGCAACAAATGTCGAAACTCAACCATCGGTAGGACACTCAGGACCAACACCCTGAACAT
66 AGTATCCGCAACAAATGCCGAAACTCAACCATCGGTAGAACACTCAGGACCAACACCCTGAACAT
13949966 GGTAACT
131 GGTAACT
* *
13949973 TGGGTTTACTCACACAAGCTGA-GGTCGGAATGTAAGCTAC-CGATACTGCTCACACAAGCTGA-
1 TGGGTTTACTCACACAAGCTGACGATCGGAATGT-AGCTACACAATACTGCTCACACAAGCTGAC
* * *
13950035 TAAGTATCCGCAACAAATGCCGAACCTCAACTATCGGTAGAACATTCAGGACCAACACCC
65 T-AGTATCCGCAACAAATGCCGAAACTCAACCATCGGTAGAACACTCAGGACCAACACCC
13950095 AAAACATGAA
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
135 1 0.01
136 83 0.75
137 27 0.24
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (137 bp):
TGGGTTTACTCACACAAGCTGACGATCGGAATGTAGCTACACAATACTGCTCACACAAGCTGACT
AGTATCCGCAACAAATGCCGAAACTCAACCATCGGTAGAACACTCAGGACCAACACCCTGAACAT
GGTAACT
Found at i:13950959 original size:63 final size:62
Alignment explanation
Indices: 13950871--13950998 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 62
13950861 AAAATGGCTT
*
13950871 ACCATGCATGAATTGAAGCATGGATGAAGCTTGAATATGCTTCCATGGAAGTTCGGTGACGA
1 ACCATGCATGAATTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGGTGACGA
13950933 ACCATGCATGAATTTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGGTGACGA
1 ACCATGCATGAA-TTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGGTGACGA
13950996 ACC
1 ACC
13950999 CAACAATTGA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 12 0.19
63 52 0.81
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (62 bp):
ACCATGCATGAATTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGGTGACGA
Found at i:13951460 original size:16 final size:16
Alignment explanation
Indices: 13951439--13951469 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13951429 TGTTCATTCA
13951439 AATATAAAAAATTATC
1 AATATAAAAAATTATC
*
13951455 AATATAAAAATTTAT
1 AATATAAAAAATTAT
13951470 TTTAATACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAAAAATTATC
Found at i:13955783 original size:16 final size:16
Alignment explanation
Indices: 13955762--13955813 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
13955752 TTTGGTTCGC
13955762 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13955778 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
13955794 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
13955810 TGTA
1 TGTA
13955814 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13955860 original size:45 final size:44
Alignment explanation
Indices: 13955794--13955888 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
13955784 GGATTAGAGG
* * *
13955794 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
13955839 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
13955883 TGTAAT
1 TGTAAT
13955889 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:13956071 original size:18 final size:17
Alignment explanation
Indices: 13956050--13956084 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13956040 TTATTATTTA
*
13956050 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13956068 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13956085 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13956078 original size:28 final size:27
Alignment explanation
Indices: 13956008--13956080 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
13955998 TTTATTATCA
*
13956008 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
13956036 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
13956063 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
13956081 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:13962028 original size:16 final size:15
Alignment explanation
Indices: 13961994--13962037 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13961984 AAATTTCAAT
*
13961994 TAAAATAAAGTTAAAA
1 TAAAATAAA-TAAAAA
13962010 TAAAATAAATAAAACA
1 TAAAATAAATAAAA-A
13962026 T-AAATAAATAAA
1 TAAAATAAATAAA
13962038 CATCGGCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:13963272 original size:40 final size:40
Alignment explanation
Indices: 13963228--13963307 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
13963218 ATATGACATG
*
13963228 TTATTAAATCTTATAAGTGTCTATATGGTCTTCTGAATGT
1 TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
13963268 TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
1 TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
13963308 ATATCGTGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (40 bp):
TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
Found at i:13965404 original size:19 final size:19
Alignment explanation
Indices: 13965352--13965407 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
13965342 ATAAATATAA
*
13965352 GTTCAATATAAACTCACAT
1 GTTCAATATAAATTCACAT
** *
13965371 G-T-AA-CCAAATACACAT
1 GTTCAATATAAATTCACAT
13965387 GTTCAATATAAATTCACAT
1 GTTCAATATAAATTCACAT
13965406 GT
1 GT
13965408 AATCGAATGC
Statistics
Matches: 27, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 3 0.11
19 12 0.44
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (19 bp):
GTTCAATATAAATTCACAT
Found at i:13970381 original size:50 final size:50
Alignment explanation
Indices: 13970286--13970382 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 50
13970276 GTTGGTAATC
*
13970286 CCAAATATTTCTCCGGATTATTTGCAATTCGAACGCTAAAGATTCTCCCT
1 CCAAATATTTCTCCGGATTATTTGCAATTCGAACGCTAAAAATTCTCCCT
*
13970336 CCAAATATTT-TTCGGAATTATTTGCAATTCGAACG-TCAAAAATTCTC
1 CCAAATATTTCTCCGG-ATTATTTGCAATTCGAACGCT-AAAAATTCTC
13970383 TCCACTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 5 0.12
50 38 0.88
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (50 bp):
CCAAATATTTCTCCGGATTATTTGCAATTCGAACGCTAAAAATTCTCCCT
Found at i:13974324 original size:48 final size:48
Alignment explanation
Indices: 13974269--13974366 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
13974259 GCACTGTCAG
*
13974269 CAGGAAAAGGCAGTCTAGCTTGCTTACCAAGCTGACAAACCTCACAAA
1 CAGGAAAAGGCAGTCTAGCCTGCTTACCAAGCTGACAAACCTCACAAA
13974317 CAGGAAAAGGCAGTCTAGCCTGCTTACCAAGCTGACAAACCTCACAAA
1 CAGGAAAAGGCAGTCTAGCCTGCTTACCAAGCTGACAAACCTCACAAA
13974365 CA
1 CA
13974367 TTCCCACTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (48 bp):
CAGGAAAAGGCAGTCTAGCCTGCTTACCAAGCTGACAAACCTCACAAA
Found at i:13977467 original size:35 final size:35
Alignment explanation
Indices: 13977421--13977492 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
13977411 TCGTATCATA
*
13977421 TTCTAAAAATTGAATGATAAAGTTCCCAAATTGAT
1 TTCTAAAAATTGAACGATAAAGTTCCCAAATTGAT
* *
13977456 TTCTAAAAATTGAACGATGAAGTTCCCGAATTGAT
1 TTCTAAAAATTGAACGATAAAGTTCCCAAATTGAT
13977491 TT
1 TT
13977493 GCCATTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (35 bp):
TTCTAAAAATTGAACGATAAAGTTCCCAAATTGAT
Found at i:13978674 original size:15 final size:14
Alignment explanation
Indices: 13978647--13978676 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
13978637 TAAATAAATT
13978647 ATTAAAAATAAAAA
1 ATTAAAAATAAAAA
13978661 ATTAAAATATAAAAA
1 ATTAAAA-ATAAAAA
13978676 A
1 A
13978677 GAAACATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATTAAAAATAAAAA
Found at i:14021013 original size:17 final size:17
Alignment explanation
Indices: 14020983--14021030 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14020973 AATTTAATTC
* *
14020983 ATTTGTTTATTTTTATTT
1 ATTTATTTA-TTTTAGTT
*
14021001 ATTTATTTATTTTCGTT
1 ATTTATTTATTTTAGTT
*
14021018 GTTTATTTATTTT
1 ATTTATTTATTTT
14021031 TATTGTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTATTTATTTTAGTT
Found at i:14021036 original size:17 final size:17
Alignment explanation
Indices: 14020988--14021037 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
14020978 AATTCATTTG
*
14020988 TTTATTTTTATTTATTTA
1 TTTATTTTTA-TTGTTTA
**
14021006 TTTATTTTCGTTGTTTA
1 TTTATTTTTATTGTTTA
14021023 TTTATTTTTATTGTT
1 TTTATTTTTATTGTT
14021038 CTTAATCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTGTTTA
Found at i:14023623 original size:3 final size:3
Alignment explanation
Indices: 14023617--14023651 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14023607 GTTGTTGTTG
14023617 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14023652 TTGTTAAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14025739 original size:2 final size:2
Alignment explanation
Indices: 14025732--14026568 Score: 1674
Period size: 2 Copynumber: 418.5 Consensus size: 2
14025722 ACACATCCAA
14025732 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14025774 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14025816 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14025858 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14025900 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14025942 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14025984 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026026 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026068 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026110 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026152 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026194 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026236 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026278 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026320 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026362 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026404 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026446 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026488 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14026530 AC AC 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 AC AC A
14026569 GTTTGCTTGG
Statistics
Matches: 835, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 835 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14029664 original size:23 final size:22
Alignment explanation
Indices: 14029616--14029665 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
14029606 TTTTTTATTT
* *
14029616 TTATTTTTAAAAATTTATTTAT
1 TTATTTTTAAAAATTTATTCAC
14029638 TTATTTTT-AAAATTTAGATTCAC
1 TTATTTTTAAAAATTT--ATTCAC
14029661 TTATT
1 TTATT
14029666 AACACTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 8 0.33
23 9 0.38
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTTTTAAAAATTTATTCAC
Found at i:14034956 original size:46 final size:44
Alignment explanation
Indices: 14034813--14034956 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
14034803 CCTGCCCATA
*
14034813 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * * *
14034860 CA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGC-CAACCATCT
14034906 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
14034952 AGTGA
1 AGTGA
14034957 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 31 0.41
47 28 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:14038175 original size:46 final size:44
Alignment explanation
Indices: 14038101--14038307 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 44
14038091 ATCGATGCTG
* * *
14038101 TGTCCCAGACAAGTCTTACACT-GACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGACGCA
*
14038147 TGTCCCAGACATGTCTTACATTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
* * * *
14038191 TGTCCCAGACATGTCTGACATTGGCTAACATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC--ACATCTCGTA-GCCGACGCA
* * * * *
14038237 TGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCACATC-T-C-GTAGCCGACGCA
14038283 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
14038308 CCTCGTCTCA
Statistics
Matches: 139, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
43 5 0.04
44 33 0.24
45 2 0.01
46 98 0.71
47 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
Found at i:14038327 original size:46 final size:45
Alignment explanation
Indices: 14038144--14038352 Score: 172
Period size: 46 Copynumber: 4.6 Consensus size: 45
14038134 CCGTGCTGAC
* * *
14038144 GCATGTCCCAGACATGTCTTACATTAG--CACATCTCGTAGCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGCTCACATCTCATA-CCGAT
* * * * **
14038188 GCATGTCCCAGACATGTCTGACATTGGCTAACATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCACATCTC-ATACCGAT
* * * * *
14038234 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCACAT-CTCAT-ACCGAT
* * *
14038280 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATACCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCACATCTC-ATACCGAT
*
14038326 GCCATGTCCCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
14038353 GGTACACAAA
Statistics
Matches: 135, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
44 25 0.19
45 2 0.01
46 82 0.61
47 16 0.12
48 10 0.07
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCACATCTCATACCGAT
Found at i:14044929 original size:16 final size:16
Alignment explanation
Indices: 14044910--14044942 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14044900 GGTAACAAGC
14044910 CCCACTCTTAAATCGG
1 CCCACTCTTAAATCGG
14044926 CCCACTCTTAAATCGG
1 CCCACTCTTAAATCGG
14044942 C
1 C
14044943 ATTCACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.39, G:0.12, T:0.24
Consensus pattern (16 bp):
CCCACTCTTAAATCGG
Found at i:14047617 original size:46 final size:46
Alignment explanation
Indices: 14047550--14047724 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
14047540 TGTAACCCGC
14047550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
14047596 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * ** * ** * *
14047646 -C-TCA-CGAACTTAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
14047689 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
14047725 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.58
47 24 0.23
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:14048316 original size:20 final size:18
Alignment explanation
Indices: 14048282--14048318 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
14048272 GCAACTCATA
14048282 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
14048300 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
14048319 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:14049997 original size:25 final size:25
Alignment explanation
Indices: 14049936--14050003 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
14049926 TTTACGAGCC
* * *
14049936 AGAATCGGTAAACTCCTCTGAGCTG
1 AGAATCGGTAAGCTCATATGAGCTG
14049961 A-AATACGGTAAGCTCATATGAGCTG
1 AGAAT-CGGTAAGCTCATATGAGCTG
*
14049986 AGAATCGGTAAGCACATA
1 AGAATCGGTAAGCTCATA
14050004 CAAGCTGTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.08
25 31 0.84
26 3 0.08
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (25 bp):
AGAATCGGTAAGCTCATATGAGCTG
Found at i:14050009 original size:25 final size:25
Alignment explanation
Indices: 14049956--14050010 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
14049946 AACTCCTCTG
* **
14049956 AGCTGAAATACGGTAAGCTCATATG
1 AGCTGAAATACGGTAAGCACATACA
14049981 AGCTGAGAAT-CGGTAAGCACATACA
1 AGCTGA-AATACGGTAAGCACATACA
14050006 AGCTG
1 AGCTG
14050011 TGGTGAGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCTGAAATACGGTAAGCACATACA
Found at i:14053766 original size:10 final size:10
Alignment explanation
Indices: 14053751--14053810 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
14053741 TAATTCTAAG
14053751 ATTTAT-TTT
1 ATTTATCTTT
14053760 CATTTATCTTT
1 -ATTTATCTTT
14053771 ATTTATCTTT
1 ATTTATCTTT
*
14053781 AATTATCTTT
1 ATTTATCTTT
14053791 ATTTAT-TTGT
1 ATTTATCTT-T
14053801 ATTTATCTTT
1 ATTTATCTTT
14053811 TAAAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:14060578 original size:4 final size:5
Alignment explanation
Indices: 14060543--14060606 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
14060533 CAACCCAATT
*
14060543 TTTTA TTATTA -TTAA TTTTA TTTTA TTTTA -TTTA TTTTA CTATTTA
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -T-TTTA
14060589 --TTA TTTTA TTATTA TTTT
1 TTTTA TTTTA TT-TTA TTTT
14060607 TTGGATGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
3 3 0.06
4 6 0.12
5 27 0.55
6 9 0.18
7 4 0.08
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:14060605 original size:26 final size:24
Alignment explanation
Indices: 14060540--14060606 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 24
14060530 AGGCAACCCA
14060540 ATTTTTTATTATTATTAATTTTATT
1 ATTTTTTATTATT-TTAATTTTATT
*
14060565 -TTATTTTATTTATTTTACTATTTATT
1 ATT-TTTTA-TTATTTTAAT-TTTATT
14060591 ATTTTATTATTATTTT
1 ATTTT-TTATTATTTT
14060607 TTGGATGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 2 0.06
25 9 0.25
26 20 0.56
27 5 0.14
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (24 bp):
ATTTTTTATTATTTTAATTTTATT
Found at i:14061100 original size:30 final size:30
Alignment explanation
Indices: 14061059--14061127 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
14061049 TAATTCTGGG
*
14061059 ATTTATTTTCATTTATCTTTATTTATCTT-C
1 ATTTATCTTCATTTATCTTTATTTAT-TTGC
*
14061089 ATTTATCTTCATTTATCTTTATTTATTTGT
1 ATTTATCTTCATTTATCTTTATTTATTTGC
14061119 ATTTATCTT
1 ATTTATCTT
14061128 TTAGTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.20, C:0.12, G:0.01, T:0.67
Consensus pattern (30 bp):
ATTTATCTTCATTTATCTTTATTTATTTGC
Found at i:14061121 original size:10 final size:10
Alignment explanation
Indices: 14061059--14061128 Score: 90
Period size: 10 Copynumber: 7.0 Consensus size: 10
14061049 TAATTCTGGG
14061059 ATTTAT-TTT
1 ATTTATCTTT
14061068 CATTTATCTTT
1 -ATTTATCTTT
*
14061079 ATTTATCTTC
1 ATTTATCTTT
*
14061089 ATTTATCTTC
1 ATTTATCTTT
14061099 ATTTATCTTT
1 ATTTATCTTT
14061109 ATTTAT-TTGT
1 ATTTATCTT-T
14061119 ATTTATCTTT
1 ATTTATCTTT
14061129 TAGTATTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.04
10 48 0.87
11 5 0.09
ACGTcount: A:0.20, C:0.11, G:0.01, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:14079007 original size:24 final size:20
Alignment explanation
Indices: 14078980--14079035 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 20
14078970 GAAAGAGAGA
14078980 AAAAAAAAAGAGAGAAAGGAGAAG
1 AAAAAAAAAGA-AG-AA-GA-AAG
14079004 AAAAAAAGAAGAAGAAGAAAG
1 AAAAAAA-AAGAAGAAGAAAG
14079025 AAAAAGAAAAG
1 AAAAA-AAAAG
14079036 GTAATGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 11 0.37
22 4 0.13
23 2 0.07
24 9 0.30
25 4 0.13
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAGAAGAAAG
Found at i:14079016 original size:21 final size:22
Alignment explanation
Indices: 14078970--14079029 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
14078960 CATCCACACC
*
14078970 GAAAGAGAGAAAAAAAAAAGAGA
1 GAAAG-GAGAAGAAAAAAAGAGA
14078993 GAAAGGAGAAGAAAAAAAGA-A
1 GAAAGGAGAAGAAAAAAAGAGA
*
14079014 G-AAGAAGAAAGAAAAA
1 GAAAGGAG-AAGAAAAA
14079030 GAAAAGGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.15
21 10 0.29
22 14 0.41
23 5 0.15
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
GAAAGGAGAAGAAAAAAAGAGA
Found at i:14079021 original size:17 final size:16
Alignment explanation
Indices: 14078994--14079032 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
14078984 AAAAAGAGAG
*
14078994 AAAGGAGAAGAAAAAA
1 AAAGAAGAAGAAAAAA
*
14079010 AGAAGAAGAAGAAAGAA
1 A-AAGAAGAAGAAAAAA
14079027 AAAGAA
1 AAAGAA
14079033 AAGGTAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAAAAA
Found at i:14079275 original size:60 final size:60
Alignment explanation
Indices: 14079195--14079313 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
14079185 TTGTTTTTTA
* * * *
14079195 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTAAAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTGTTGTGTTTG
* *
14079255 TAATTATTTTCAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTGTTGTGTTT
14079314 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTGTTGTGTTTG
Found at i:14085843 original size:38 final size:38
Alignment explanation
Indices: 14085787--14085861 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
14085777 TTATTATATG
14085787 TATAAATGCATGTGTGAAAATTTAATATTTGAATTTTT
1 TATAAATGCATGTGTGAAAATTTAATATTTGAATTTTT
* *
14085825 TATATATGCATGTGTGAAAATTTCATATTTGAATTTT
1 TATAAATGCATGTGTGAAAATTTAATATTTGAATTTT
14085862 GTTAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (38 bp):
TATAAATGCATGTGTGAAAATTTAATATTTGAATTTTT
Found at i:14087654 original size:40 final size:40
Alignment explanation
Indices: 14087594--14087765 Score: 240
Period size: 40 Copynumber: 4.3 Consensus size: 40
14087584 TATTCGAATG
* * * *
14087594 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* *
14087634 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
14087674 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * *
14087714 GTAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
14087754 ATATCC-GGCTAA
1 ATATCCGGGCTAA
14087766 ATCCCAAAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.05
40 110 0.93
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:14088661 original size:99 final size:99
Alignment explanation
Indices: 14088490--14088685 Score: 365
Period size: 99 Copynumber: 2.0 Consensus size: 99
14088480 GTGGATTTGA
* * *
14088490 AAAATCACTAAAAATAGTAGGAATGGGATTAAATAGTGAATAAATTATGTAATCGAACGTTGATG
1 AAAATCACTAAAAATAGTAGGAATGGAATTAAATAATGAATAAATTATGTAATCGAACCTTGATG
14088555 AATCTACTTTCATATGGAAGAAACGAAACGATTG
66 AATCTACTTTCATATGGAAGAAACGAAACGATTG
14088589 AAAATCACTAAAAATAGTAGGAATGGAATTAAATAATGAATAAATTATGTAATCGAACCTTGATG
1 AAAATCACTAAAAATAGTAGGAATGGAATTAAATAATGAATAAATTATGTAATCGAACCTTGATG
14088654 AATCTACTTTCATATGGAAGAAACGAAACGAT
66 AATCTACTTTCATATGGAAGAAACGAAACGAT
14088686 CATATGAGTC
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (99 bp):
AAAATCACTAAAAATAGTAGGAATGGAATTAAATAATGAATAAATTATGTAATCGAACCTTGATG
AATCTACTTTCATATGGAAGAAACGAAACGATTG
Done.