Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 268 of 295
Found at i:91734007 original size:40 final size:40
Alignment explanation
Indices: 91733956--91734129 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
91733946 TTGACGACAA
* *
91733956 TTCGACTATGTATGACACTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
* * * *
91733996 TTCGGCCATGTATGGCACTTAGTGTGCTATTTGAGATAGC
1 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
* *
91734036 TTCGGCTAGGTATGACACTTAGTGTGCAATCCGAGATAGC
1 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
* * * *
91734076 TTCGGCTATGTATGGCACTTAGTGTGTGAGATT-AAAATAGC
1 TTCGGCTATGTATGACACTTAGTGTG-CA-ATTCGAGATAGC
91734117 TTCGGCTATGTAT
1 TTCGGCTATGTAT
91734130 TGGCATTTAG
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 93 0.81
41 20 0.17
42 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
Found at i:91736828 original size:15 final size:17
Alignment explanation
Indices: 91736808--91736843 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
91736798 AAATCCCTAA
91736808 TTCTCC-TTC-TTTTCT
1 TTCTCCTTTCTTTTTCT
91736823 TTCTCCTTTCTTTTTCT
1 TTCTCCTTTCTTTTTCT
91736840 TTCT
1 TTCT
91736844 ATTCTTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 3 0.16
17 10 0.53
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTCCTTTCTTTTTCT
Found at i:91736848 original size:26 final size:25
Alignment explanation
Indices: 91736818--91736897 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
91736808 TTCTCCTTCT
91736818 TTTCTTTCTCCTTTCTTTTTCTTTC
1 TTTCTTTCTCCTTTCTTTTTCTTTC
* * *
91736843 TATTCTTTCTCTATTTC-GTTTCTTTG
1 T-TTCTTTCTC-CTTTCTTTTTCTTTC
*
91736869 TTTCTTTC-CCGTTTCTATTTTATTTC
1 TTTCTTTCTCC-TTTCT-TTTTCTTTC
91736895 TTT
1 TTT
91736898 TATTCTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
24 5 0.12
25 8 0.19
26 26 0.60
27 4 0.09
ACGTcount: A:0.05, C:0.23, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTCTTTCTCCTTTCTTTTTCTTTC
Found at i:91736859 original size:21 final size:19
Alignment explanation
Indices: 91736828--91736875 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
91736818 TTTCTTTCTC
91736828 CTTTCTTTTTC-TTTCTATT
1 CTTTCTTTTTCGTTTCT-TT
91736847 CTTTCTCTATTTCGTTTCTTT
1 CTTTCT-T-TTTCGTTTCTTT
*
91736868 GTTTCTTT
1 CTTTCTTT
91736876 CCCGTTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.71
Consensus pattern (19 bp):
CTTTCTTTTTCGTTTCTTT
Found at i:91736923 original size:5 final size:5
Alignment explanation
Indices: 91736913--91736947 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
91736903 TTTAATTATA
91736913 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
91736948 TATATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:91737762 original size:23 final size:21
Alignment explanation
Indices: 91737736--91737777 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
91737726 CTCAACTTGG
91737736 TAGTTGTAGCTAGTAGTTTTTTT
1 TAGTTGTA-CTA-TAGTTTTTTT
*
91737759 TAGTTTTACTATAGTTTTT
1 TAGTTGTACTATAGTTTTT
91737778 ACTTCTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.19, C:0.05, G:0.17, T:0.60
Consensus pattern (21 bp):
TAGTTGTACTATAGTTTTTTT
Found at i:91738463 original size:19 final size:19
Alignment explanation
Indices: 91738439--91738476 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
91738429 TGTCCTTTTT
91738439 CAGATACAG-AAATCAGAAA
1 CAGATA-AGCAAATCAGAAA
*
91738458 CAGATATGCAAATCAGAAA
1 CAGATAAGCAAATCAGAAA
91738477 TACAGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (19 bp):
CAGATAAGCAAATCAGAAA
Found at i:91739071 original size:23 final size:23
Alignment explanation
Indices: 91739045--91739095 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
91739035 CGCCCAACTT
91739045 GGCCATGCTCGTGTGGCCCACAC
1 GGCCATGCTCGTGTGGCCCACAC
91739068 GGCCATGCTCGTGTGGCCCACAC
1 GGCCATGCTCGTGTGGCCCACAC
91739091 GGCCA
1 GGCCA
91739096 CACTTGAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.16
Consensus pattern (23 bp):
GGCCATGCTCGTGTGGCCCACAC
Found at i:91744908 original size:114 final size:114
Alignment explanation
Indices: 91744708--91744933 Score: 434
Period size: 114 Copynumber: 2.0 Consensus size: 114
91744698 TATGGCGCCA
91744708 CTCTAGGATTTCATTTCGTAGTACCATGACCAAAATTAACTTATGCTTCCAATATCTCTTCCAAA
1 CTCTAGGATTTCATTTCGTAGTACCATGACCAAAATTAACTTATGCTTCCAATATCTCTTCCAAA
91744773 TTTATGTTCCAATATCTTCTTACCGTTTCTCTTTGCACTCTCACTCACT
66 TTTATGTTCCAATATCTTCTTACCGTTTCTCTTTGCACTCTCACTCACT
91744822 CTCTAGGATTTCATTTCGTAGTACCATGACCAAAATTAACTTATGCTTCCAATATCTCTTCCAAA
1 CTCTAGGATTTCATTTCGTAGTACCATGACCAAAATTAACTTATGCTTCCAATATCTCTTCCAAA
* *
91744887 TTTATGTTCTAATATCTTCTTACCGTTTTTCTTTGCACTCTCACTCA
66 TTTATGTTCCAATATCTTCTTACCGTTTCTCTTTGCACTCTCACTCA
91744934 TTCACTCTCT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 110 1.00
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.41
Consensus pattern (114 bp):
CTCTAGGATTTCATTTCGTAGTACCATGACCAAAATTAACTTATGCTTCCAATATCTCTTCCAAA
TTTATGTTCCAATATCTTCTTACCGTTTCTCTTTGCACTCTCACTCACT
Found at i:91744949 original size:6 final size:6
Alignment explanation
Indices: 91744938--91745414 Score: 394
Period size: 6 Copynumber: 80.8 Consensus size: 6
91744928 CACTCATTCA
* * * *
91744938 CTCTCT CACTCT CTCTCT CTCTCT CCCTCT CTCTCT CCCTCT CTCCCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * *
91744986 CTCTCT CTCCCC CTCTCT C-CCCC CTCTCT CTCTCT CCCTCT CTCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * *
91745033 CCCTCT CTCTCT -TC-CC CCCTCT CTCCCT CTCTCG CTCTCT CTCTCC
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * *
91745079 CTCTCC CTCCCT CTCTCT CCCTTT CCCTCC CTCTCT CCCTCT CTCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * *
91745127 CTCTCA CTCTCT CTCTCC CTCTCT CTCTCA CTCCCT CTCTCC CTCTCC
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * *
91745175 CTCTCT CCCTCG CTCTCT CTC-CC CTCTCT CTCTCC CTCTCC CTCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * *
91745222 CTCTCT CTCGCT TTCGCT CTCTCC CTCTCC CTCTCT CTCCCT CTCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * * *
91745270 CCCTCG CTCTCT CTCGCT CTCTCT CTCCCT CTCCCT CCCTCT CGCCCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * *
91745318 CTCTCT CCCTCT CCCTCT CCCTCT CCCTCT CT-TC- CCCTCC CTCCCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* *
91745364 CCCTC- CT-TCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CCCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
91745410 CTCTC
1 CTCTC
91745415 AATATTGTTA
Statistics
Matches: 373, Mismatches: 90, Indels: 16
0.78 0.19 0.03
Matches are distributed among these distances:
4 4 0.01
5 17 0.05
6 352 0.94
ACGTcount: A:0.01, C:0.59, G:0.01, T:0.39
Consensus pattern (6 bp):
CTCTCT
Found at i:91744953 original size:10 final size:10
Alignment explanation
Indices: 91744938--91745414 Score: 394
Period size: 10 Copynumber: 48.5 Consensus size: 10
91744928 CACTCATTCA
*
91744938 CTCTCTCACT
1 CTCTCTCTCT
91744948 CTCTCTCTCT
1 CTCTCTCTCT
*
91744958 CTCTCCCTCT
1 CTCTCTCTCT
*
91744968 CTCTCTCCCT
1 CTCTCTCTCT
*
91744978 CTCTCCCTCT
1 CTCTCTCTCT
* *
91744988 CTCTCTCCCC
1 CTCTCTCTCT
*
91744998 CTCTCTC-CC
1 CTCTCTCTCT
*
91745007 CCCTCTCTCT
1 CTCTCTCTCT
*
91745017 CTCTCCCTCT
1 CTCTCTCTCT
*
91745027 CTCTCTCCCT
1 CTCTCTCTCT
91745037 CTCTCTCT-T
1 CTCTCTCTCT
* *
91745046 C-CCCCCTCT
1 CTCTCTCTCT
*
91745055 CTCCCTCTCT
1 CTCTCTCTCT
*
91745065 CGCTCTCTCT
1 CTCTCTCTCT
* *
91745075 CTCCCTCTCC
1 CTCTCTCTCT
*
91745085 CTCCCTCTCT
1 CTCTCTCTCT
* * *
91745095 CTCCCTTTCC
1 CTCTCTCTCT
*
91745105 CTCCCTCTCT
1 CTCTCTCTCT
*
91745115 CCCTCTCTCT
1 CTCTCTCTCT
*
91745125 CTCTCTCACT
1 CTCTCTCTCT
*
91745135 CTCTCTCTCC
1 CTCTCTCTCT
91745145 CTCTCTCTCT
1 CTCTCTCTCT
* *
91745155 CACTCCCTCT
1 CTCTCTCTCT
* *
91745165 CTCCCTCTCC
1 CTCTCTCTCT
*
91745175 CTCTCTCCCT
1 CTCTCTCTCT
*
91745185 CGCTCTCTCT
1 CTCTCTCTCT
*
91745195 C-CCCTCTCT
1 CTCTCTCTCT
*
91745204 CTCTCCCTCT
1 CTCTCTCTCT
*
91745214 CCCTCTCTCT
1 CTCTCTCTCT
*
91745224 CTCTCTCGCT
1 CTCTCTCTCT
* *
91745234 TTCGCTCTCT
1 CTCTCTCTCT
* *
91745244 CCCTCTCCCT
1 CTCTCTCTCT
*
91745254 CTCTCTCCCT
1 CTCTCTCTCT
*
91745264 CTCTCTCCCT
1 CTCTCTCTCT
*
91745274 CGCTCTCTCT
1 CTCTCTCTCT
*
91745284 CGCTCTCTCT
1 CTCTCTCTCT
* *
91745294 CTCCCTCTCC
1 CTCTCTCTCT
* *
91745304 CTCCCTCTCG
1 CTCTCTCTCT
*
91745314 CCCTCTCTCT
1 CTCTCTCTCT
* *
91745324 CCCTCTCCCT
1 CTCTCTCTCT
* *
91745334 CTCCCTCTCC
1 CTCTCTCTCT
91745344 CTCTCT-TC-
1 CTCTCTCTCT
* * *
91745352 CCCTCCCTCC
1 CTCTCTCTCT
*
91745362 CTCCCTC-CT
1 CTCTCTCTCT
91745371 -TCTCTCTCT
1 CTCTCTCTCT
91745380 CTCTCTCTCT
1 CTCTCTCTCT
91745390 CTCTCTCTCT
1 CTCTCTCTCT
*
91745400 CTCTCCCTCT
1 CTCTCTCTCT
91745410 CTCTC
1 CTCTC
91745415 AATATTGTTA
Statistics
Matches: 374, Mismatches: 85, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
8 13 0.03
9 27 0.07
10 334 0.89
ACGTcount: A:0.01, C:0.59, G:0.01, T:0.39
Consensus pattern (10 bp):
CTCTCTCTCT
Found at i:91744953 original size:12 final size:12
Alignment explanation
Indices: 91744940--91745414 Score: 435
Period size: 12 Copynumber: 38.8 Consensus size: 12
91744930 CTCATTCACT
* *
91744940 CTCTCACTCTCT
1 CTCTCTCTCTCC
91744952 CTCTCTCTCTCC
1 CTCTCTCTCTCC
91744964 CTCTCTCTCTCC
1 CTCTCTCTCTCC
*
91744976 CTCTCTC-C-CT
1 CTCTCTCTCTCC
*
91744986 CTCTCTCTCCCC
1 CTCTCTCTCTCC
* *
91744998 CTCTCTCCCCCC
1 CTCTCTCTCTCC
91745010 TCTCTCTCTCTCC
1 -CTCTCTCTCTCC
91745023 CTCTCTCTCTCC
1 CTCTCTCTCTCC
91745035 CTCTCTCTCTTCC
1 CTCTCTCTC-TCC
*
91745048 C-CCCTCTCTCC
1 CTCTCTCTCTCC
*
91745059 CTCTCTCGCTCTCT
1 CTCTCT--CTCTCC
*
91745073 CTCTCCCTCTCC
1 CTCTCTCTCTCC
91745085 CTCCCTCTCTCTCC
1 CT--CTCTCTCTCC
*
91745099 CT-T-TCCCTCC
1 CTCTCTCTCTCC
* *
91745109 CTCTCTCCCTCT
1 CTCTCTCTCTCC
*
91745121 CTCTCTCTCTCA
1 CTCTCTCTCTCC
91745133 CTCTCTCTCTCC
1 CTCTCTCTCTCC
*
91745145 CTCTCTCTCTCA
1 CTCTCTCTCTCC
*
91745157 CTCCCTCTCTCC
1 CTCTCTCTCTCC
91745169 CTCTCCCTCTCTCC
1 CTCT--CTCTCTCC
91745183 CTCGCTCTCTCTCCC
1 CT--CTCTCTCT-CC
91745198 CTCTCTCTCTCC
1 CTCTCTCTCTCC
* *
91745210 CTCTCCCTCTCT
1 CTCTCTCTCTCC
* *
91745222 CTCTCTCTCGCT
1 CTCTCTCTCTCC
* *
91745234 TTCGCTCTCTCC
1 CTCTCTCTCTCC
91745246 CTCTCCCTCTCTCTC
1 CTCT--CTCTCTC-C
91745261 C-CTCTCTCTCC
1 CTCTCTCTCTCC
*
91745272 CTCGCTCTCTCTCG
1 CT--CTCTCTCTCC
91745286 CTCTCTCTCTCC
1 CTCTCTCTCTCC
91745298 CTCTC-C-CTCC
1 CTCTCTCTCTCC
* * *
91745308 CTCTCGCCCTCT
1 CTCTCTCTCTCC
*
91745320 CTCTCCCTCTCC
1 CTCTCTCTCTCC
*
91745332 CTCTCCCTCTCC
1 CTCTCTCTCTCC
*
91745344 CTCTCTTCCCCTCC
1 CTCTC-T-CTCTCC
* *
91745358 CTCCCTCCCTCC
1 CTCTCTCTCTCC
* *
91745370 TTCTCTCTCTCT
1 CTCTCTCTCTCC
*
91745382 CTCTCTCTCTCT
1 CTCTCTCTCTCC
91745394 CTCTCTCTCTCC
1 CTCTCTCTCTCC
91745406 CTCTCTCTC
1 CTCTCTCTC
91745415 AATATTGTTA
Statistics
Matches: 390, Mismatches: 47, Indels: 52
0.80 0.10 0.11
Matches are distributed among these distances:
10 25 0.06
11 12 0.03
12 256 0.66
13 23 0.06
14 66 0.17
15 6 0.02
16 2 0.01
ACGTcount: A:0.01, C:0.59, G:0.01, T:0.39
Consensus pattern (12 bp):
CTCTCTCTCTCC
Found at i:91745482 original size:71 final size:71
Alignment explanation
Indices: 91745400--91745541 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
91745390 CTCTCTCTCT
91745400 CTCTCCCTCTCTCTCAATATTGTTAACTCTTATGTCAAACATAATTTGAACATAAAAATTATTTT
1 CTCTCCCTCTCTCTCAATATTGTTAACTCTTATGTCAAACATAATTTGAACATAAAAATTATTTT
91745465 TTCAAA
66 TTCAAA
*
91745471 CTCTCTCTCTCTCTCAATATTGTTAACTCTTATGTCAAACATAATTTGAACATAAAAATTATTTT
1 CTCTCCCTCTCTCTCAATATTGTTAACTCTTATGTCAAACATAATTTGAACATAAAAATTATTTT
91745536 TTCAAA
66 TTCAAA
91745542 AAATAAATAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (71 bp):
CTCTCCCTCTCTCTCAATATTGTTAACTCTTATGTCAAACATAATTTGAACATAAAAATTATTTT
TTCAAA
Found at i:91747511 original size:20 final size:19
Alignment explanation
Indices: 91747486--91747525 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
91747476 AATTAGATTT
91747486 ATTTAAATTAAAAATATGAA
1 ATTTAAATTAAAAATA-GAA
91747506 ATTTAAATTAAAAATAGAA
1 ATTTAAATTAAAAATAGAA
91747525 A
1 A
91747526 AATTATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTTAAATTAAAAATAGAA
Found at i:91748964 original size:22 final size:21
Alignment explanation
Indices: 91748924--91748964 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
91748914 AAAATAAAAA
* *
91748924 AAAATATTAACTATTTTAATT
1 AAAATATTAACAATATTAATT
91748945 AAAATAATTAACAATATTAA
1 AAAAT-ATTAACAATATTAA
91748965 CTATTTGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATATTAACAATATTAATT
Found at i:91750460 original size:3 final size:3
Alignment explanation
Indices: 91750454--91750520 Score: 71
Period size: 3 Copynumber: 22.3 Consensus size: 3
91750444 TAATAATAAT
* * * * *
91750454 ATG ATG ATG ATG AAG GTG ATG GTG ATG GTG ATG GTG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* *
91750502 ATT ATC ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG A
91750521 AGAAATATAT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.30, C:0.01, G:0.36, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:91752104 original size:21 final size:21
Alignment explanation
Indices: 91752063--91752107 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
91752053 TTTAAAGCAT
*
91752063 GAAAAAGATATAAATATAAAA
1 GAAAAAGATATAAATAAAAAA
*
91752084 GAAAAA-ATATATATTAAAAAA
1 GAAAAAGATATA-AATAAAAAA
91752105 GAA
1 GAA
91752108 TATTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (21 bp):
GAAAAAGATATAAATAAAAAA
Found at i:91773185 original size:23 final size:21
Alignment explanation
Indices: 91773155--91773231 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 21
91773145 GCTTACTATT
91773155 TTTAGCTCATTGGAGCTTACCG
1 TTTAGCTCATT-GAGCTTACCG
* *
91773177 ATTTAGCTCGTATGAGCTTACTG
1 -TTTAGCTCAT-TGAGCTTACCG
* *
91773200 TTCAGCTCGATAGAGCTTACCG
1 TTTAGCTC-ATTGAGCTTACCG
91773222 TTTCAGCTCA
1 TTT-AGCTCA
91773232 ATAAAGCTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 19 0.43
23 24 0.55
24 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (21 bp):
TTTAGCTCATTGAGCTTACCG
Found at i:91773215 original size:22 final size:23
Alignment explanation
Indices: 91773167--91773242 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
91773157 TAGCTCATTG
*
91773167 GAGCTTACCGATTTAGCTCG-TA
1 GAGCTTACCGATTCAGCTCGATA
*
91773189 TGAGCTTACTG-TTCAGCTCGATA
1 -GAGCTTACCGATTCAGCTCGATA
* *
91773212 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCGATA
*
91773235 AAGCTTAC
1 GAGCTTAC
91773243 TGTTTATCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 17 0.37
23 29 0.63
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCTCGATA
Found at i:91773239 original size:23 final size:23
Alignment explanation
Indices: 91773191--91773256 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
91773181 AGCTCGTATG
* *
91773191 AGCTTACTG-TTCAGCTCGATAG
1 AGCTTACTGTTTCAGCTCAATAA
*
91773213 AGCTTACCGTTTCAGCTCAATAA
1 AGCTTACTGTTTCAGCTCAATAA
91773236 AGCTTACTGTTTATCAGCTCA
1 AGCTTACTG-TT-TCAGCTCA
91773257 GAAGGAGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 8 0.22
23 19 0.51
24 2 0.05
25 8 0.22
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCAATAA
Found at i:91773473 original size:20 final size:20
Alignment explanation
Indices: 91773426--91773475 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
91773416 GAAATGAATG
* * * *
91773426 AATTACTATAGATACGGATG
1 AATTACTGTTGATACAGATA
91773446 AATTACTGTTGATACAGATA
1 AATTACTGTTGATACAGATA
91773466 AATTACTGTT
1 AATTACTGTT
91773476 ATTATTGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (20 bp):
AATTACTGTTGATACAGATA
Found at i:91773489 original size:20 final size:20
Alignment explanation
Indices: 91773442--91773519 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
91773432 TATAGATACG
91773442 GATGAATTACTGTTGA-TACA
1 GATGAATTACTGTT-ATTACA
* **
91773462 GATAAATTACTGTTATTATT
1 GATGAATTACTGTTATTACA
91773482 GATGAATTACTGGTTA-TACA
1 GATGAATTACT-GTTATTACA
* *
91773502 GATGGACTACTAGTTATT
1 GATGAATTACT-GTTATT
91773520 TGAATGAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.87
21 5 0.11
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (20 bp):
GATGAATTACTGTTATTACA
Found at i:91773530 original size:40 final size:40
Alignment explanation
Indices: 91773442--91773519 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
91773432 TATAGATACG
*
91773442 GATGAATTACTGTTGATACAGATAAATTACTGTTATTATT
1 GATGAATTACTGTTGATACAGATAAACTACTGTTATTATT
**
91773482 GATGAATTACTGGTT-ATACAGATGGACTACTAGTTATT
1 GATGAATTACT-GTTGATACAGATAAACTACT-GTTATT
91773520 TGAATGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 24 0.73
41 9 0.27
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (40 bp):
GATGAATTACTGTTGATACAGATAAACTACTGTTATTATT
Found at i:91778568 original size:22 final size:24
Alignment explanation
Indices: 91778543--91778586 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
91778533 GGCACGTGAT
91778543 TTTTTGTTC-TGT-TTCTTCTTGG
1 TTTTTGTTCTTGTGTTCTTCTTGG
91778565 TTTTTGTTCTTGTGTTCTTCTT
1 TTTTTGTTCTTGTGTTCTTCTT
91778587 TTTGCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (24 bp):
TTTTTGTTCTTGTGTTCTTCTTGG
Found at i:91779949 original size:68 final size:68
Alignment explanation
Indices: 91779823--91779951 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 68
91779813 ACGTACCATT
* * *
91779823 ATCTGATCTGGCAATTATACTACATGTCTGTTCCGCGGTTCACTGCATTGCACAGTACAGCATAT
1 ATCTGAACTAGCAATTATACTACATGTCTGTTCCGCGGTTCACTGCATGGCACAGTACAGCATAT
91779888 AAG
66 AAG
* * ** *
91779891 ATCTGAACTAGCAGTTATACTGCATGTCTGTAT-CGCGG-TCTTTCGCATGGCACCGTACAGC
1 ATCTGAACTAGCAATTATACTACATGTCTGT-TCCGCGGTTCACT-GCATGGCACAGTACAGC
91779952 TTACTGATAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
67 3 0.06
68 47 0.92
69 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (68 bp):
ATCTGAACTAGCAATTATACTACATGTCTGTTCCGCGGTTCACTGCATGGCACAGTACAGCATAT
AAG
Found at i:91785057 original size:17 final size:18
Alignment explanation
Indices: 91785021--91785060 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
91785011 AAAATTGATT
*
91785021 TTAAATTAATTTCTATTA
1 TTAATTTAATTTCTATTA
91785039 TTAATTTAATTTCTA-TA
1 TTAATTTAATTTCTATTA
91785056 TTAAT
1 TTAAT
91785061 AGAAAGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTTAATTTCTATTA
Found at i:91787637 original size:16 final size:16
Alignment explanation
Indices: 91787609--91787653 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
91787599 CGGCAAAAGC
*
91787609 CGAAATGCCGAAATG-
1 CGAAAAGCCGAAATGT
*
91787624 CTGAAAAGCTGAAATGT
1 C-GAAAAGCCGAAATGT
91787641 CGAAAAGCCGAAA
1 CGAAAAGCCGAAA
91787654 GTTTGGCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.13
Consensus pattern (16 bp):
CGAAAAGCCGAAATGT
Found at i:91787653 original size:24 final size:24
Alignment explanation
Indices: 91787603--91787653 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
91787593 ATGAATCGGC
* *
91787603 AAAAGCCGAAATGCCGAAATGCTG
1 AAAAGCCGAAATGCCGAAAAGCCG
* *
91787627 AAAAGCTGAAATGTCGAAAAGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
91787651 AAA
1 AAA
91787654 GTTTGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:91787920 original size:29 final size:28
Alignment explanation
Indices: 91787864--91787979 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 28
91787854 GTAAGCATGA
* * *
91787864 ATATGAATGTGA-CTGGGCTTAACGGGCC
1 ATATAAATGTGATTTGGGC-TAATGGGCC
91787892 ATATAAATGTGATTTGGGTCTAATGGGCC
1 ATATAAATGTGATTTGGG-CTAATGGGCC
* * * *
91787921 ATCTATAGGTGATTTGGGCCTAAAGGGGCC
1 ATATAAATGTGATTTGGG-CT-AATGGGCC
* *
91787951 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGC-TAATGGGCC
91787979 A
1 A
91787980 GATACAGGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 20 0.29
29 35 0.50
30 15 0.21
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCTAATGGGCC
Found at i:91790142 original size:5 final size:5
Alignment explanation
Indices: 91790116--91790173 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
91790106 ATGTGTTAAA
* *
91790116 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
91790165 ATATT ATAT
1 ATATT ATAT
91790174 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:91790152 original size:10 final size:9
Alignment explanation
Indices: 91790117--91790174 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
91790107 TGTGTTAAAA
91790117 TATATATAT
1 TATATATAT
*
91790126 TAAAT-TAT
1 TATATATAT
91790134 TAT-TATAT
1 TATATATAT
91790142 TATAGTATAT
1 TATA-TATAT
91790152 TATAT-TA-
1 TATATATAT
91790159 TATATTATAT
1 TATA-TATAT
91790169 TATATA
1 TATATA
91790175 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:91790164 original size:12 final size:12
Alignment explanation
Indices: 91790119--91790174 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
91790109 TGTTAAAATA
*
91790119 TATATATTAAAT
1 TATATATTATAT
91790131 TAT-TATTATATT
1 TATATATTATA-T
91790143 ATAGTATATTATAT
1 -TA-TATATTATAT
91790157 TATATATTATAT
1 TATATATTATAT
91790169 TATATA
1 TATATA
91790175 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:91791500 original size:2 final size:2
Alignment explanation
Indices: 91791495--91791524 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91791485 TATTTATATA
91791495 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
91791525 AATGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:91791698 original size:15 final size:15
Alignment explanation
Indices: 91791680--91791736 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
91791670 TATCTGTTTT
91791680 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
91791695 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
91791710 ATTGAATTTATATTG
1 ATTGAATTTATATTG
91791725 ATTGAA-TTATAT
1 ATTGAATTTATAT
91791737 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:91791715 original size:30 final size:28
Alignment explanation
Indices: 91791676--91791734 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
91791666 TGAATATCTG
91791676 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
91791705 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
91791734 T
1 T
91791735 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:91792139 original size:23 final size:23
Alignment explanation
Indices: 91792109--91792195 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
91792099 GCTTTATCGA
* *
91792109 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
91792132 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
91792153 TCAGGTACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
91792175 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
91792196 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 33 0.62
22 2 0.04
23 18 0.34
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:91793724 original size:42 final size:41
Alignment explanation
Indices: 91793672--91793797 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 41
91793662 ATGGATTCCG
*
91793672 GTATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
1 GTATATGATTTCGTGTAAGACC-CGTCTGGGACATTGGCATC
* * *
91793714 GTATATGATTTCGTGTAAGACCCTCTCTTGGACAGTGGCATC
1 GTATATGATTTCGTGTAAGACCC-GTCTGGGACATTGGCATC
* * * *
91793756 GATATTTAATTACATGTAAGACCTCGTCTGGGACATTGGCAT
1 G-TATATGATTTCGTGTAAGACC-CGTCTGGGACATTGGCAT
91793798 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 37 0.53
43 31 0.44
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (41 bp):
GTATATGATTTCGTGTAAGACCCGTCTGGGACATTGGCATC
Found at i:91793790 original size:43 final size:42
Alignment explanation
Indices: 91793685--91793797 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
91793675 TGTGATTTCG
* * * *
91793685 TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCTCGTCTGGGACATTGGCATCGTATATAATTACA
* * *
91793727 TGTAAGACCCTC-TCTTGGACAGTGGCATCGATATTTAATTACA
1 TGTAAGA-CCTCGTCTGGGACATTGGCATCG-TATATAATTACA
91793770 TGTAAGACCTCGTCTGGGACATTGGCAT
1 TGTAAGACCTCGTCTGGGACATTGGCAT
91793798 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCTCGTCTGGGACATTGGCATCGTATATAATTACA
Found at i:91801696 original size:42 final size:42
Alignment explanation
Indices: 91801586--91801748 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
91801576 CCGGTATGTA
* * *
91801586 ATTTCGTGTAAGACCATATTTGGGACATTGGCATC-CATTTGAG
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTT--G
*
91801629 ATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATG
1 ATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTG
* * * *
91801672 ATTTCGTGTAAGACCTTGTATGGGACAGTGGCATCGATATTTA
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTG
* * *
91801715 ATTACATGTAAGACC-TCGTCTGGGACGTTGGCAT
1 ATTTCGTGTAAGACCAT-GTCTGGGACATTGGCAT
91801749 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
42 30 0.29
43 40 0.39
44 29 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTG
Found at i:91801739 original size:43 final size:41
Alignment explanation
Indices: 91801631--91801748 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 41
91801621 CATTTGAGAT
* *
91801631 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACC-TGTCTGGGACAGTGGCATCGTATATAA
* * *
91801673 TTTCGTGTAAGACCTTGTATGGGACAGTGGCATCGATATTTAA
1 TTACGTGTAAGACC-TGTCTGGGACAGTGGCATCG-TATATAA
*
91801716 TTACATGTAAGACCTCGTCTGGGAC-GTTGGCAT
1 TTACGTGTAAGACCT-GTCTGGGACAG-TGGCAT
91801749 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 33 0.52
43 31 0.48
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TTACGTGTAAGACCTGTCTGGGACAGTGGCATCGTATATAA
Found at i:91804537 original size:48 final size:49
Alignment explanation
Indices: 91804481--91804580 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
91804471 AAACCCACTC
*
91804481 ATTGTTCAAC-TTTTTTTTCTTGTTAATTTTGAATTTATTAAATAGTGT
1 ATTGTTCAACTTTTTTTTTCTTGTTAATTTTAAATTTATTAAATAGTGT
91804529 ATTGTTCAACTTTTTTTTTCTTGTTAATTTTAAATTTATTAAATAGTGT
1 ATTGTTCAACTTTTTTTTTCTTGTTAATTTTAAATTTATTAAATAGTGT
91804578 ATT
1 ATT
91804581 TCTATTTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 10 0.20
49 40 0.80
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (49 bp):
ATTGTTCAACTTTTTTTTTCTTGTTAATTTTAAATTTATTAAATAGTGT
Found at i:91804623 original size:20 final size:20
Alignment explanation
Indices: 91804598--91804635 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
91804588 ATGGACTTTG
*
91804598 TTAATGAGTATTTTATATAA
1 TTAATGAATATTTTATATAA
91804618 TTAATGAATATTTTATAT
1 TTAATGAATATTTTATAT
91804636 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TTAATGAATATTTTATATAA
Found at i:91805642 original size:26 final size:26
Alignment explanation
Indices: 91805605--91805688 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
91805595 TGATACAAAT
*
91805605 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91805631 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91805657 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91805683 TGATAA
1 TGATAA
91805689 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:91807197 original size:26 final size:26
Alignment explanation
Indices: 91807168--91807220 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
91807158 TTTACAGTTT
91807168 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
91807194 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
91807220 T
1 T
91807221 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:91808887 original size:12 final size:12
Alignment explanation
Indices: 91808870--91808897 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
91808860 ACTCGGGGAA
91808870 GAGGCCGTGGTC
1 GAGGCCGTGGTC
91808882 GAGGCCGTGGTC
1 GAGGCCGTGGTC
91808894 GAGG
1 GAGG
91808898 TCGAGGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.54, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:91810611 original size:24 final size:24
Alignment explanation
Indices: 91810564--91810613 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
91810554 TAGGACTGTA
* *
91810564 AAGGAGTTCCAAGATGTTTTTCCG
1 AAGGAGTTCCAAGATGTGTCTCCG
91810588 AAGGAGCTTCCAAGAT-TGTCTCCG
1 AAGGAG-TTCCAAGATGTGTCTCCG
91810612 AA
1 AA
91810614 CCGAGAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (24 bp):
AAGGAGTTCCAAGATGTGTCTCCG
Found at i:91812532 original size:26 final size:26
Alignment explanation
Indices: 91812495--91812578 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
91812485 TGATACAAAT
* *
91812495 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91812521 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91812547 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91812573 TGATAA
1 TGATAA
91812579 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:91814091 original size:26 final size:26
Alignment explanation
Indices: 91814062--91814114 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
91814052 TTTACAGTTT
91814062 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
91814088 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
91814114 T
1 T
91814115 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:91818811 original size:12 final size:12
Alignment explanation
Indices: 91818794--91818819 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91818784 TTTATTTTTA
91818794 AAATATATTAAT
1 AAATATATTAAT
91818806 AAATATATTAAT
1 AAATATATTAAT
91818818 AA
1 AA
91818820 TAAATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATATTAAT
Found at i:91820261 original size:22 final size:21
Alignment explanation
Indices: 91820211--91820261 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
91820201 TAAAAGAAAT
91820211 ATAAATATATAAATATAAGAA
1 ATAAATATATAAATATAAGAA
* *
91820232 AGATAATATATTATAATGTAA-AA
1 ATA-AATATA-TA-AATATAAGAA
91820255 ATAAATA
1 ATAAATA
91820262 ATACTAGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 10 0.42
23 6 0.25
24 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATAAATATATAAATATAAGAA
Found at i:91820547 original size:7 final size:7
Alignment explanation
Indices: 91820535--91820604 Score: 81
Period size: 7 Copynumber: 9.9 Consensus size: 7
91820525 TATATGACAT
91820535 TTTAAAA
1 TTTAAAA
91820542 TTTAAAA
1 TTTAAAA
91820549 TTTAAAAA
1 TTT-AAAA
91820557 TATTAATAA
1 T-TTAA-AA
91820566 -TT-AAA
1 TTTAAAA
*
91820571 TTTAAAT
1 TTTAAAA
91820578 TTTAAAA
1 TTTAAAA
91820585 TTTAAAA
1 TTTAAAA
91820592 TTTAAAA
1 TTTAAAA
*
91820599 ATTAAA
1 TTTAAA
91820605 GAGATTAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
5 2 0.04
6 3 0.05
7 39 0.71
8 7 0.13
9 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:91820569 original size:16 final size:15
Alignment explanation
Indices: 91820533--91820601 Score: 74
Period size: 15 Copynumber: 4.7 Consensus size: 15
91820523 ACTATATGAC
*
91820533 ATTTTAAAATTTAAA
1 ATTTAAAAATTTAAA
91820548 ATTTAAAAATATTAATA
1 ATTTAAAAAT-TTAA-A
91820565 A-TT--AAATTT-AA
1 ATTTAAAAATTTAAA
*
91820576 ATTTTAAAATTTAAA
1 ATTTAAAAATTTAAA
91820591 ATTTAAAAATT
1 ATTTAAAAATT
91820602 AAAGAGATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
11 2 0.04
12 3 0.07
13 2 0.04
14 10 0.22
15 21 0.46
16 6 0.13
17 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAAAAATTTAAA
Found at i:91820612 original size:43 final size:44
Alignment explanation
Indices: 91820533--91820629 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 44
91820523 ACTATATGAC
* *
91820533 ATTTTAAAATTTAAAATTTAAAAATATTAATAATTAAATT-TAA
1 ATTTTAAAATTTAAAATTTAAAAATATAAAGAATTAAATTCTAA
91820576 ATTTTAAAATTTAAAATTTAAAAAT-TAAAGAGATTAAATTGCTAA
1 ATTTTAAAATTTAAAATTTAAAAATATAAAGA-ATTAAATT-CTAA
*
91820621 ATTTCAAAA
1 ATTTTAAAA
91820630 AGTAGAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
42 4 0.08
43 33 0.69
45 11 0.23
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (44 bp):
ATTTTAAAATTTAAAATTTAAAAATATAAAGAATTAAATTCTAA
Found at i:91825584 original size:22 final size:22
Alignment explanation
Indices: 91825556--91825597 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
91825546 TAAATAAACC
*
91825556 AAATAAACTTT-ATTTCTGTAGA
1 AAATAAA-TTTAATATCTGTAGA
91825578 AAATAAATTTAATATCTGTA
1 AAATAAATTTAATATCTGTA
91825598 AATTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATAAATTTAATATCTGTAGA
Found at i:91829778 original size:22 final size:22
Alignment explanation
Indices: 91829750--91829799 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
91829740 AAATCCATAA
*
91829750 AATTCAAAAAGAA-AAATGAATC
1 AATTCAAAAAGAATAAA-AAATC
*
91829772 AATTCAAAAATAATAAAAAATC
1 AATTCAAAAAGAATAAAAAATC
91829794 AATTCA
1 AATTCA
91829800 TTCTCAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.22
Consensus pattern (22 bp):
AATTCAAAAAGAATAAAAAATC
Found at i:91841230 original size:13 final size:13
Alignment explanation
Indices: 91841183--91841230 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
91841173 TTTTAAGTAT
91841183 TAAAATTTTATAAA
1 TAAAA-TTTATAAA
*
91841197 TAAAATTTGTAAA
1 TAAAATTTATAAA
91841210 -AAAA--TATAAA
1 TAAAATTTATAAA
91841220 TAAAATTTATA
1 TAAAATTTATA
91841231 TTTTATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 5 0.17
11 4 0.14
12 4 0.14
13 11 0.38
14 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
TAAAATTTATAAA
Found at i:91841768 original size:13 final size:13
Alignment explanation
Indices: 91841745--91841787 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
91841735 TATGCCTAAA
*
91841745 TTTATCATTTAAT
1 TTTATAATTTAAT
*
91841758 TTTATATTTTAAT
1 TTTATAATTTAAT
*
91841771 TTT-TAACTTAAT
1 TTTATAATTTAAT
91841783 TTTAT
1 TTTAT
91841788 CTCTATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATAATTTAAT
Found at i:91842470 original size:26 final size:25
Alignment explanation
Indices: 91842441--91842493 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
91842431 TTTTTATTTC
*
91842441 ATAATTTTACCACAAACAAAAAATCA
1 ATAATTTCA-CACAAACAAAAAATCA
* *
91842467 ATAATTTCACATAAACAAATAATCA
1 ATAATTTCACACAAACAAAAAATCA
91842492 AT
1 AT
91842494 CCAAAAGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (25 bp):
ATAATTTCACACAAACAAAAAATCA
Found at i:91849198 original size:42 final size:41
Alignment explanation
Indices: 91849164--91849316 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 41
91849154 TGAGTTTACG
91849164 TGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGA-TTCA
* * * * * *
91849206 TGTAAGACCATGTTTAGGACATGGCATCGATATGAGAATCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
* * * *
91849247 TGTAAGACCATAGCTGAGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAT-TCA
* *
91849290 TATAAGACCCTATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
91849317 TGGTATGATT
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
41 16 0.18
42 53 0.61
43 18 0.21
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
Found at i:91849324 original size:84 final size:83
Alignment explanation
Indices: 91849162--91849316 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 83
91849152 TATGAGTTTA
* * ** * * *
91849162 CGTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTCATGTAAGACCATGTTTAGGACA
1 CGTGTAAGACCATAGCTGAGATATGGCATCATTATGAGATCCCATATAAGACCATATCTAGGACA
91849227 TGGCATCGATATGAGAAT
66 TGGCATCGATATGAGAAT
* * *
91849245 CGTGTAAGACCATAGCTGAGCTATTGGCATCGA-TATGAGATCCCATATAAGACCCTATCTGGGA
1 CGTGTAAGACCATAGCTGAGATA-TGGCATC-ATTATGAGATCCCATATAAGACCATATCTAGGA
*
91849309 TATGGCAT
64 CATGGCAT
91849317 TGGTATGATT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
83 20 0.34
84 38 0.64
85 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (83 bp):
CGTGTAAGACCATAGCTGAGATATGGCATCATTATGAGATCCCATATAAGACCATATCTAGGACA
TGGCATCGATATGAGAAT
Found at i:91859743 original size:15 final size:16
Alignment explanation
Indices: 91859712--91859757 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
91859702 CACTTAAATG
91859712 AAAGAAAGAAACAAGA
1 AAAGAAAGAAACAAGA
91859728 AAAGAAAGAAAC-AGA
1 AAAGAAAGAAACAAGA
*
91859743 AAA-AAA-AAAGAAGA
1 AAAGAAAGAAACAAGA
91859757 A
1 A
91859758 GGAAGAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 6 0.21
16 12 0.43
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAACAAGA
Found at i:91859769 original size:26 final size:26
Alignment explanation
Indices: 91859714--91859764 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
91859704 CTTAAATGAA
* *
91859714 AGAAAGAAACAAGAAAAGAAAGAAAC
1 AGAAAAAAAAAAGAAAAGAAAGAAAC
*
91859740 AGAAAAAAAAAAGAAGAAGGAAGAA
1 AGAAAAAAAAAAGAA-AAGAAAGAA
91859765 GAGAACGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.75, C:0.04, G:0.22, T:0.00
Consensus pattern (26 bp):
AGAAAAAAAAAAGAAAAGAAAGAAAC
Found at i:91862892 original size:30 final size:30
Alignment explanation
Indices: 91862851--91862908 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
91862841 CAAGTCAGAA
91862851 TTCCACACGGGCTGGCCACACAGCCATGGG
1 TTCCACACGGGCTGGCCACACAGCCATGGG
* *
91862881 TTCCCCACGGGCTGGCCACACGGCCATG
1 TTCCACACGGGCTGGCCACACAGCCATG
91862909 TCCCAGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (30 bp):
TTCCACACGGGCTGGCCACACAGCCATGGG
Found at i:91868549 original size:19 final size:22
Alignment explanation
Indices: 91868520--91868566 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
91868510 GAGTATGCTG
91868520 TAAATTGAAAG-TT-TTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
91868541 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
91868562 TAAAT
1 TAAAT
91868567 CACTTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 8 0.35
22 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:91869274 original size:33 final size:33
Alignment explanation
Indices: 91869242--91869514 Score: 243
Period size: 33 Copynumber: 8.3 Consensus size: 33
91869232 AAATGGTACA
** * *
91869242 ACTTGAAAAGGTTATGTACACTTTGTGTGTA-C
1 ACTTGAAAAGGAAAGGTACACTTTGTGTATACC
*
91869274 ACTTGAAAAGGAAAGGTATACTTTGTGTATACC
1 ACTTGAAAAGGAAAGGTACACTTTGTGTATACC
* *
91869307 A-TATGAAAAGGAAAGGTATACTTTGTGAATACC
1 ACT-TGAAAAGGAAAGGTACACTTTGTGTATACC
* *
91869340 A-TATGAAAAGGAAAGGTATACTTTGTGAATACC
1 ACT-TGAAAAGGAAAGGTACACTTTGTGTATACC
*
91869373 A-TATGAAAAGGAAAGGTATACTTTGTGTATACC
1 ACT-TGAAAAGGAAAGGTACACTTTGTGTATACC
* * *
91869406 ACTTGAAAAAGAAAGGTACACTATATGTATA-C
1 ACTTGAAAAGGAAAGGTACACTTTGTGTATACC
** * * * * *
91869438 ACTTGAAAAGGTTATGTTCACTTTGAGTGTACA
1 ACTTGAAAAGGAAAGGTACACTTTGTGTATACC
* * * * *
91869471 AATTGAAAAAGG-TATGTACACTTCGTGTGTACC
1 ACTTG-AAAAGGAAAGGTACACTTTGTGTATACC
91869504 ACTTGAAAAGG
1 ACTTGAAAAGG
91869515 GAATGTGCAC
Statistics
Matches: 209, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
32 56 0.27
33 146 0.70
34 7 0.03
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (33 bp):
ACTTGAAAAGGAAAGGTACACTTTGTGTATACC
Found at i:91869534 original size:33 final size:33
Alignment explanation
Indices: 91869438--91869547 Score: 121
Period size: 33 Copynumber: 3.3 Consensus size: 33
91869428 ATATGTATAC
* * *
91869438 ACTTGAAAAGGTTATGTTCACTTTGAGTGTACA
1 ACTTGAAAAGGGTATGTACACTTCGAGTGTACA
* * * *
91869471 AATTGAAAAAGGTATGTACACTTCGTGTGTACC
1 ACTTGAAAAGGGTATGTACACTTCGAGTGTACA
* * *
91869504 ACTTGAAAAGGGAATGTGCACCTCGAGTGTACA
1 ACTTGAAAAGGGTATGTACACTTCGAGTGTACA
*
91869537 ACTAGAAAAGG
1 ACTTGAAAAGG
91869548 AAAAGTCCAT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (33 bp):
ACTTGAAAAGGGTATGTACACTTCGAGTGTACA
Found at i:91870503 original size:13 final size:13
Alignment explanation
Indices: 91870485--91870516 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
91870475 CACATGGGCA
91870485 TGTGCCCAGGTCG
1 TGTGCCCAGGTCG
91870498 TGTGCCCAGGTCG
1 TGTGCCCAGGTCG
91870511 TGTGCC
1 TGTGCC
91870517 TCTCTGATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (13 bp):
TGTGCCCAGGTCG
Found at i:91870567 original size:13 final size:13
Alignment explanation
Indices: 91870551--91870602 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
91870541 GTCAGAATTT
91870551 CACACGGGCTGGC
1 CACACGGGCTGGC
*
91870564 CACACGGCCATAGGATC
1 CACACGGGC-T-GG--C
*
91870581 CCCACGGGCTGGC
1 CACACGGGCTGGC
91870594 CACACGGGC
1 CACACGGGC
91870603 GTGTGCCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 17 0.55
14 1 0.03
15 4 0.13
16 1 0.03
17 8 0.26
ACGTcount: A:0.19, C:0.40, G:0.33, T:0.08
Consensus pattern (13 bp):
CACACGGGCTGGC
Found at i:91872280 original size:38 final size:37
Alignment explanation
Indices: 91872236--91872346 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
91872226 TAATTATGTA
91872236 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
91872273 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
91872310 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
91872347 ATTATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.14
36 8 0.14
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:91872329 original size:20 final size:20
Alignment explanation
Indices: 91872296--91872350 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
91872286 TTTATTATTT
91872296 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
91872318 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
91872338 ATTATTATTATTA
1 ATTATTATTATTA
91872351 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:91872335 original size:25 final size:26
Alignment explanation
Indices: 91872287--91872353 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
91872277 ATATAGATAT
* **
91872287 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
91872313 TTATAATTTA-TATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
*
91872339 TTATTA-TTATTATTA
1 TTATAATTTATTATTA
91872354 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:91872652 original size:13 final size:14
Alignment explanation
Indices: 91872634--91872671 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
91872624 TTATAAAGTT
91872634 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
91872647 AATAAAAGAAATGA
1 AATAAAATAAAAGA
91872661 AATAAAATAAA
1 AATAAAATAAA
91872672 GTAAAGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:91873781 original size:45 final size:45
Alignment explanation
Indices: 91873731--91873841 Score: 179
Period size: 45 Copynumber: 2.5 Consensus size: 45
91873721 CGAACATTGT
*
91873731 TACTGTTACTGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
91873776 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
91873821 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
91873842 TGCTACTGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 60 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:91873832 original size:6 final size:6
Alignment explanation
Indices: 91873821--91873867 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
91873811 GTGTGTTGAA
* * *
91873821 TACTGT TACTGT TACTGT TACTGC TACTGC TACCGT TACTGAT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACT
91873868 TATTAGATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (6 bp):
TACTGT
Found at i:91879790 original size:7 final size:7
Alignment explanation
Indices: 91879780--91879814 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
91879770 CTGCAAGCTA
91879780 CAAGTTG
1 CAAGTTG
91879787 CAAGTTG
1 CAAGTTG
91879794 CAAGTTG
1 CAAGTTG
91879801 CAAGTTG
1 CAAGTTG
91879808 CAAGTTG
1 CAAGTTG
91879815 ATAACACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (7 bp):
CAAGTTG
Found at i:91879796 original size:21 final size:21
Alignment explanation
Indices: 91879771--91879814 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
91879761 CAAGCAATCC
91879771 TGCAAGCTACAAGTTGCAAGT
1 TGCAAGCTACAAGTTGCAAGT
* *
91879792 TGCAAGTTGCAAGTTGCAAGT
1 TGCAAGCTACAAGTTGCAAGT
91879813 TG
1 TG
91879815 ATAACACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (21 bp):
TGCAAGCTACAAGTTGCAAGT
Found at i:91884909 original size:46 final size:45
Alignment explanation
Indices: 91884762--91885030 Score: 172
Period size: 46 Copynumber: 5.8 Consensus size: 45
91884752 TTATTTGTGT
* * * *
91884762 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATAAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGAT-GAA
* * * *
91884808 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCATGATGA-A
** * * *
91884856 GATAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGTGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATG-AA
* * *
91884902 GCCAGTGTAAGACAT-TCTGGGACATGCATCAG-TTACGA-GATG-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-C-ATGATGAA
**
91884945 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAT-ATG-TGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C---TCATGATGA-A
* *
91884995 GCTAGTGTAAGACTATGTCTGAGACATGGCATCGGC
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
91885031 ATTATACCCT
Statistics
Matches: 173, Mismatches: 32, Indels: 32
0.73 0.14 0.14
Matches are distributed among these distances:
43 10 0.06
44 4 0.02
45 29 0.17
46 44 0.25
47 28 0.16
48 23 0.13
49 2 0.01
50 32 0.18
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATGAA
Found at i:91888029 original size:17 final size:19
Alignment explanation
Indices: 91888009--91888054 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 19
91887999 TAATAAATGA
91888009 AAAAATATTTT-AAATT-T
1 AAAAATATTTTAAAATTCT
91888026 -AAAATATTTTAAAATTCT
1 AAAAATATTTTAAAATTCT
91888044 AAATAATATTT
1 AAA-AATATTT
91888055 AATATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.40
17 5 0.20
18 1 0.04
19 2 0.08
20 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAATATTTTAAAATTCT
Found at i:91888703 original size:19 final size:21
Alignment explanation
Indices: 91888679--91888718 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
91888669 AAGCTTTTTT
91888679 TTTAA-TTTTTA-ATTAATAA
1 TTTAATTTTTTATATTAATAA
91888698 TTTAATTTTTTATATTAATAA
1 TTTAATTTTTTATATTAATAA
91888719 AAGAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAATTTTTTATATTAATAA
Found at i:91896125 original size:31 final size:31
Alignment explanation
Indices: 91896087--91896157 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
91896077 TGAAATTTTC
91896087 TCGAATCGAGTCGAGTGAGATGGAATTCAAA
1 TCGAATCGAGTCGAGTGAGATGGAATTCAAA
**
91896118 TCGAATCGAGTCGAGTGAGATGGAATTTGAA
1 TCGAATCGAGTCGAGTGAGATGGAATTCAAA
91896149 TCGAATCGA
1 TCGAATCGA
91896158 ATTGAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.24
Consensus pattern (31 bp):
TCGAATCGAGTCGAGTGAGATGGAATTCAAA
Found at i:91896242 original size:19 final size:20
Alignment explanation
Indices: 91896220--91896258 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
91896210 AATAACTGTC
*
91896220 ATCCATCATAAT-AAAATTT
1 ATCCACCATAATCAAAATTT
*
91896239 ATCCACCTTAATCAAAATTT
1 ATCCACCATAATCAAAATTT
91896259 TTATTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATCCACCATAATCAAAATTT
Found at i:91897141 original size:9 final size:9
Alignment explanation
Indices: 91897127--91897159 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
91897117 ATTCGAGTTG
91897127 ACTCGAATA
1 ACTCGAATA
*
91897136 ACTCGATTA
1 ACTCGAATA
91897145 ACTCGAATA
1 ACTCGAATA
91897154 ACTCGA
1 ACTCGA
91897160 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:91897150 original size:18 final size:18
Alignment explanation
Indices: 91897127--91897161 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
91897117 ATTCGAGTTG
91897127 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
91897145 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
91897162 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:91901468 original size:21 final size:21
Alignment explanation
Indices: 91901442--91901482 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91901432 ATCTGCTCAA
* *
91901442 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
91901463 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
91901483 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:91907852 original size:175 final size:175
Alignment explanation
Indices: 91907561--91907914 Score: 708
Period size: 175 Copynumber: 2.0 Consensus size: 175
91907551 TTGATACACT
91907561 TGTTGGTGGAGTTACAGGTACTGATGGAACTGGAGTTGATGATGCTACATGAGATGTAAGAATTG
1 TGTTGGTGGAGTTACAGGTACTGATGGAACTGGAGTTGATGATGCTACATGAGATGTAAGAATTG
91907626 TTGTTTCTAAGGGAAACAAATAAAATATAGTTAAATGAAAACAGAACAAAGAAAACATTTGTTTT
66 TTGTTTCTAAGGGAAACAAATAAAATATAGTTAAATGAAAACAGAACAAAGAAAACATTTGTTTT
91907691 GGTTGAGAAGCACTTACAGTAGATTTTGAACGTTTCCAAAGGTTG
131 GGTTGAGAAGCACTTACAGTAGATTTTGAACGTTTCCAAAGGTTG
91907736 TGTTGGTGGAGTTACAGGTACTGATGGAACTGGAGTTGATGATGCTACATGAGATGTAAGAATTG
1 TGTTGGTGGAGTTACAGGTACTGATGGAACTGGAGTTGATGATGCTACATGAGATGTAAGAATTG
91907801 TTGTTTCTAAGGGAAACAAATAAAATATAGTTAAATGAAAACAGAACAAAGAAAACATTTGTTTT
66 TTGTTTCTAAGGGAAACAAATAAAATATAGTTAAATGAAAACAGAACAAAGAAAACATTTGTTTT
91907866 GGTTGAGAAGCACTTACAGTAGATTTTGAACGTTTCCAAAGGTTG
131 GGTTGAGAAGCACTTACAGTAGATTTTGAACGTTTCCAAAGGTTG
91907911 TGTT
1 TGTT
91907915 ATACTTCAAA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 179 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.31
Consensus pattern (175 bp):
TGTTGGTGGAGTTACAGGTACTGATGGAACTGGAGTTGATGATGCTACATGAGATGTAAGAATTG
TTGTTTCTAAGGGAAACAAATAAAATATAGTTAAATGAAAACAGAACAAAGAAAACATTTGTTTT
GGTTGAGAAGCACTTACAGTAGATTTTGAACGTTTCCAAAGGTTG
Found at i:91911769 original size:20 final size:21
Alignment explanation
Indices: 91911721--91911765 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
91911711 TTTATAAAAA
91911721 TAAAATTACATTTTAACCTTT
1 TAAAATTACATTTTAACCTTT
*
91911742 TAAAATTA-A-TTTAATCTTT
1 TAAAATTACATTTTAACCTTT
91911761 TAAAA
1 TAAAA
91911766 ATTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 1 0.04
21 8 0.35
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAATTACATTTTAACCTTT
Found at i:91912587 original size:10 final size:10
Alignment explanation
Indices: 91912574--91912598 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91912564 GAATTAATTA
91912574 TTTTTAATAT
1 TTTTTAATAT
91912584 TTTTTAATAT
1 TTTTTAATAT
91912594 TTTTT
1 TTTTT
91912599 TGTAGAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:91915332 original size:13 final size:13
Alignment explanation
Indices: 91915314--91915341 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
91915304 AAATTTACTT
91915314 AACTTACCTTAAC
1 AACTTACCTTAAC
91915327 AACTTACCTTAAC
1 AACTTACCTTAAC
91915340 AA
1 AA
91915342 AGAAAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (13 bp):
AACTTACCTTAAC
Found at i:91919717 original size:24 final size:25
Alignment explanation
Indices: 91919666--91919728 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
91919656 CGTGTAACTA
* * *
91919666 AATTGTATATTTATGTGATATGTTT
1 AATTGTATATGTATGTAATATGTAT
*
91919691 AATT-TATATGTATGTAATTTGTAT
1 AATTGTATATGTATGTAATATGTAT
*
91919715 AATTGT-TAAGTATG
1 AATTGTATATGTATG
91919729 CAAATAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (25 bp):
AATTGTATATGTATGTAATATGTAT
Found at i:91927833 original size:26 final size:26
Alignment explanation
Indices: 91927804--91927861 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
91927794 ACACGCCTTA
*
91927804 GCTCTT-ATGAGCTTCCCGATTATATG
1 GCTCTTCATGAGCTTCCCGATT-TAAG
*
91927830 GCTCTTCGTGAGCTTCCCGATTTAAG
1 GCTCTTCATGAGCTTCCCGATTTAAG
91927856 GCTCTT
1 GCTCTT
91927862 TGTGAGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATTTAAG
Found at i:91927866 original size:26 final size:27
Alignment explanation
Indices: 91927811--91927869 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
91927801 TTAGCTCTTA
*
91927811 TGAGCTTCCCGATTATATGGCTCTTCG
1 TGAGCTTCCCGATTATAAGGCTCTTCG
*
91927838 TGAGCTTCCCGATT-TAAGGCTCTTTG
1 TGAGCTTCCCGATTATAAGGCTCTTCG
91927864 TGAGCT
1 TGAGCT
91927870 ACTTGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (27 bp):
TGAGCTTCCCGATTATAAGGCTCTTCG
Found at i:91927991 original size:24 final size:24
Alignment explanation
Indices: 91927939--91927992 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
91927929 GGCTTTTCGA
*
91927939 AGCTACTTGTTATTGGCTCGTATG
1 AGCTTCTTGTTATTGGCTCGTATG
91927963 AGCTTCTTGATTA-TGGCTC-TCATG
1 AGCTTCTTG-TTATTGGCTCGT-ATG
91927987 AGCTTC
1 AGCTTC
91927993 CCGTTATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.85
25 3 0.11
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (24 bp):
AGCTTCTTGTTATTGGCTCGTATG
Found at i:91934875 original size:28 final size:28
Alignment explanation
Indices: 91934835--91934913 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
91934825 GCAATCAAAT
* * *
91934835 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
91934863 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
91934891 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
91934914 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:91937715 original size:5 final size:5
Alignment explanation
Indices: 91937699--91937730 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
91937689 GTAGATATAG
91937699 ATAAA GATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA A
91937731 ATCTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:91938273 original size:13 final size:13
Alignment explanation
Indices: 91938257--91938281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91938247 TATAACCCCA
91938257 AAAAATAAAAAAT
1 AAAAATAAAAAAT
91938270 AAAAATAAAAAA
1 AAAAATAAAAAA
91938282 GAGAGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:91943795 original size:42 final size:42
Alignment explanation
Indices: 91943733--91943821 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
91943723 TCTTAATTGG
*
91943733 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
91943775 GAAAATAGTTCCCTTCTTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
91943817 TAAAA
1 GAAAA
91943822 ATATTCATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:91947684 original size:42 final size:42
Alignment explanation
Indices: 91947622--91947710 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
91947612 TCCTAATTGG
*
91947622 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
* *
91947664 GAAAATAGTTTCCTTCTTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
91947706 TAAAA
1 GAAAA
91947711 ATATTCCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:91947759 original size:19 final size:18
Alignment explanation
Indices: 91947735--91947774 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
91947725 TGAAAAAAAC
91947735 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
91947754 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
91947772 TTA
1 TTA
91947775 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:91958047 original size:21 final size:21
Alignment explanation
Indices: 91958023--91958062 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
91958013 ATAAGAAAAC
91958023 AAAACTATAACATTTTTATGA
1 AAAACTATAACATTTTTATGA
* **
91958044 AAAAGTATATTATTTTTAT
1 AAAACTATAACATTTTTAT
91958063 AATATATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAACTATAACATTTTTATGA
Found at i:91958621 original size:15 final size:16
Alignment explanation
Indices: 91958601--91958638 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
91958591 GTTTAGTCCC
*
91958601 TAGGGTTTTT-TGGTT
1 TAGGGTTTTTAGGGTT
91958616 TAGGGTTTTTAGGGTT
1 TAGGGTTTTTAGGGTT
91958632 TAGGGTT
1 TAGGGTT
91958639 ATGATTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.11, C:0.00, G:0.37, T:0.53
Consensus pattern (16 bp):
TAGGGTTTTTAGGGTT
Found at i:91958681 original size:34 final size:34
Alignment explanation
Indices: 91958643--91958713 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
91958633 AGGGTTATGA
* * *
91958643 TTTTGTTAAAATAATTTAGGTTTATGGTTTAGGG
1 TTTTGTTAAAATAATTTAGGTGTAGGGTGTAGGG
91958677 TTTTGTTAAAATAATTTAGGTGTAGGGTGTAGGG
1 TTTTGTTAAAATAATTTAGGTGTAGGGTGTAGGG
91958711 TTT
1 TTT
91958714 AAGAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (34 bp):
TTTTGTTAAAATAATTTAGGTGTAGGGTGTAGGG
Found at i:91958740 original size:28 final size:29
Alignment explanation
Indices: 91958709--91958765 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
91958699 TAGGGTGTAG
91958709 GGTTTA-AGAATTTTAAAAAA-TAAATTAA
1 GGTTTAGAGAATTTTAAAAAAGT-AATTAA
**
91958737 GGTTTAGAGTTTTTTAAAAAAGTAATTAA
1 GGTTTAGAGAATTTTAAAAAAGTAATTAA
91958766 ATGAGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 18 0.72
30 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (29 bp):
GGTTTAGAGAATTTTAAAAAAGTAATTAA
Found at i:91958767 original size:34 final size:32
Alignment explanation
Indices: 91958729--91958838 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 32
91958719 TTTTAAAAAA
91958729 TAAATTAAGGTTTAGAGTTTTTTAAAAAAGTAAT
1 TAAATTAAGGTTTAGAG-TTTTTAAAAAA-TAAT
* * *
91958763 TAAA-TGAGGTTTTAGGGGTTTTAAATAAATAAAT
1 TAAATTAAGG-TTTAGAGTTTTTAAA-AAAT-AAT
*
91958797 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAAGGTTTAGAGTTTTTAA-AAAA-TAAT
91958831 TAAATTAA
1 TAAATTAA
91958839 TGTTAGTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
33 12 0.19
34 45 0.73
35 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (32 bp):
TAAATTAAGGTTTAGAGTTTTTAAAAAATAAT
Found at i:91959107 original size:125 final size:124
Alignment explanation
Indices: 91958916--91959274 Score: 445
Period size: 125 Copynumber: 2.9 Consensus size: 124
91958906 GGATTTTGTT
* *
91958916 TTTTTTCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGACGATTCTGAA-AAGATAATGTTA
1 TTTTTTCTACAGTAGTTCTT-GAAAAA-TAATTTTGAAAAGACGATTCTGAACAA-ATAGTGTTA
* * * *
91958979 AAAACGCTTCAAGTAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGC
63 AAAACGCTTCAAGCAGGATGCACTGTTAGCAAAATTAATGAAAAAAGCTCCCACATGAACAC
*
91959041 TCTTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAAAAGACGATTCTGAACAAAGAGTGTTAAA
1 T-TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAAAAGACGATTCTGAACAAATAGTGTTAAA
* * * *
91959106 AACGCTTCAAGCAGGATGCACTGTTAGCAAAAATATTGAGAAAAGCTCCCACATGGACAC
65 AACGCTTCAAGCAGGATGCACTGTTAGCAAAATTAATGAAAAAAGCTCCCACATGAACAC
* * * * **
91959166 TTTTTTCTATAATAGTTCCTGAAAAAATAATTTTGAGAAA-ACGATTTTGAACAAATAGTGGCAA
1 TTTTTTCTACAGTAGTTCTTG-AAAAATAATTTTGA-AAAGACGATTCTGAACAAATAGTGTTAA
* * * * *
91959230 AAATGCATCAAACAGGATGCACTATCAGCAAAATTAATGAAAAAA
64 AAACGCTTCAAGCAGGATGCACTGTTAGCAAAATTAATGAAAAAA
91959275 AGCTTTTTCT
Statistics
Matches: 204, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
124 17 0.08
125 158 0.77
126 27 0.13
127 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (124 bp):
TTTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAAAAGACGATTCTGAACAAATAGTGTTAAAA
ACGCTTCAAGCAGGATGCACTGTTAGCAAAATTAATGAAAAAAGCTCCCACATGAACAC
Found at i:91962106 original size:25 final size:25
Alignment explanation
Indices: 91962072--91962120 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
91962062 CATCAAATAG
*
91962072 ATCATTCTGCATCACATTTCATATT
1 ATCATACTGCATCACATTTCATATT
91962097 ATCATACTGCATCACATTTCATAT
1 ATCATACTGCATCACATTTCATAT
91962121 ACTAAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (25 bp):
ATCATACTGCATCACATTTCATATT
Found at i:91962226 original size:13 final size:13
Alignment explanation
Indices: 91962208--91962234 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91962198 AGTACTTCTA
91962208 ACCTATACATGCC
1 ACCTATACATGCC
91962221 ACCTATACATGCC
1 ACCTATACATGCC
91962234 A
1 A
91962235 TACTTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.22
Consensus pattern (13 bp):
ACCTATACATGCC
Found at i:91962770 original size:40 final size:40
Alignment explanation
Indices: 91962726--91962823 Score: 196
Period size: 40 Copynumber: 2.5 Consensus size: 40
91962716 CTATCTCGGT
91962726 ATCGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
91962766 ATCGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
91962806 ATCGCACACTTAGTGCCT
1 ATCGCACACTTAGTGCCT
91962824 AATACCATTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
Found at i:91971073 original size:21 final size:21
Alignment explanation
Indices: 91971046--91971120 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
91971036 GTGTTTTACT
*
91971046 TTCTGTTAAGCTCTTACGAGC
1 TTCTGTTAAGCTCTCACGAGC
* * *
91971067 TTTTGTTAAGCTATCATGAGC
1 TTCTGTTAAGCTCTCACGAGC
*
91971088 TTCTGTTTAGCTCTCACGAGC
1 TTCTGTTAAGCTCTCACGAGC
*
91971109 TTCTGTTCAGCT
1 TTCTGTTAAGCT
91971121 TTCGAACTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (21 bp):
TTCTGTTAAGCTCTCACGAGC
Found at i:91974089 original size:9 final size:8
Alignment explanation
Indices: 91974075--91974107 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
91974065 GAAATAAATA
91974075 ATATATAT
1 ATATATAT
91974083 -TATATAT
1 ATATATAT
91974090 A-ATATAT
1 ATATATAT
91974097 ATATATAT
1 ATATATAT
91974105 ATA
1 ATA
91974108 GCACTCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.61
8 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATATATAT
Found at i:91974124 original size:2 final size:2
Alignment explanation
Indices: 91974075--91974107 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
91974065 GAAATAAATA
91974075 AT AT AT AT -T AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91974108 GCACTCCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91974194 original size:20 final size:19
Alignment explanation
Indices: 91974170--91974207 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91974160 ACTGCAAGTT
91974170 TTTTTTACGTAACAAGCCA
1 TTTTTTACGTAACAAGCCA
91974189 TTTTTTACGTAACAAGCCA
1 TTTTTTACGTAACAAGCCA
91974208 ATAATGACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (19 bp):
TTTTTTACGTAACAAGCCA
Found at i:91987692 original size:18 final size:17
Alignment explanation
Indices: 91987658--91987691 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
91987648 ATTTTAATGT
91987658 TTTTAATGTATTATATA
1 TTTTAATGTATTATATA
*
91987675 TTTTAATTTATT-TATA
1 TTTTAATGTATTATATA
91987691 T
1 T
91987692 AAAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTAATGTATTATATA
Found at i:91988908 original size:6 final size:6
Alignment explanation
Indices: 91988897--91988921 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91988887 TGTGGGTGAT
91988897 TGATGG TGATGG TGATGG TGATGG T
1 TGATGG TGATGG TGATGG TGATGG T
91988922 CTTCTTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (6 bp):
TGATGG
Found at i:91999480 original size:41 final size:42
Alignment explanation
Indices: 91999348--91999512 Score: 219
Period size: 42 Copynumber: 4.0 Consensus size: 42
91999338 TAGTGATATA
91999348 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* *
91999390 ATATCAGGCTTATTGCCTAGCAGGCTTTGTTGTCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * * *
91999432 ATATCAGGCTTAATGCCTAGCAGACTTT-ATGCCGGTGAATT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
91999473 A-ACTCAGGTTTATTGCCTAGCAGGCTCTG-TACCGGTGTAT
1 ATA-TCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
91999513 TATACTAGGC
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 40 0.37
42 66 0.62
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:91999495 original size:83 final size:83
Alignment explanation
Indices: 91999348--91999532 Score: 232
Period size: 83 Copynumber: 2.2 Consensus size: 83
91999338 TAGTGATATA
* * *
91999348 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAG
1 ATATCAGGCTTAATGCCTAGCAGACTTTGATGCCGGTGAATGATATCAGGCTTATTGCCTAGCAG
* **
91999413 GCTTTGTTGTCGGTGTATG
66 GCTCTG-TACCGGTGTATG
* *
91999432 ATATCAGGCTTAATGCCTAGCAGACTTT-ATGCCGGTGAATTA-ACTCAGGTTTATTGCCTAGCA
1 ATATCAGGCTTAATGCCTAGCAGACTTTGATGCCGGTGAATGATA-TCAGGCTTATTGCCTAGCA
*
91999495 GGCTCTGTACCGGTGTATT
65 GGCTCTGTACCGGTGTATG
*
91999514 ATA-CTAGGCTTTATGCCTA
1 ATATC-AGGCTTAATGCCTA
91999533 ACAAATTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
81 1 0.01
82 26 0.29
83 36 0.40
84 26 0.29
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (83 bp):
ATATCAGGCTTAATGCCTAGCAGACTTTGATGCCGGTGAATGATATCAGGCTTATTGCCTAGCAG
GCTCTGTACCGGTGTATG
Found at i:91999531 original size:41 final size:43
Alignment explanation
Indices: 91999348--91999532 Score: 208
Period size: 42 Copynumber: 4.5 Consensus size: 43
91999338 TAGTGATATA
91999348 ATATCAGGC-TTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* *
91999390 ATATCAGGC-TTATTGCCTAGCAGGCTTTGTTGTCGGTGTATG
1 ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * * *
91999432 ATATCAGGC-TTAATGCCTAGCAGACTTT-ATGCCGGTGAATT
1 ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
91999473 A-ACTCAGG-TTTATTGCCTAGCAGGCTCTG-TACCGGTGTATT
1 ATA-TCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
91999514 ATA-CTAGGCTTTA-TGCCTA
1 ATATC-AGGCTTTATTGCCTA
91999533 ACAAATTTTT
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
40 2 0.02
41 51 0.41
42 71 0.57
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (43 bp):
ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:91999777 original size:18 final size:18
Alignment explanation
Indices: 91999754--91999797 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
91999744 GATTCATGAG
*
91999754 TATGTATATATGGATATA
1 TATGTATATATGGATACA
91999772 TATGTATATATGGATACA
1 TATGTATATATGGATACA
91999790 TATGTATA
1 TATGTATA
91999798 ATTGATTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (18 bp):
TATGTATATATGGATACA
Found at i:92002297 original size:14 final size:14
Alignment explanation
Indices: 92002278--92002310 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
92002268 ACTACGTTTG
92002278 AAAAAAATAAAAAC
1 AAAAAAATAAAAAC
*
92002292 AAAAAAATAAAAAT
1 AAAAAAATAAAAAC
92002306 AAAAA
1 AAAAA
92002311 TAAAAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAATAAAAAC
Found at i:92002315 original size:19 final size:19
Alignment explanation
Indices: 92002280--92002335 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
92002270 TACGTTTGAA
*
92002280 AAAAATAAAAACAAAAAAAT
1 AAAAATAAAAA-TAAAAAAT
*
92002300 AAAAATAAAAATAAAAAGT
1 AAAAATAAAAATAAAAAAT
* * *
92002319 ATATATATAAATAAAAA
1 AAAAATAAAAATAAAAA
92002336 CATATATTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAATAAAAATAAAAAAT
Found at i:92003850 original size:25 final size:22
Alignment explanation
Indices: 92003821--92003877 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 22
92003811 TGTTTTTATT
92003821 TTATTTTATTACACTTCATATTTCC
1 TTATTTTATT--A-TTCATATTTCC
92003846 TTATTTTA-T-TTCATATTTCC
1 TTATTTTATTATTCATATTTCC
92003866 TTATTTTATTAT
1 TTATTTTATTAT
92003878 CTTAATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 19 0.63
21 1 0.03
22 1 0.03
24 1 0.03
25 8 0.27
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTTTATTATTCATATTTCC
Done.