Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 22 of 129
Found at i:4375163 original size:2 final size:2
Alignment explanation
Indices: 4375156--4375185 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4375146 GGGAAGGATT
4375156 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4375186 TAACTAAAAG
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4378231 original size:22 final size:21
Alignment explanation
Indices: 4378203--4378251 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
4378193 TTTATCCTCC
*
4378203 TTTTTTTCCTCCTCTTTTCTTT
1 TTTTTTTCCTCCTC-TTTCATT
*
4378225 TTTTTTTCTTCCTCTTTCATT
1 TTTTTTTCCTCCTCTTTCATT
4378246 TTTTTT
1 TTTTTT
4378252 ATACCCAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTCCTCCTCTTTCATT
Found at i:4378350 original size:44 final size:44
Alignment explanation
Indices: 4378300--4378389 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
4378290 ATGTTCAAGA
4378300 ATACAACATAATATTTGAAAATTTATTTTAAAAAATTATGATAT
1 ATACAACATAATATTTGAAAATTTATTTTAAAAAATTATGATAT
* * *
4378344 ATACAACATAATTTTTGAAATTTTATTTTCAAAAATTATGATAT
1 ATACAACATAATATTTGAAAATTTATTTTAAAAAATTATGATAT
4378388 AT
1 AT
4378390 TTTTGAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (44 bp):
ATACAACATAATATTTGAAAATTTATTTTAAAAAATTATGATAT
Found at i:4378416 original size:33 final size:33
Alignment explanation
Indices: 4378354--4378432 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
4378344 ATACAACATA
* *
4378354 ATTTTTGAAATTTTATTTTCAAAAATTATGATAT
1 ATTTTTGAAA-ATGATTTTCAAAAATTATGATAT
** *
4378388 ATTTTTGAAAATGATTTTCAAATTTTATGTTAT
1 ATTTTTGAAAATGATTTTCAAAAATTATGATAT
*
4378421 ATTTTTTAAAAT
1 ATTTTTGAAAAT
4378433 AAAATTTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (33 bp):
ATTTTTGAAAATGATTTTCAAAAATTATGATAT
Found at i:4378727 original size:20 final size:21
Alignment explanation
Indices: 4378692--4378730 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4378682 AAAAAATTGT
*
4378692 AATTTTGGGATTAATTTGATG
1 AATTTAGGGATTAATTTGATG
4378713 AATTTAGGG-TTAATTTGA
1 AATTTAGGGATTAATTTGA
4378731 GTTTGAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (21 bp):
AATTTAGGGATTAATTTGATG
Found at i:4380374 original size:22 final size:22
Alignment explanation
Indices: 4380333--4380374 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4380323 TTTAAATTTT
*
4380333 ATTTTTATATAATTTTAATAAA
1 ATTTTTATATAATTTAAATAAA
4380355 ATTTTTA-ATAAATTTAAATA
1 ATTTTTATAT-AATTTAAATA
4380375 TATTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTATATAATTTAAATAAA
Found at i:4387703 original size:41 final size:41
Alignment explanation
Indices: 4387625--4387702 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
4387615 AAGCTCCTAA
4387625 ACTTTTTAATTTTTATTTATACTATAATTTTAGTTTTTATC
1 ACTTTTTAATTTTTATTTATACTATAATTTTAGTTTTTATC
* *
4387666 ACTTTTTTA-TTTTCTTTATACTATAATTTTAGTTTTT
1 ACTTTTTAATTTTTATTTATACTATAATTTTAGTTTTT
4387703 TTTTTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (41 bp):
ACTTTTTAATTTTTATTTATACTATAATTTTAGTTTTTATC
Found at i:4387707 original size:35 final size:39
Alignment explanation
Indices: 4387627--4387714 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
4387617 GCTCCTAAAC
4387627 TTTTTAATTTTTATTTATACTATAATTTTAGTTTTTATCACT
1 TTTTTAA-TTTTATTTATACTATAATTTTAGTTTTTAT--CT
*
4387669 TTTTT-ATTTTCTTTATACTATAATTTTAG-TTTT-T-T
1 TTTTTAATTTTATTTATACTATAATTTTAGTTTTTATCT
4387704 TTTTTAATTTT
1 TTTTTAATTTT
4387715 TTTGAGTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
35 6 0.14
36 5 0.11
38 1 0.02
39 4 0.09
40 22 0.50
41 1 0.02
42 5 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (39 bp):
TTTTTAATTTTATTTATACTATAATTTTAGTTTTTATCT
Found at i:4398476 original size:26 final size:26
Alignment explanation
Indices: 4398412--4398469 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
4398402 TTGATGTAAC
**
4398412 TATTAAAATAT-TAAAAATTATTTAT
1 TATTAAAATATATTGAAATTATTTAT
4398437 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATATATTGAAATTATTTAT
4398463 TATTAAA
1 TATTAAA
4398470 TTTTATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TATTAAAATATATTGAAATTATTTAT
Found at i:4398634 original size:31 final size:34
Alignment explanation
Indices: 4398599--4398689 Score: 80
Period size: 36 Copynumber: 2.6 Consensus size: 34
4398589 ATTACTCTCC
4398599 TTAAAATATTATTTTTATTAATATTTA-A-A-TA
1 TTAAAATATTATTTTTATTAATATTTATACACTA
* *
4398630 TTAAATAGTAATATTTATTATTAAATCTTTATACACTA
1 TTAAA-A-TATTATTT-TTATT-AATATTTATACACTA
* *
4398668 TTAATATTTTATATTTTATTAA
1 TTAAAATATTAT-TTTTATTAA
4398690 AAAATCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
31 5 0.11
32 1 0.02
33 7 0.15
34 5 0.11
35 9 0.19
36 10 0.21
37 4 0.09
38 6 0.13
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (34 bp):
TTAAAATATTATTTTTATTAATATTTATACACTA
Found at i:4398653 original size:20 final size:21
Alignment explanation
Indices: 4398617--4398655 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4398607 TTATTTTTAT
4398617 TAATATTTAAATATTAAATAG
1 TAATATTTAAATATTAAATAG
*
4398638 TAATATTT-ATTATTAAAT
1 TAATATTTAAATATTAAAT
4398656 CTTTATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
TAATATTTAAATATTAAATAG
Found at i:4398819 original size:10 final size:11
Alignment explanation
Indices: 4398792--4398818 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4398782 TATTTTAAAC
4398792 TAAAAATTATT
1 TAAAAATTATT
4398803 TAAAAATTATT
1 TAAAAATTATT
4398814 TAAAA
1 TAAAA
4398819 TATTCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAAATTATT
Found at i:4398879 original size:42 final size:42
Alignment explanation
Indices: 4398832--4398934 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
4398822 TCATATTATG
4398832 AAAATATTATTATATTATTTAACA-TTAGTTATTAAAATAATA
1 AAAATATTATTATATTATTTAACATTTA-TTATTAAAATAATA
* **
4398874 AAAATATTATTA-AATATGTTATTATTTATTATTAAAATAATA
1 AAAATATTATTATATTAT-TTAACATTTATTATTAAAATAATA
* *
4398916 ATATATAGTATT-TATTATT
1 A-AAATATTATTATATTATT
4398935 GAAATATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
41 4 0.08
42 32 0.63
43 15 0.29
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (42 bp):
AAAATATTATTATATTATTTAACATTTATTATTAAAATAATA
Found at i:4398928 original size:28 final size:28
Alignment explanation
Indices: 4398896--4398949 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
4398886 AATATGTTAT
*
4398896 TATTTATTATTAAAATAATAATATATAG
1 TATTTATTATTAAAATAATAAAATATAG
* *
4398924 TATTTATTATTGAAATATTAAAATAT
1 TATTTATTATTAAAATAATAAAATAT
4398950 TTATGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (28 bp):
TATTTATTATTAAAATAATAAAATATAG
Found at i:4399142 original size:14 final size:15
Alignment explanation
Indices: 4399115--4399144 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4399105 AGTATAATTA
4399115 TAAAATATTTAAAAT
1 TAAAATATTTAAAAT
4399130 TAAAATA-TTAAAAT
1 TAAAATATTTAAAAT
4399144 T
1 T
4399145 TTAATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATATTTAAAAT
Found at i:4399158 original size:13 final size:13
Alignment explanation
Indices: 4399121--4399164 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4399111 ATTATAAAAT
**
4399121 ATTTAAAATTAAA
1 ATTTAAAATTTTA
4399134 ATATTAAAATTTTA
1 AT-TTAAAATTTTA
*
4399148 ATTTAACATTTTA
1 ATTTAAAATTTTA
4399161 ATTT
1 ATTT
4399165 TTTTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAAAATTTTA
Found at i:4415276 original size:17 final size:17
Alignment explanation
Indices: 4415251--4415285 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4415241 TTAGTGTAAT
4415251 ATTACCATGATAATATA
1 ATTACCATGATAATATA
*
4415268 ATTATCATGATAATATA
1 ATTACCATGATAATATA
4415285 A
1 A
4415286 ATAACGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (17 bp):
ATTACCATGATAATATA
Found at i:4432361 original size:7 final size:7
Alignment explanation
Indices: 4432349--4432374 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4432339 TTTGCAGGAC
4432349 TTTGAAT
1 TTTGAAT
4432356 TTTGAAT
1 TTTGAAT
4432363 TTTGAAT
1 TTTGAAT
4432370 TTTGA
1 TTTGA
4432375 GCAGTTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
TTTGAAT
Found at i:4436143 original size:19 final size:19
Alignment explanation
Indices: 4436116--4436153 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4436106 TTCTCAGTTC
*
4436116 ACTTGATTATTAATTTTTT
1 ACTTAATTATTAATTTTTT
*
4436135 ACTTAATTATTCATTTTTT
1 ACTTAATTATTAATTTTTT
4436154 CAGCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (19 bp):
ACTTAATTATTAATTTTTT
Found at i:4447303 original size:2 final size:2
Alignment explanation
Indices: 4447296--4447321 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4447286 AATAGATAAA
4447296 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4447322 TAAAAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4451414 original size:2 final size:2
Alignment explanation
Indices: 4451409--4451439 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4451399 CTAAAAAAGA
*
4451409 AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4451440 ATTGCCACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4456340 original size:13 final size:13
Alignment explanation
Indices: 4456322--4456347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4456312 AATTTGAAAA
4456322 ATCAGACCGTTGC
1 ATCAGACCGTTGC
4456335 ATCAGACCGTTGC
1 ATCAGACCGTTGC
4456348 GCTTCCCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
ATCAGACCGTTGC
Found at i:4457801 original size:21 final size:21
Alignment explanation
Indices: 4457772--4457811 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4457762 CAAAGAAAAA
* * *
4457772 TACATGCAGGAAATGGAGGTT
1 TACAAGCAGAAAAAGGAGGTT
4457793 TACAAGCAGAAAAAGGAGG
1 TACAAGCAGAAAAAGGAGG
4457812 AAGAAGCTCT
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:0.42, C:0.10, G:0.33, T:0.15
Consensus pattern (21 bp):
TACAAGCAGAAAAAGGAGGTT
Found at i:4459118 original size:311 final size:310
Alignment explanation
Indices: 4458311--4459250 Score: 1585
Period size: 311 Copynumber: 3.0 Consensus size: 310
4458301 AGAACTAGTA
*
4458311 GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAAGTTTGTCGAACATCATCAGTCC--T
1 GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAAGTTTGTTGAACATCATCAGTCCTTT
* *
4458374 TTTGATAGCTGTTCGGATCTGATTGTTTTTTAGCATTCTGATACTTCTCTAACTGCAATTAAGAT
66 TTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGATACTTCTCTGACTGCAATTAAGAT
* *
4458439 CTAGTTCAATCCAATGTTTCTTTGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTTATTACT
131 CTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTCATTACT
* * * * * *
4458504 GCTTTATAGCAACAAATCGTATTGGCTCGAGAAATATGATTAGAATTTGGAAGCATTTTGATTTT
196 GCTTTACAGCAACAAATCATACTGGCTC-------ATGATTAGAATATGAAAACATTTTGATTTT
4458569 GAGTACTTTTCACTAATCTAGCCTGCGCAATTACGGCACG-TACTAGTAGCAACACT
254 GAGTACTTTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGCAACACT
4458625 GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAAGTTTGTTGAACATCATCAGTCCTTT
1 GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAAGTTTGTTGAACATCATCAGTCCTTT
*
4458690 TTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGATA-----CTG--TCCAATTAAGAT
66 TTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGATACTTCTCTGACTGCAATTAAGAT
4458748 CTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTCATTACT
131 CTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTCATTACT
4458813 GCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATGAAAACATTTTGATTTTGAGTACT
196 GCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATGAAAACATTTTGATTTTGAGTACT
4458878 TTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGCAACACT
261 TTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGCAACACT
*****
4458928 GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAACAAACTTGAACATCATCAGTCCTTT
1 GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAAGTTTGTTGAACATCATCAGTCC-TT
4458993 TTTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGATACTTCTCTGACTGCAATTAAGA
65 TTTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGATACTTCTCTGACTGCAATTAAGA
4459058 TCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTCATTAC
130 TCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTCATTAC
4459123 TGCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATGAAAACATTTTGATTTTGAGTAC
195 TGCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATGAAAACATTTTGATTTTGAGTAC
4459188 TTTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGCAACACT
260 TTTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGCAACACT
4459239 GCAACACTGAAG
1 GCAACACTGAAG
4459251 CACGTTACTA
Statistics
Matches: 597, Mismatches: 18, Indels: 25
0.93 0.03 0.04
Matches are distributed among these distances:
302 67 0.11
303 73 0.12
304 46 0.08
309 102 0.17
311 205 0.34
314 61 0.10
316 43 0.07
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (310 bp):
GCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAAGTTTGTTGAACATCATCAGTCCTTT
TTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGATACTTCTCTGACTGCAATTAAGAT
CTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGAACCATTTTTCTGGTTCATTACT
GCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATGAAAACATTTTGATTTTGAGTACT
TTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGCAACACT
Found at i:4459254 original size:33 final size:33
Alignment explanation
Indices: 4459217--4459283 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
4459207 CGCAATTACG
4459217 GCACGTTACTAGTAGCAACACTGCAACACTGAA
1 GCACGTTACTAGTAGCAACACTGCAACACTGAA
4459250 GCACGTTACTAGTAGCAACACTGCAACACTGAA
1 GCACGTTACTAGTAGCAACACTGCAACACTGAA
4459283 G
1 G
4459284 GCTAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (33 bp):
GCACGTTACTAGTAGCAACACTGCAACACTGAA
Found at i:4459533 original size:343 final size:342
Alignment explanation
Indices: 4458906--4459568 Score: 1240
Period size: 343 Copynumber: 1.9 Consensus size: 342
4458896 CGCAATTACG
4458906 GCACGTTACTAGTAGCAACACTGCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAACAA
1 GCACGTTACTAGTAGCAACACTGCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAACAA
4458971 ACTTGAACATCATCAGTCCTTTTTTTGATAGCTGTTCGGATCTGATTGTTTTTTAACATTCTGAT
66 ACTTGAACATCATCAGTCCTTTTTTTGATAGCTGTTC-GATCTGATTGTTTTTTAACATTCTGAT
4459036 ACTTCTCTGACTGCAATTAAGATCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGG
130 ACTTCTCTGACTGCAATTAAGATCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGG
4459101 AACCATTTTTCTGGTTCATTACTGCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATG
195 AACCATTTTTCTGGTTCATTACTGCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATG
4459166 AAAACATTTTGATTTTGAGTACTTTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTA
260 AAAACATTTTGATTTTGAGTAC-TTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTA
4459231 GCAACACTGCAACACTGAA
324 GCAACACTGCAACACTGAA
4459250 GCACGTTACTAGTAGCAACACTGCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAACAA
1 GCACGTTACTAGTAGCAACACTGCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAACAA
4459315 ACTTGAACATCATCAGTCC-TTTTTTGATAGCTGTT-GATCTGATTGTTTTTTAACATTCTGATA
66 ACTTGAACATCATCAGTCCTTTTTTTGATAGCTGTTCGATCTGATTGTTTTTTAACATTCTGATA
4459378 CTTCTCTGACTGTGCAATTAAGATCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATG
131 CTTCTCTGAC--TGCAATTAAGATCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATG
* *
4459443 GAACCATTTTTCTGGTTCATTACTGCTTTACAGCAACAAATCGTATTGGCTCATGATTAGAATAT
194 GAACCATTTTTCTGGTTCATTACTGCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATAT
* *
4459508 GGAAACATTTTGATTTTGAGTACTTTCACTAATCTAGCCTGCGCAATTACGGCCCGTTACT
259 GAAAACATTTTGATTTTGAGTACTTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACT
4459569 GAAAAGTTTT
Statistics
Matches: 313, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
341 38 0.12
342 37 0.12
343 154 0.49
344 84 0.27
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (342 bp):
GCACGTTACTAGTAGCAACACTGCAACACTGAAGGCTAAAATTTTGCTCTATTGATGTTCAACAA
ACTTGAACATCATCAGTCCTTTTTTTGATAGCTGTTCGATCTGATTGTTTTTTAACATTCTGATA
CTTCTCTGACTGCAATTAAGATCTAGTTCAATCCAATGTTTCTTCGGTTGATGCTGTCCCATGGA
ACCATTTTTCTGGTTCATTACTGCTTTACAGCAACAAATCATACTGGCTCATGATTAGAATATGA
AAACATTTTGATTTTGAGTACTTTCACTAATCTAGCCTGCGCAATTACGGCACGTTACTAGTAGC
AACACTGCAACACTGAA
Found at i:4467408 original size:2 final size:2
Alignment explanation
Indices: 4467401--4467426 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4467391 TCAAGTATTT
4467401 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
4467427 ATGGCTCAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4470702 original size:29 final size:29
Alignment explanation
Indices: 4470631--4470703 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
4470621 ATATATAAAA
4470631 ATTTATTTATTAATAAAATAATATCATTTG
1 ATTTA-TTATTAATAAAATAATATCATTTG
* * * *
4470661 ATTCATTTTTAATAAAATAATATTATTTT
1 ATTTATTATTAATAAAATAATATCATTTG
*
4470690 ATTTATTAATAATA
1 ATTTATTATTAATA
4470704 TATAAAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 32 0.89
30 4 0.11
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (29 bp):
ATTTATTATTAATAAAATAATATCATTTG
Found at i:4476128 original size:25 final size:23
Alignment explanation
Indices: 4476070--4476130 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
4476060 TTTATAAGTG
*
4476070 AAATTATTTAAATATTTATCTCAC
1 AAATT-TTTAAATATTCATCTCAC
* *
4476094 AAATTGTTAAATATTCATGTCCAAC
1 AAATTTTTAAATATTCATCT-C-AC
4476119 AAATTTTTAAAT
1 AAATTTTTAAAT
4476131 TTTTGAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 12 0.39
24 6 0.19
25 13 0.42
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (23 bp):
AAATTTTTAAATATTCATCTCAC
Found at i:4476205 original size:37 final size:37
Alignment explanation
Indices: 4476136--4476206 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
4476126 TAAATTTTTG
* * * ** *
4476136 AAAATGCATTTTTGAAAAGTTATTTAATTTTTTTTAA
1 AAAATGAATTTTTAAAAAATTATAAAACTTTTTTTAA
4476173 AAAATGAATTTTTAAAAAATTATAAAACTTTTTT
1 AAAATGAATTTTTAAAAAATTATAAAACTTTTTT
4476207 GAAATCTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (37 bp):
AAAATGAATTTTTAAAAAATTATAAAACTTTTTTTAA
Found at i:4478272 original size:3 final size:3
Alignment explanation
Indices: 4478264--4478301 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4478254 ATTTCTGCTG
4478264 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4478302 TTGATAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4478728 original size:2 final size:2
Alignment explanation
Indices: 4478721--4478752 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4478711 GTTATGATTA
4478721 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4478753 ATTATACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4478756 original size:8 final size:9
Alignment explanation
Indices: 4478721--4478758 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
4478711 GTTATGATTA
4478721 ATATATA-T
1 ATATATATT
4478729 ATATATATAT
1 ATATATAT-T
4478739 ATATATATT
1 ATATATATT
4478748 ATATA-ATT
1 ATATATATT
4478756 ATA
1 ATA
4478759 CTAAATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.46
9 6 0.21
10 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATATATATT
Found at i:4483099 original size:25 final size:24
Alignment explanation
Indices: 4483072--4483121 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
4483062 TAAATATTTA
*
4483072 TTTCTATTTCTATTTTTCTAAGTAAT
1 TTTC-ATTTCTATTTTTATAA-TAAT
4483098 TTTCATTTCTATTTTTATAATAAT
1 TTTCATTTCTATTTTTATAATAAT
4483122 GCAGTAGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 15 0.65
26 4 0.17
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTCATTTCTATTTTTATAATAAT
Found at i:4486381 original size:15 final size:15
Alignment explanation
Indices: 4486361--4486401 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4486351 TGTTGTGTAA
4486361 ATTGTTATTATTATT
1 ATTGTTATTATTATT
**
4486376 ATTGTTGCTATTATT
1 ATTGTTATTATTATT
4486391 ATTGTTATTAT
1 ATTGTTATTAT
4486402 CTTGAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (15 bp):
ATTGTTATTATTATT
Found at i:4488496 original size:22 final size:21
Alignment explanation
Indices: 4488471--4488511 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4488461 GATTTTATTG
4488471 GTTTTAGCTGCAAGTTTTTCTT
1 GTTTTAGCTGCAA-TTTTTCTT
* *
4488493 GTTTTTGCTTCAATTTTTC
1 GTTTTAGCTGCAATTTTTC
4488512 CAGGGTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.59
Consensus pattern (21 bp):
GTTTTAGCTGCAATTTTTCTT
Found at i:4488498 original size:23 final size:21
Alignment explanation
Indices: 4488463--4488511 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
4488453 TTCACATAGA
*
4488463 TTTTATTGGTTTTAGCTGCAAGT
1 TTTTCTTGGTTTT-GCTGCAA-T
* *
4488486 TTTTCTTGTTTTTGCTTCAAT
1 TTTTCTTGGTTTTGCTGCAAT
4488507 TTTTC
1 TTTTC
4488512 CAGGGTGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 11 0.48
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.61
Consensus pattern (21 bp):
TTTTCTTGGTTTTGCTGCAAT
Found at i:4492713 original size:26 final size:25
Alignment explanation
Indices: 4492655--4492714 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
4492645 AGAGGTTTTA
* *
4492655 TTTCTGTTT-TTTTTTTTTTGGGCT
1 TTTCTATTTATTTTTTTTTTGAGCT
4492679 TTT-TATTTATTTTATTTTATTGAGCT
1 TTTCTATTTATTTT-TTTT-TTGAGCT
4492705 TTTCT-TTTAT
1 TTTCTATTTAT
4492715 CAAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 4 0.13
24 7 0.23
25 4 0.13
26 14 0.47
27 1 0.03
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (25 bp):
TTTCTATTTATTTTTTTTTTGAGCT
Found at i:4497191 original size:7 final size:7
Alignment explanation
Indices: 4497179--4497205 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4497169 TATTATCATT
4497179 AAAAATA
1 AAAAATA
4497186 AAAAATA
1 AAAAATA
4497193 AAAAATA
1 AAAAATA
4497200 AAAAAT
1 AAAAAT
4497206 CAAATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:4505493 original size:12 final size:13
Alignment explanation
Indices: 4505476--4505505 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4505466 TGCTCACAAG
4505476 ACCTTCTTCAAA-
1 ACCTTCTTCAAAC
4505488 ACCTTCTTCAAAC
1 ACCTTCTTCAAAC
4505501 ACCTT
1 ACCTT
4505506 ACAGGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
ACCTTCTTCAAAC
Found at i:4508100 original size:29 final size:29
Alignment explanation
Indices: 4508068--4508150 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
4508058 ATTCTTATAT
*
4508068 ATATTCGTATTAATCGTATCTATTCGTGC
1 ATATTCATATTAATCGTATCTATTCGTGC
** *
4508097 ATA-TCTATATTTCTCGTATCTATTCGTGT
1 ATATTC-ATATTAATCGTATCTATTCGTGC
* * *
4508126 ATATCCATATTATTCGTATTTATTC
1 ATATTCATATTAATCGTATCTATTC
4508151 ATGTCGTAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.05
29 41 0.93
30 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (29 bp):
ATATTCATATTAATCGTATCTATTCGTGC
Found at i:4511071 original size:29 final size:30
Alignment explanation
Indices: 4511025--4511082 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
4511015 TCTTTGTATT
* *
4511025 TTTTTTAAGATATCTTAAAATTATATTTTA
1 TTTTTTAAAACATCTTAAAATTATATTTTA
* *
4511055 TTTTTTAAAACAT-TTAAATTTTTATTTT
1 TTTTTTAAAACATCTTAAAATTATATTTT
4511083 TTGATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTTAAAACATCTTAAAATTATATTTTA
Found at i:4511105 original size:23 final size:24
Alignment explanation
Indices: 4511070--4511115 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
4511060 TAAAACATTT
* *
4511070 AAATTTTTATTTTTTGATATTTTA
1 AAATTATTATTTTATGATATTTTA
*
4511094 AAATTATT-TTTTATGATTTTTT
1 AAATTATTATTTTATGATATTTT
4511116 TACTTGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
AAATTATTATTTTATGATATTTTA
Found at i:4511993 original size:20 final size:21
Alignment explanation
Indices: 4511951--4511993 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
4511941 GTGATTCTTT
4511951 AATTATGTTATTTCAATTAAA
1 AATTATGTTATTTCAATTAAA
*
4511972 AATTAT-TTCTTTC-ATTAGAA
1 AATTATGTTATTTCAATTA-AA
4511992 AA
1 AA
4511994 ATATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (21 bp):
AATTATGTTATTTCAATTAAA
Found at i:4514531 original size:13 final size:15
Alignment explanation
Indices: 4514505--4514536 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
4514495 TCAAAATACT
4514505 TTTTGAAAATTTTTA
1 TTTTGAAAATTTTTA
4514520 TTTT-AAAA-TTTTA
1 TTTTGAAAATTTTTA
4514533 TTTT
1 TTTT
4514537 CGAGGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTGAAAATTTTTA
Found at i:4514599 original size:16 final size:16
Alignment explanation
Indices: 4514574--4514619 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
4514564 CCTCAAAAAA
*
4514574 ATTTTTGAAAAATTTT
1 ATTTTAGAAAAATTTT
4514590 ATTTTAG--AAATTTT
1 ATTTTAGAAAAATTTT
4514604 ATTTTCGAGAAAAATT
1 ATTTT--AGAAAAATT
4514620 GATACTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 12 0.48
16 8 0.32
18 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (16 bp):
ATTTTAGAAAAATTTT
Found at i:4514626 original size:72 final size:72
Alignment explanation
Indices: 4514453--4514663 Score: 263
Period size: 71 Copynumber: 3.0 Consensus size: 72
4514443 ATTTTTTTCT
* * * * * *
4514453 GAAATTTTAATTTC-AAAGAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTGAAAATTT
1 GAAATTTTATTTTCGAGA-AAAATTGATACTTTTAACTTTTTCTCAAAAAAATTTTTGAAAAATT
4514517 TTATTTTA
65 TTATTTTA
* * *
4514525 -AAATTTTATTTTCGAGGAAAATTAATACTTTTAA-TGTTTCCTCAAAAAAATTTTTGAAAAATT
1 GAAATTTTATTTTCGAGAAAAATTGATACTTTTAACT-TTTTCTCAAAAAAATTTTTGAAAAATT
4514588 TTATTTTA
65 TTATTTTA
* *
4514596 GAAATTTTATTTTCGAGAAAAATTGATACTTTTAACTTTTTCTC---AAAATTTTTTAACAATTT
1 GAAATTTTATTTTCGAGAAAAATTGATACTTTTAACTTTTTCTCAAAAAAATTTTTGAAAAATTT
4514658 TATTTT
66 TATTTT
4514664 CAAGGAAAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
69 22 0.18
70 1 0.01
71 58 0.48
72 39 0.32
73 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (72 bp):
GAAATTTTATTTTCGAGAAAAATTGATACTTTTAACTTTTTCTCAAAAAAATTTTTGAAAAATTT
TATTTTA
Found at i:4514661 original size:55 final size:59
Alignment explanation
Indices: 4514589--4514723 Score: 174
Period size: 56 Copynumber: 2.4 Consensus size: 59
4514579 TGAAAAATTT
* * *
4514589 TATTTTAG-AAATTTTATTTTCGA-GAAAAATTGATACTTTTAACTTTTT-CTC-AAAA
1 TATTTTTGAAAATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTCCTCAAAAA
*
4514644 T-TTTTT-AACAATTTTATTTTCAAGGAAAATTTGATACTTTCAACTTTTTCCTCAAAAA
1 TATTTTTGAA-AATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTCCTCAAAAA
4514702 TATTTTTGAAAATTTTTATTTT
1 TATTTTTGAAAA-TTTTATTTT
4514724 TAAAAAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
54 5 0.07
55 14 0.21
56 23 0.34
57 3 0.04
58 5 0.07
59 7 0.10
60 11 0.16
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (59 bp):
TATTTTTGAAAATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTCCTCAAAAA
Found at i:4514739 original size:15 final size:16
Alignment explanation
Indices: 4514702--4514739 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4514692 TCCTCAAAAA
**
4514702 TATTTTTGAAAATTTT
1 TATTTTTGAAAAAATT
4514718 TATTTTT-AAAAAATT
1 TATTTTTGAAAAAATT
4514733 TATTTTT
1 TATTTTT
4514740 TGAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTTTTGAAAAAATT
Found at i:4515147 original size:20 final size:21
Alignment explanation
Indices: 4515124--4515176 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
4515114 TTTTCTCAGA
4515124 CTTCTCCTTCTTTTCTCTCTCTT
1 CTTC-CCTT-TTTTCTCTCTCTT
4515147 CTTCCCCTTTTTTCTCTCTCTCT
1 CTT-CCCTTTTTTCTCTCTCT-T
4515170 CTATCCC
1 CT-TCCC
4515177 CTTAAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 12 0.44
23 13 0.48
24 2 0.07
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (21 bp):
CTTCCCTTTTTTCTCTCTCTT
Found at i:4515164 original size:24 final size:22
Alignment explanation
Indices: 4515124--4515179 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
4515114 TTTTCTCAGA
*
4515124 CTTCTCCTTCTTTTCTCTCTCTT
1 CTTCCCCTTCTTTTCTCTCTC-T
*
4515147 CTTCCCCTTTTTTCTCTCTCTCT
1 CTTCCCCTTCTTT-TCTCTCTCT
4515170 CTATCCCCTT
1 CT-TCCCCTT
4515180 AAGAATACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (22 bp):
CTTCCCCTTCTTTTCTCTCTCT
Found at i:4515671 original size:22 final size:22
Alignment explanation
Indices: 4515640--4515705 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
4515630 TAAAAACAAT
* *
4515640 AATAATTAAAATAAAATTAAAA
1 AATAAATAAAATAAAAATAAAA
* * *
4515662 AATAGATAAACAAAAAAAT-AAT
1 AATAAATAAA-ATAAAAATAAAA
4515684 AATAAAT-AAATAAAAATAAAA
1 AATAAATAAAATAAAAATAAAA
4515705 A
1 A
4515706 TGGGCCCATC
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 7 0.21
21 5 0.15
22 16 0.47
23 6 0.18
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AATAAATAAAATAAAAATAAAA
Found at i:4516032 original size:43 final size:42
Alignment explanation
Indices: 4515882--4516147 Score: 182
Period size: 44 Copynumber: 6.1 Consensus size: 42
4515872 TTTAGTAAAC
* * * *
4515882 AAAGTTCCTCTAAACAGAGG-TGAAAC-AATTTTG-AAAAAAT
1 AAAGCTCCTCTAAACAGAGGCT-CAACGACTTTAGAAAAAAAT
* * *
4515922 AAATTGCTCCTCTAAATAGAGGC-AATATGACTTTAGGAAAATAAAT
1 AAA--GCTCCTCTAAACAGAGGCTCA-ACGACTTTA-GAAAA-AAAT
* *
4515968 AAAGCTCTTATAAACAGAGGCTCAACGACTTT-GAAAAAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTAGAAAAAAAT
* *
4516009 AAATGGCTCATCTAAACAGAGGCTCAACGACTTTAGAAAAATAAAC
1 AAA--GCTCCTCTAAACAGAGGCTCAACGACTTTAG-AAAA-AAAT
* * *
4516055 AAAGCTCCTCTAAATAGAGGCTCAACGACTTTTTGAAAGATAAAC
1 AAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTAGAAA-A-AAAT
* * * * * *
4516100 ACAGCTTCTCTAAATAGAGGCTTAACAACTTTGGAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTAG-AAAA-AAAT
4516144 AAAG
1 AAAG
4516148 TTTCTTGACA
Statistics
Matches: 186, Mismatches: 23, Indels: 30
0.78 0.10 0.13
Matches are distributed among these distances:
40 3 0.02
41 9 0.05
42 21 0.11
43 31 0.17
44 63 0.34
45 46 0.25
46 13 0.07
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (42 bp):
AAAGCTCCTCTAAACAGAGGCTCAACGACTTTAGAAAAAAAT
Found at i:4516098 original size:87 final size:86
Alignment explanation
Indices: 4515877--4516147 Score: 244
Period size: 87 Copynumber: 3.1 Consensus size: 86
4515867 TTTTTTTTAG
* * * *
4515877 TAAACAAAGTTCCTCTAAACAGAGG-TGAA--ACAATTTTGAAAAAATAAATTGCTCCTCTAAAT
1 TAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTTTG-AAAAATAAATAGCT-CTCTAAAT
* *
4515939 AGAGGC-AATATGACTTTAGGAAAA
63 AGAGGCTAA-ACGACTTTAGAAAAA
* * * *** * *
4515963 TAAATAAAGCTCTTATAAACAGAGGCTCAACGACTTTGAAAAAAATAAATGGCTCATCTAAACAG
1 TAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTTGAAAAATAAATAGCTC-TCTAAATAG
*
4516028 AGGCTCAACGACTTTAGAAAAA
65 AGGCTAAACGACTTTAGAAAAA
* * *
4516050 TAAACAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTTGAAAGATAAACACAGCTTCTCTAAAT
1 TAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTTGAAAAAT-AA-ATAGC-TCTCTAAAT
* * *
4516115 AGAGGCTTAACAACTTTGGAAAAA
63 AGAGGCTAAACGACTTTAGAAAAA
*
4516139 TAAATAAAG
1 TAAACAAAG
4516148 TTTCTTGACA
Statistics
Matches: 148, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
86 22 0.15
87 79 0.53
88 5 0.03
89 40 0.27
90 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (86 bp):
TAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTTGAAAAATAAATAGCTCTCTAAATAGA
GGCTAAACGACTTTAGAAAAA
Found at i:4516113 original size:45 final size:45
Alignment explanation
Indices: 4515927--4516147 Score: 202
Period size: 44 Copynumber: 5.0 Consensus size: 45
4515917 AAAATAAATT
* * * *
4515927 GCTCCTCTAAATAGAGGC-AATATGAC-TTTAGGAAAATAAATAAA
1 GCTCCTCTAAATAGAGGCTCA-ACGACTTTTAGAAAAATAAACAAA
* * * * * **
4515971 GCTCTTATAAACAGAGGCTCAACGACTTTGAAAAAAAT-AA-ATG
1 GCTCCTCTAAATAGAGGCTCAACGACTTTTAGAAAAATAAACAAA
* *
4516014 GCTCATCTAAACAGAGGCTCAACGAC-TTTAGAAAAATAAACAAA
1 GCTCCTCTAAATAGAGGCTCAACGACTTTTAGAAAAATAAACAAA
* * *
4516058 GCTCCTCTAAATAGAGGCTCAACGACTTTTTGAAAGATAAACACA
1 GCTCCTCTAAATAGAGGCTCAACGACTTTTAGAAAAATAAACAAA
* * * * *
4516103 GCTTCTCTAAATAGAGGCTTAACAAC-TTTGGAAAAATAAATAAA
1 GCTCCTCTAAATAGAGGCTCAACGACTTTTAGAAAAATAAACAAA
4516147 G
1 G
4516148 TTTCTTGACA
Statistics
Matches: 144, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
42 9 0.06
43 27 0.19
44 61 0.42
45 47 0.33
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (45 bp):
GCTCCTCTAAATAGAGGCTCAACGACTTTTAGAAAAATAAACAAA
Found at i:4516436 original size:16 final size:16
Alignment explanation
Indices: 4516407--4516447 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4516397 AATGTAGTAT
4516407 ATGCTATGCAAAATGCA
1 ATGC-ATGCAAAATGCA
* *
4516424 ATGCATGCGAAATTCA
1 ATGCATGCAAAATGCA
4516440 ATGCATGC
1 ATGCATGC
4516448 TATGCAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (16 bp):
ATGCATGCAAAATGCA
Found at i:4527755 original size:58 final size:57
Alignment explanation
Indices: 4527686--4527860 Score: 223
Period size: 58 Copynumber: 3.1 Consensus size: 57
4527676 TATTTTTATT
* * *
4527686 TTTAAGAAAAATTGGTACTTTTAACTTTTTCTCAAAATATATTTTTTTAAAATTTTAA
1 TTTAAAAAAAATTGATACTTTCAACTTTTTCTCAAAA-ATATTTTTTTAAAATTTTAA
*
4527744 TTTAAAAAAAATTGATACTTTCAACTTTTTCTC--AAA-ATTTTTTTAACAATTTTAT
1 TTTAAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAA-AATTTTAA
* *
4527799 TTTCAAAGAAAAATTGATACTTTCAACCTTTTTCTCAAAAATA-TTTTTGAAAATTTTTA
1 TTT-AAA-AAAAATTGATACTTTCAA-CTTTTTCTCAAAAATATTTTTTTAAAATTTTAA
4527858 TTT
1 TTT
4527861 TAGAAATTTT
Statistics
Matches: 103, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
54 10 0.10
55 11 0.11
56 5 0.05
57 18 0.17
58 39 0.38
59 9 0.09
60 10 0.10
61 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (57 bp):
TTTAAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAATTTTAA
Found at i:4527948 original size:62 final size:63
Alignment explanation
Indices: 4527879--4528036 Score: 193
Period size: 62 Copynumber: 2.6 Consensus size: 63
4527869 TTATTTTTTT
* *
4527879 AAGAAAAATTGATACTTTCAACTTTTCCTT-AAAAATGGTTTTTTTT-AACAAT-TCTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTTCAAAAAT-GTTTTTTTTAAAAAATATCTATCTTC
* ** * *
4527940 AAGGAAAAATTGATACTTTTAACTTTT--TTCTCAAATTTTTTTTTTAAAAAATATTTATCTTC
1 AA-GAAAAATTGATACTTTCAACTTTTCCTTCAAAAATGTTTTTTTTAAAAAATATCTATCTTC
4528002 AAGAAAAATTGATACTTTCAAC-TTTCCTTCAAAAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTCAAAAA
4528037 ATATATATAG
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
60 13 0.16
61 30 0.37
62 38 0.47
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (63 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTCAAAAATGTTTTTTTTAAAAAATATCTATCTTC
Found at i:4528130 original size:4 final size:4
Alignment explanation
Indices: 4528121--4528154 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
4528111 TTATTTCAAT
*
4528121 TTAA TTAA TTAA TTAA TATAG TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA T-TAA TTAA TTAA TTAA T
4528155 AAAATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:4528450 original size:18 final size:19
Alignment explanation
Indices: 4528427--4528462 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4528417 CAAACTTCTC
4528427 CTTCCCA-TTCTCTCTCTT
1 CTTCCCATTTCTCTCTCTT
4528445 CTTCCCATTTCTCTCTCT
1 CTTCCCATTTCTCTCTCT
4528463 ATCCTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (19 bp):
CTTCCCATTTCTCTCTCTT
Found at i:4529011 original size:22 final size:21
Alignment explanation
Indices: 4528953--4529014 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
4528943 AATCATATAT
*
4528953 AAAAATAATAATAATTAAAAC
1 AAAAATAATAATAAATAAAAC
* * * *
4528974 AAAATTCAGAACAAATAAAACC
1 AAAAATAATAATAAATAAAA-C
4528996 AAAAATAATAATAAATAAA
1 AAAAATAATAATAAATAAA
4529015 TGAAAATAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAAATAATAATAAATAAAAC
Found at i:4532608 original size:80 final size:79
Alignment explanation
Indices: 4532512--4532764 Score: 344
Period size: 80 Copynumber: 3.2 Consensus size: 79
4532502 AGAAACATCA
* * * * *
4532512 TTCAGCAAACCATTCAGTATACGATTCAGCCCTCCAATATCATACAAAACCATTCGGCAAAACAA
1 TTCAACAAACCATTCAGCATATGATTCAGCCC-CCAATATCATACAATACCATTCGGCAAAATAA
*
4532577 TATCAGACAACAAGG
65 TATTAGACAACAAGG
* * *
4532592 TTCAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAATACTATTCGACAAAATAA
1 TTCAACAAACCATTCAGCATATGATTCAG-CCCCCAATATCATACAATACCATTCGGCAAAATAA
*
4532657 TATTAGACAACAGGG
65 TATTAGACAACAAGG
* * * **
4532672 TTCAACAAACCATTCAACATATGATTTAGCTCCCTAATATCATACAATACCATTAAGCAAAATAA
1 TTCAACAAACCATTCAGCATATGATTCAGC-CCCCAATATCATACAATACCATTCGGCAAAATAA
4532737 TATTAGACAACAAGG
65 TATTAGACAACAAGG
4532752 TTCAACAAACCAT
1 TTCAACAAACCAT
4532765 AATATTTAAG
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 150 0.97
81 3 0.02
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.23
Consensus pattern (79 bp):
TTCAACAAACCATTCAGCATATGATTCAGCCCCCAATATCATACAATACCATTCGGCAAAATAAT
ATTAGACAACAAGG
Found at i:4533561 original size:124 final size:124
Alignment explanation
Indices: 4533417--4533689 Score: 302
Period size: 124 Copynumber: 2.2 Consensus size: 124
4533407 TATGGACTTT
* * * * * *
4533417 AAAAGTTTATAACAAATTATTGAATGTGTTT-TATAATAAAAGATGCCTTTAATAATCTCAAAAA
1 AAAAGTTTAAAAGAAATTATTGAAGGCGTTTGT-CAATAAAAGACGCCTTTAATAATCTCAAAAA
* *
4533481 TTTTTTTAAA-A-AAATTATTGAAAGCGTTTTATTATCAATAAATACC-TCAATATTTATGTA
65 --TTTTTAAAGAGAAATTATTGAAAGCG-TTTATTATCAACAAATACCTTCAATAATTATGTA
* * * *
4533541 AAAAGTTTAAAAGAAATTATTAAAGGCGTTTGTCAGTAAAAGACGCTTTTAATAATCTTAAAAAT
1 AAAAGTTTAAAAGAAATTATTGAAGGCGTTTGTCAATAAAAGACGCCTTTAATAATCTCAAAAAT
* * * *
4533606 TTTTAAAGAGAAATTATTGAAGGCGTTTGTTATTAACAAATGCCTTCAATAATTATGTA
66 TTTTAAAGAGAAATTATTGAAAGCGTTTATTATCAACAAATACCTTCAATAATTATGTA
** * *
4533665 CTAAGCTTAAAAGGAATTATTGAAG
1 AAAAGTTTAAAAGAAATTATTGAAG
4533690 TATTTTTCTG
Statistics
Matches: 124, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
122 8 0.06
123 16 0.13
124 99 0.80
125 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (124 bp):
AAAAGTTTAAAAGAAATTATTGAAGGCGTTTGTCAATAAAAGACGCCTTTAATAATCTCAAAAAT
TTTTAAAGAGAAATTATTGAAAGCGTTTATTATCAACAAATACCTTCAATAATTATGTA
Found at i:4533657 original size:62 final size:60
Alignment explanation
Indices: 4533430--4533658 Score: 169
Period size: 62 Copynumber: 3.7 Consensus size: 60
4533420 AGTTTATAAC
* * * * *
4533430 AAATTATTGAATGTGTTT-TATAATAAAAGATGCCTTTAATAATCTCAAAAATTTTTTTAAAA-
1 AAATTATTGAAGGCGTTTGT-TATTAAAA-ATGCCTTCAATAATCTTAAAAA--TTTTTAAAAG
* * * * * * *
4533492 AAATTATTGAAAGCGTTTTATTATCAATAAATACC-TCAATATTTATGTAAAAA-GTTTAAAAG
1 AAATTATTGAAGGCG-TTTGTTATTAA-AAATGCCTTCAATA-ATCT-TAAAAATTTTTAAAAG
* * * * * *
4533554 AAATTATTAAAGGCGTTTGTCAGTAAAAGACGCTTTTAATAATCTTAAAAATTTTTAAAGAG
1 AAATTATTGAAGGCGTTTGTTATTAAAA-ATGCCTTCAATAATCTTAAAAATTTTTAAA-AG
4533616 AAATTATTGAAGGCGTTTGTTATTAACAAATGCCTTCAATAAT
1 AAATTATTGAAGGCGTTTGTTATTAA-AAATGCCTTCAATAAT
4533659 TATGTACTAA
Statistics
Matches: 127, Mismatches: 29, Indels: 22
0.71 0.16 0.12
Matches are distributed among these distances:
60 8 0.06
61 24 0.19
62 72 0.57
63 15 0.12
64 8 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (60 bp):
AAATTATTGAAGGCGTTTGTTATTAAAAATGCCTTCAATAATCTTAAAAATTTTTAAAAG
Found at i:4545663 original size:37 final size:37
Alignment explanation
Indices: 4545613--4545683 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
4545603 GATAAATGTG
*
4545613 AAATGGACATTGCCGTCAAGGAACTTATTCTGTAATA
1 AAATGGACATTGCCATCAAGGAACTTATTCTGTAATA
4545650 AAATGGACATTGCCATCAAGGAACTTATTCTGTA
1 AAATGGACATTGCCATCAAGGAACTTATTCTGTA
4545684 GGAGACTCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (37 bp):
AAATGGACATTGCCATCAAGGAACTTATTCTGTAATA
Found at i:4546177 original size:14 final size:15
Alignment explanation
Indices: 4546144--4546179 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4546134 CCATGGTAAG
4546144 AAAGAAAAGAAGACA
1 AAAGAAAAGAAGACA
*
4546159 AAAGAAAAGAAG-GA
1 AAAGAAAAGAAGACA
4546173 AAAGAAA
1 AAAGAAA
4546180 CCTGAGAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAGACA
Found at i:4548357 original size:29 final size:30
Alignment explanation
Indices: 4548318--4548388 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
4548308 TTTTACTTAG
* * *
4548318 ATAAACCCTTATACTTTGGT-TGCATCCAA
1 ATAAGCCCTTATACTTTGATCTACATCCAA
* *
4548347 ATAAGCCCTTATACTTTGATCTATATTCAA
1 ATAAGCCCTTATACTTTGATCTACATCCAA
4548377 ATAAGCCCTTAT
1 ATAAGCCCTTAT
4548389 TTCAAACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
ATAAGCCCTTATACTTTGATCTACATCCAA
Found at i:4548555 original size:30 final size:30
Alignment explanation
Indices: 4548521--4548655 Score: 100
Period size: 30 Copynumber: 4.5 Consensus size: 30
4548511 TATGTATTAT
* *
4548521 GTTAAGGGCTTATTTAGGTACAAATTAAAG
1 GTTAAGAGCTTATTTAGGTACAAATTAAAA
* * *
4548551 GTTAAAAGTTTA-TTGGGATACAAATTAAAA
1 GTTAAGAGCTTATTTAGG-TACAAATTAAAA
* * *
4548581 GTTAAGAACTTATTT-GAGTGCAAATTAAAG
1 GTTAAGAGCTTATTTAG-GTACAAATTAAAA
* *
4548611 GTTGAA-AGCTTATTTGGGTGC-AA-TAAAA
1 GTT-AAGAGCTTATTTAGGTACAAATTAAAA
*
4548639 GTATAAGGGCTTATTTA
1 GT-TAAGAGCTTATTTA
4548656 AGTAAAGTGG
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
28 8 0.10
29 15 0.18
30 55 0.65
31 6 0.07
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (30 bp):
GTTAAGAGCTTATTTAGGTACAAATTAAAA
Found at i:4553817 original size:9 final size:9
Alignment explanation
Indices: 4553805--4553830 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4553795 CCCATCCTAC
4553805 CCAGCCAAA
1 CCAGCCAAA
4553814 CCAGCCAAA
1 CCAGCCAAA
4553823 CCAGCCAA
1 CCAGCCAA
4553831 CATAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.46, G:0.12, T:0.00
Consensus pattern (9 bp):
CCAGCCAAA
Found at i:4558142 original size:3 final size:3
Alignment explanation
Indices: 4558134--4558159 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4558124 ACAATTACCA
4558134 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4558160 CCTTTCGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4563190 original size:2 final size:2
Alignment explanation
Indices: 4563183--4563213 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4563173 TTGTTCCTTT
4563183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4563214 TTATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4563218 original size:4 final size:4
Alignment explanation
Indices: 4563211--4563235 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4563201 TATATATATA
4563211 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
4563236 TGCAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:4570031 original size:14 final size:14
Alignment explanation
Indices: 4570014--4570061 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
4570004 TTTTACTATG
4570014 TATTTTTATATTTA
1 TATTTTTATATTTA
4570028 TATTTATTATA-TTA
1 TATTT-TTATATTTA
*
4570042 TATTTTTTAAATTTA
1 TA-TTTTTATATTTA
4570057 -ATTTT
1 TATTTT
4570062 ATTATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.13
14 15 0.50
15 11 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTTATATTTA
Found at i:4570389 original size:62 final size:62
Alignment explanation
Indices: 4570209--4570423 Score: 183
Period size: 62 Copynumber: 3.5 Consensus size: 62
4570199 GTAATTTAAT
* * * * * *
4570209 AAAAATATTATAGTAATTTTGGTCAATTATGGTAAAAAGGATATTTTTATAATTAT-A-AT-A
1 AAAAATATTATAATAATCTTGATTAATTATGGTAGAAA-GATATTTTAATAATTATGATATGA
* * * **
4570269 ACAAATATTATAATAATCTTGATTAATCATAGTAAGAAAG-TATTTTCGTAATTATGATATGA
1 AAAAATATTATAATAATCTTGATTAATTATGGT-AGAAAGATATTTTAATAATTATGATATGA
* *
4570331 AAAAAT-TTATAATTAAT-TTGATTAATTATGGTAGAAGAGACATTTTAATAATTATGATAAG-
1 AAAAATATTATAA-TAATCTTGATTAATTATGGTAGAA-AGATATTTTAATAATTATGATATGA
*** * *
4570392 AAATGCATTATAAGAATTTTGATTAATTATGG
1 AAAAATATTATAATAATCTTGATTAATTATGG
4570424 AAATGGGAGT
Statistics
Matches: 125, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
59 13 0.10
60 32 0.26
61 33 0.26
62 47 0.38
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.40
Consensus pattern (62 bp):
AAAAATATTATAATAATCTTGATTAATTATGGTAGAAAGATATTTTAATAATTATGATATGA
Found at i:4570647 original size:33 final size:34
Alignment explanation
Indices: 4570599--4570677 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 34
4570589 GTTTGGTTTG
4570599 AGAAAATATTTTTA-TTTTT-ATTTTTATTTTTT
1 AGAAAATATTTTTATTTTTTAATTTTTATTTTTT
*
4570631 AGAAAATAGTTTTTATTTTTTAATTTTTGTTTTTT
1 AGAAAATA-TTTTTATTTTTTAATTTTTATTTTTT
*
4570666 AAAAAATATTTT
1 AGAAAATATTTT
4570678 GGGAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 8 0.19
33 6 0.14
34 9 0.21
35 19 0.45
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (34 bp):
AGAAAATATTTTTATTTTTTAATTTTTATTTTTT
Found at i:4570650 original size:7 final size:6
Alignment explanation
Indices: 4570605--4570629 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4570595 TTTGAGAAAA
4570605 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
4570630 TAGAAAATAG
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:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:4570664 original size:34 final size:31
Alignment explanation
Indices: 4570590--4570677 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 31
4570580 TTAGGTTTGG
* *
4570590 TTTGGTTTGAGAAAATATTTTTATTTTTATT
1 TTTGTTTTTAGAAAATATTTTTATTTTTATT
*
4570621 TTTATTTTTTAGAAAATAGTTTTTATTTTTTAATT
1 TTT-GTTTTTAGAAAATA-TTTTTA-TTTTT-ATT
*
4570656 TTTGTTTTTTAAAAAATATTTT
1 TTTG-TTTTTAGAAAATATTTT
4570678 GGGAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
31 3 0.06
32 11 0.23
33 6 0.13
34 9 0.19
35 18 0.38
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (31 bp):
TTTGTTTTTAGAAAATATTTTTATTTTTATT
Found at i:4571927 original size:18 final size:17
Alignment explanation
Indices: 4571906--4571939 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4571896 TATATTTTTA
4571906 TTAATTTTTATATAAATT
1 TTAATTTTTATA-AAATT
4571924 TTAATTTTTATAAAAT
1 TTAATTTTTATAAAAT
4571940 AAAATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATTTTTATAAAATT
Found at i:4572328 original size:14 final size:14
Alignment explanation
Indices: 4572305--4572353 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
4572295 TTGAATATAA
* *
4572305 AAAATATAAATGTT
1 AAAATTTAAATATT
4572319 AAAATTTAAATATT
1 AAAATTTAAATATT
4572333 AAAATATTAAA-ATT
1 AAAAT-TTAAATATT
*
4572347 TAAATTT
1 AAAATTT
4572354 CTAAGTCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 2 0.06
14 24 0.77
15 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:4573676 original size:3 final size:3
Alignment explanation
Indices: 4573670--4573713 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
4573660 GATGACTTTT
** * *
4573670 CAC CAC CAC CAC CAC CAC CAC CGT CAA CAC CAC CAC CAT CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
4573714 TGGAGAGGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.59, G:0.02, T:0.05
Consensus pattern (3 bp):
CAC
Found at i:4574131 original size:2 final size:2
Alignment explanation
Indices: 4574124--4574148 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4574114 TAGAAAACTT
4574124 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4574149 GAATCTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4582851 original size:403 final size:397
Alignment explanation
Indices: 4582102--4582879 Score: 931
Period size: 403 Copynumber: 1.9 Consensus size: 397
4582092 GAAAATGTTA
* *
4582102 ATATCTTAATCATTAGATTGTAGGTTTATTAGATTCTTTTTATATTATGAACAATGTATATAGAC
1 ATATCTTAATCATTAGATTATAGGTTTATTAAATTCTTTTTATATTATGAACAATGTATATAGAC
* * ** *
4582167 TAATTTATATGAATAACTTTTGATTAAAATTAACAGTTTATTTATTATGCATTTTTTTACATCAA
66 TAATTTATATGAATAACTTTTGATTAAAATTAAAAATTTACCTACTATGCATTTTTTTACATCAA
* * *
4582232 TTACTATTAAACTATGTTGTTCAATAATCATTCAATTTTTTTTGTTTGTTAATGGTTGTTGATAA
131 TTACCATTAAACTATGTTGTTCAATAATCATTCAATTTTTTTTGTTTGATAATGGTTGTTAATAA
* * * *
4582297 GTTTTTATGATTTTTTACAAGTTTTGTTGTTGTTGTTAGATTGTTTTAGTATGAGATGAGTTTTA
196 GTTTCTATGATTTTTTACAAGATTTGTTGTTGCTATTAGATTGTTTTAGTA-GAGATGAGTTTTA
* * * * * *
4582362 GGCTTTGGTTTTTGTTTTGTTATTTGTACTGTTGTTTGCTATCTATAATAGTAGAGAATGAGCAT
260 -----TGATTTTGGTTTTGTTATTTGTACTGTTGTTTGCTATCTATAATAGCAAAGAATAAACAT
* * * *
4582427 TTATAATTAGGTTACATGTAGTGTTGAGTTTCTTCTAA-AGGTTATTTAAAATTTAATGAGACAT
320 TTACAATTACGTCACATGTAGTGTTGAATTTCTTC-AATAGGTTATTTAAAATTTAATGAGACAT
4582491 CATACAGATTGCTT
384 CATACAGATTGCTT
* *
4582505 ATATCTTAATCATTAGATTATAGGTTTATTAAATTCTTTTTGTATTATGAACAGTGTATATAGAC
1 ATATCTTAATCATTAGATTATAGGTTTATTAAATTCTTTTTATATTATGAACAATGTATATAGAC
* * * *
4582570 TAATTTATATTAATAACTTTTGGTTAAAATTAAAAATTTACCTACTATTCATTTTTTTATATCAA
66 TAATTTATATGAATAACTTTTGATTAAAATTAAAAATTTACCTACTATGCATTTTTTTACATCAA
* * ** *
4582635 -TACCATTGAATTATGTTGTTCGTTAATCATTTAATTTATTTCCTATGTGTTTAGATAATGGTTG
131 TTACCATTAAACTATGTTGTTCAATAATCATTCAA-TT-TTT--T-T-TGTTT-GATAATGGTTG
* *
4582699 TTAATAAAGTTCTCTAT-TTTTTTTACAAGATTTGTTAG-TGCTATTAGGTTGTTTCTATGTA-A
189 TTAAT-AAGTT-TCTATGATTTTTTACAAGATTTGTT-GTTGCTATTAGATTGTTT-TA-GTAGA
* * * * *
4582761 GGTTAGTTTTA-GATTTTGGTTTTGTTATTTGTATTGTTGTTTG-TATCTTTAATAGCAAAGGAT
249 GATGAGTTTTATGATTTTGGTTTTGTTATTTGTACTGTTGTTTGCTATCTATAATAGCAAAGAAT
* * *
4582824 AAACATTTACAATTACGTCATATGTAGTGTTGAATTTTTTCAATGGGTTATTTAAA
314 AAACATTTACAATTACGTCACATGTAGTGTTGAATTTCTTCAATAGGTTATTTAAA
4582880 GTCTAACAAG
Statistics
Matches: 317, Mismatches: 45, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
402 30 0.09
403 179 0.56
404 32 0.10
406 1 0.00
407 1 0.00
408 5 0.02
409 14 0.04
410 45 0.14
411 7 0.02
412 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (397 bp):
ATATCTTAATCATTAGATTATAGGTTTATTAAATTCTTTTTATATTATGAACAATGTATATAGAC
TAATTTATATGAATAACTTTTGATTAAAATTAAAAATTTACCTACTATGCATTTTTTTACATCAA
TTACCATTAAACTATGTTGTTCAATAATCATTCAATTTTTTTTGTTTGATAATGGTTGTTAATAA
GTTTCTATGATTTTTTACAAGATTTGTTGTTGCTATTAGATTGTTTTAGTAGAGATGAGTTTTAT
GATTTTGGTTTTGTTATTTGTACTGTTGTTTGCTATCTATAATAGCAAAGAATAAACATTTACAA
TTACGTCACATGTAGTGTTGAATTTCTTCAATAGGTTATTTAAAATTTAATGAGACATCATACAG
ATTGCTT
Found at i:4583218 original size:15 final size:16
Alignment explanation
Indices: 4583195--4583227 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4583185 TTTTGGGTTC
*
4583195 TATTCTTTTTTTTTGT
1 TATTCTTTTGTTTTGT
4583211 TATT-TTTTGTTTTGT
1 TATTCTTTTGTTTTGT
4583226 TA
1 TA
4583228 GTAGATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (16 bp):
TATTCTTTTGTTTTGT
Found at i:4606974 original size:1 final size:1
Alignment explanation
Indices: 4606968--4606994 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4606958 GTTTTGATTT
4606968 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
4606995 CCTCTCCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4607352 original size:13 final size:13
Alignment explanation
Indices: 4607334--4607359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4607324 GGGACCTTCC
4607334 TATTATGTTCGAT
1 TATTATGTTCGAT
4607347 TATTATGTTCGAT
1 TATTATGTTCGAT
4607360 GTGAGATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TATTATGTTCGAT
Found at i:4613029 original size:72 final size:72
Alignment explanation
Indices: 4612836--4613029 Score: 244
Period size: 72 Copynumber: 2.7 Consensus size: 72
4612826 AAGCAAAGCC
* * * * ** * *
4612836 AAAGATGGATGGTGAGAAAGAAGGTAATAATGTGTACGAGGGTCAGGAAAAATCAAATGGTGAAG
1 AAAGACGGATGGTGAGAAAGTAGGTGATAATGTGCAAAAGGGTCAGGAAGAACCAAATGGTGAAG
4612901 CCAAAGG
66 CCAAAGG
* * * * * *
4612908 AAACACGGATAGTGGGAGAGTAGGTGATAATGTGCAAAAGAGTCAGGAAGAACCAAATGTTGAAG
1 AAAGACGGATGGTGAGAAAGTAGGTGATAATGTGCAAAAGGGTCAGGAAGAACCAAATGGTGAAG
4612973 CCAAAGG
66 CCAAAGG
**
4612980 AAAGACGGATGGAAAGAAAGTAGGTGATAATGTGCAAAAGGGTCAGGAAG
1 AAAGACGGATGGTGAGAAAGTAGGTGATAATGTGCAAAAGGGTCAGGAAG
4613030 CCAAAGGAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 101 1.00
ACGTcount: A:0.43, C:0.08, G:0.34, T:0.15
Consensus pattern (72 bp):
AAAGACGGATGGTGAGAAAGTAGGTGATAATGTGCAAAAGGGTCAGGAAGAACCAAATGGTGAAG
CCAAAGG
Found at i:4613057 original size:57 final size:57
Alignment explanation
Indices: 4612969--4613086 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
4612959 ACCAAATGTT
* *
4612969 GAAGCCAAAGGAAAGACGGATGGAAAGAAAGTAGGTGATAATGTGCAAAAGGGTCAG
1 GAAGCCAAAGGAAAGACGGATGGAAAGAAAGTAGGTAATAATGTGCAAAAGGATCAG
*
4613026 GAAGCCAAAGGAAAGACGGATGGAGAGAAAGTAGGTAATAATGTGCAAAAGGATCAG
1 GAAGCCAAAGGAAAGACGGATGGAAAGAAAGTAGGTAATAATGTGCAAAAGGATCAG
4613083 GAAG
1 GAAG
4613087 AACCAAATGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.45, C:0.08, G:0.35, T:0.12
Consensus pattern (57 bp):
GAAGCCAAAGGAAAGACGGATGGAAAGAAAGTAGGTAATAATGTGCAAAAGGATCAG
Found at i:4613134 original size:129 final size:129
Alignment explanation
Indices: 4612897--4613152 Score: 363
Period size: 129 Copynumber: 2.0 Consensus size: 129
4612887 ATCAAATGGT
* * * *
4612897 GAAGCCAAAGGAAACACGGATAGTGGGAGAGTAGGTGATAATGTGCAAAAGAGTCAGGAAGAACC
1 GAAGCCAAAGGAAACACGGATAGAGAGAAAGTAGGTAATAATGTGCAAAAGAGTCAGGAAGAACC
* ** *
4612962 AAATGTTGAAGCCAAAGGAAAGACGGATGGAAAGAAAGTAGGTGATAATGTGCAAAAGGGTCAG
66 AAATGTTGAAGCCAAAAGAAAGACAAATGGAAAGAAAGAAGGTGATAATGTGCAAAAGGGTCAG
* *
4613026 GAAGCCAAAGGAAAGACGGATGGAGAGAAAGTAGGTAATAATGTGCAAAAG-GATCAGGAAGAAC
1 GAAGCCAAAGGAAACACGGATAGAGAGAAAGTAGGTAATAATGTGCAAAAGAG-TCAGGAAGAAC
** *
4613090 CAAATGTTGAAGCCAAAAGAAAGACAAAT-GATGGAAGAGAAGGTGATAATGTGCAGAAGGGTC
65 CAAATGTTGAAGCCAAAAGAAAGACAAATGGAAAGAA-AGAAGGTGATAATGTGCAAAAGGGTC
4613153 TAGAGGAAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 6 0.05
129 106 0.95
ACGTcount: A:0.44, C:0.10, G:0.32, T:0.14
Consensus pattern (129 bp):
GAAGCCAAAGGAAACACGGATAGAGAGAAAGTAGGTAATAATGTGCAAAAGAGTCAGGAAGAACC
AAATGTTGAAGCCAAAAGAAAGACAAATGGAAAGAAAGAAGGTGATAATGTGCAAAAGGGTCAG
Found at i:4617927 original size:2 final size:2
Alignment explanation
Indices: 4617920--4617945 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4617910 TTCAGTAAGC
4617920 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4617946 CTACGCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4618034 original size:16 final size:16
Alignment explanation
Indices: 4618013--4618045 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4618003 ACTCTAAAAC
*
4618013 AAAATATTAATATTTT
1 AAAATATTAATAATTT
4618029 AAAATATTAATAATTT
1 AAAATATTAATAATTT
4618045 A
1 A
4618046 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATTAATAATTT
Found at i:4621227 original size:23 final size:23
Alignment explanation
Indices: 4621195--4621238 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4621185 AAATAATAAT
*
4621195 AAAAATTATTATAATTATGATGA
1 AAAAAATATTATAATTATGATGA
*
4621218 AAAAAATATTATAATTGTGAT
1 AAAAAATATTATAATTATGAT
4621239 TAAAGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
AAAAAATATTATAATTATGATGA
Found at i:4621288 original size:13 final size:13
Alignment explanation
Indices: 4621270--4621294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4621260 TTATATTAAA
4621270 TTAAAATTAATAT
1 TTAAAATTAATAT
4621283 TTAAAATTAATA
1 TTAAAATTAATA
4621295 GCTGAAGCTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAAATTAATAT
Found at i:4628615 original size:2 final size:2
Alignment explanation
Indices: 4628608--4628639 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4628598 CTTTTAGTAA
4628608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4628640 CCATACGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4635718 original size:79 final size:79
Alignment explanation
Indices: 4635580--4635738 Score: 257
Period size: 79 Copynumber: 2.0 Consensus size: 79
4635570 GCTGCATAGC
* *
4635580 AAATGTACAAGCACATAAATTAATTCTAACACACTATATCAAAATAATATCCCCCCCACCAAAAA
1 AAATGTACAAGCACATAAATTAATTCTAACACACTATAACAAAACAATATCCCCCCCACCAAAAA
4635645 TAAATAAATAAATG
66 TAAATAAATAAATG
* * *
4635659 AAATGTACAAGCGCATAAATTAATTCTAAGACACTATAACAAAACAATA-CGCCCTCCACCAAAA
1 AAATGTACAAGCACATAAATTAATTCTAACACACTATAACAAAACAATATC-CCCCCCACCAAAA
4635723 ATAAATAAATAAATG
65 ATAAATAAATAAATG
4635738 A
1 A
4635739 CTTACTTCTC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
78 1 0.01
79 73 0.99
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (79 bp):
AAATGTACAAGCACATAAATTAATTCTAACACACTATAACAAAACAATATCCCCCCCACCAAAAA
TAAATAAATAAATG
Found at i:4638858 original size:16 final size:17
Alignment explanation
Indices: 4638832--4638863 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4638822 TCATTCTTTC
4638832 ATTTGAAATATAAATTT
1 ATTTGAAATATAAATTT
4638849 ATTT-AAATATAAATT
1 ATTTGAAATATAAATT
4638864 AAAATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTGAAATATAAATTT
Found at i:4638906 original size:29 final size:29
Alignment explanation
Indices: 4638837--4638901 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
4638827 CTTTCATTTG
* * *
4638837 AAATAT-AAATTTATTTAAATATAAATTA
1 AAATATAAAAATTATTTAAATACAAATAA
4638865 AAATATAAAAATTATTTAAATAC-AATAA
1 AAATATAAAAATTATTTAAATACAAATAA
4638893 AAA-ATAAAA
1 AAATATAAAA
4638902 TAATTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 6 0.18
28 13 0.39
29 14 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATATAAAAATTATTTAAATACAAATAA
Found at i:4640366 original size:2 final size:2
Alignment explanation
Indices: 4640359--4640394 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4640349 CGCATACCAC
4640359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4640395 CTCCACAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4650929 original size:3 final size:3
Alignment explanation
Indices: 4650916--4650974 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
4650906 AATTTATGTT
*
4650916 TTA TTA TTTA TTA TT- TATA TTTA TCA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA -TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4650962 TTT TTA TT- TTA TT
1 TTA TTA TTA TTA TT
4650975 GTACAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 5 0.11
3 35 0.76
4 5 0.11
5 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4650946 original size:23 final size:21
Alignment explanation
Indices: 4650918--4650973 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
4650908 TTTATGTTTT
4650918 ATTATTTATTATTTATATTTATC
1 ATTATTTATTA-TTATA-TTATC
*
4650941 ATTA-TTATTATTATATTATT
1 ATTATTTATTATTATATTATC
4650961 ATT-TTTATT-TTAT
1 ATTATTTATTATTAT
4650974 TGTACAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 12 0.39
21 5 0.16
22 6 0.19
23 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTATTTATTATTATATTATC
Found at i:4651916 original size:27 final size:27
Alignment explanation
Indices: 4651886--4651939 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4651876 AAATGTGTAC
4651886 GTAAATAAAAAAATAAAAAATAAATAA
1 GTAAATAAAAAAATAAAAAATAAATAA
* ** *
4651913 GTAAATCAATCAATAACAAATAAATAA
1 GTAAATAAAAAAATAAAAAATAAATAA
4651940 AACTAAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (27 bp):
GTAAATAAAAAAATAAAAAATAAATAA
Found at i:4656506 original size:39 final size:36
Alignment explanation
Indices: 4656463--4656534 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 36
4656453 TATTCATATA
4656463 ATATAAAATATTAATAATCATATATTCATA-TAATATTTT
1 ATATAAAA-ATT-AT-ATCATA-ATTCATATTAATATTTT
*
4656502 ATATAAAAATTATATCATAATTTATATTAATAT
1 ATATAAAAATTATATCATAATTCATATTAATAT
4656535 AAAAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 6 0.19
36 12 0.39
37 2 0.06
38 3 0.10
39 8 0.26
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (36 bp):
ATATAAAAATTATATCATAATTCATATTAATATTTT
Found at i:4656620 original size:24 final size:24
Alignment explanation
Indices: 4656593--4656640 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4656583 TTTATTAAAA
*
4656593 TTTTAAATCATATTATTTTTATAT
1 TTTTAAATCATATAATTTTTATAT
* *
4656617 TTTTTATTCATATAATTTTTATAT
1 TTTTAAATCATATAATTTTTATAT
4656641 CATATTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAAATCATATAATTTTTATAT
Found at i:4656636 original size:16 final size:16
Alignment explanation
Indices: 4656612--4656645 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4656602 ATATTATTTT
*
4656612 TATATTTTTTAT-TCA
1 TATAATTTTTATATCA
4656627 TATAATTTTTATATCA
1 TATAATTTTTATATCA
4656643 TAT
1 TAT
4656646 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTTTATATCA
Found at i:4659966 original size:2 final size:2
Alignment explanation
Indices: 4659959--4659993 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
4659949 TGGAAGGCAA
4659959 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
4659994 CTTCGAAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4667458 original size:7 final size:7
Alignment explanation
Indices: 4667446--4667491 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
4667436 TCATACCTAG
4667446 AACAAAA
1 AACAAAA
4667453 AACAAAA
1 AACAAAA
4667460 AAC-AAA
1 AACAAAA
4667466 AACAAAA
1 AACAAAA
* *
4667473 CACAAGAG
1 AACAA-AA
4667481 AA-AAAA
1 AACAAAA
4667487 AACAA
1 AACAA
4667492 CACAGTCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 9 0.28
7 21 0.66
8 2 0.06
ACGTcount: A:0.80, C:0.15, G:0.04, T:0.00
Consensus pattern (7 bp):
AACAAAA
Found at i:4667468 original size:13 final size:13
Alignment explanation
Indices: 4667450--4667491 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4667440 ACCTAGAACA
4667450 AAAAACAAAAAAC
1 AAAAACAAAAAAC
*
4667463 AAAAACAAAACAC
1 AAAAACAAAAAAC
4667476 AAGAGAA-AAAAAAC
1 AA-A-AACAAAAAAC
4667490 AA
1 AA
4667492 CACAGTCCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 14 0.56
14 9 0.36
15 2 0.08
ACGTcount: A:0.81, C:0.14, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:4668625 original size:15 final size:15
Alignment explanation
Indices: 4668600--4668649 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4668590 CTTAAAATAA
4668600 AAAATCTCTAAAATTT
1 AAAA-CTCTAAAATTT
**
4668616 AAAACTCTAAAATCC
1 AAAACTCTAAAATTT
* *
4668631 AAACCCCTAAAATTT
1 AAAACTCTAAAATTT
4668646 AAAA
1 AAAA
4668650 ATCCCAAAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAACTCTAAAATTT
Found at i:4674059 original size:18 final size:18
Alignment explanation
Indices: 4674038--4674072 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4674028 CTTGCATTGG
*
4674038 CATTTACATTTGCATCAA
1 CATTTACATTAGCATCAA
*
4674056 CATTTTCATTAGCATCA
1 CATTTACATTAGCATCA
4674073 TTTAGTGAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (18 bp):
CATTTACATTAGCATCAA
Found at i:4674860 original size:87 final size:87
Alignment explanation
Indices: 4674738--4674969 Score: 243
Period size: 87 Copynumber: 2.7 Consensus size: 87
4674728 CATCGATTTT
* * ** * *
4674738 TTAATTTTAACTTACGGTGTTGT-TGCAATTAATTCTGTAAGACATTCGAGCATAATTTCGATTC
1 TTAATTTTGACTTACGGTGTTGTCT-CAGTCGATTCTGTAAGACATCCGAGCATAATTTCAATTC
*
4674802 ATGATGTTATCCCGATCAATTCA
65 ACGATGTTATCCCGATCAATTCA
* * * *
4674825 TT-ATTCTTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAGACCTCCGGGTATGATTTCAATTC
1 TTAATT-TTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAGACATCCGAGCATAATTTCAATTC
* * ** *
4674889 GCGATGTTATCCTGATTGATTCT
65 ACGATGTTATCCCGATCAATTCA
* * * * *
4674912 TTAATTTTGACTTATGGTGTTGTCTCAGTCGATTCTATAAGACCTCCAACCATAATTT
1 TTAATTTTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAGACATCCGAGCATAATTT
4674970 TTAAGACCTC
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
86 3 0.03
87 112 0.94
88 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (87 bp):
TTAATTTTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAGACATCCGAGCATAATTTCAATTCA
CGATGTTATCCCGATCAATTCA
Found at i:4674882 original size:196 final size:196
Alignment explanation
Indices: 4674396--4674883 Score: 599
Period size: 196 Copynumber: 2.5 Consensus size: 196
4674386 AACTTCTGGA
* * *
4674396 CATAATTTCGATTCGT-AGTGTTATCCCGATCAATTCATTATTCTCGACTTGCAGTGTTGTCTCA
1 CATAATTTCGATTCATGA-TGTTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTCTCA
* * **
4674460 GTCGATTCTGTAAGACCTTCGGGCATGATTTCTAAAAGCTCTGGGCATAATTTTGATTCGCGATA
65 GTCGATTCTGTAAGACCTCCGGGCATGATTTCTAAAACCTCTGGGCATAATTTCAATTCGCGATA
** * * * * * *
4674525 TTATTTCGATCAATTCATTATTCTCGACTTACGGTGTTGTTCCAGTCGATTTTGTAAGACTTTCA
130 TTATCCCCATCAATTCATTATTCTCAACTTACGGTGTTGTTCCAATCAATTCTGTAAGACATTCA
4674590 GG
195 GG
* * * * *
4674592 CATAATTTCGATTCATGGTGTTATCTCAATCGATTCATTATTCTCGACTTACGGTGTTATC-CTA
1 CATAATTTCGATTCATGATGTTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTCTC-A
* * * * *
4674656 GTCGATTCTGTAAGACCTCCAGACATGATTTTTAAGACCTCTGGGCATAATTTCAATTTGCTG-T
65 GTCGATTCTGTAAGACCTCCGGGCATGATTTCTAAAACCTCTGGGCATAATTTCAATTCGC-GAT
* ** * * *
4674720 ATTATCCCCATCGATTTTTTAATT-TTAACTTACGGTGTTGTTGCAATTAATTCTGTAAGACATT
129 ATTATCCCCATCAATTCATT-ATTCTCAACTTACGGTGTTGTTCCAATCAATTCTGTAAGACATT
4674784 C-GAG
193 CAG-G
*
4674788 CATAATTTCGATTCATGATGTTATCCCGATCAATTCATTATTCTTGACTTACGGTGTTGTCTCAG
1 CATAATTTCGATTCATGATGTTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTCTCAG
*
4674853 TCGATTCTGTAAGACCTCCGGGTATGATTTC
66 TCGATTCTGTAAGACCTCCGGGCATGATTTC
4674884 AATTCGCGAT
Statistics
Matches: 245, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
195 2 0.01
196 238 0.97
197 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (196 bp):
CATAATTTCGATTCATGATGTTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTCTCAG
TCGATTCTGTAAGACCTCCGGGCATGATTTCTAAAACCTCTGGGCATAATTTCAATTCGCGATAT
TATCCCCATCAATTCATTATTCTCAACTTACGGTGTTGTTCCAATCAATTCTGTAAGACATTCAG
G
Found at i:4675011 original size:109 final size:111
Alignment explanation
Indices: 4674862--4675167 Score: 350
Period size: 109 Copynumber: 2.8 Consensus size: 111
4674852 GTCGATTCTG
** * * ** *
4674862 TAAGACCTCCGGGTATGATTTCAATTCGCGATGTTATCCTGATTGATTCTTTAATTTTGACTTAT
1 TAAGACCTCCGGGTATGATTTTGATTCGCGGTATTATCCTGATCAATTCTTTAATTTTGACTTAC
4674927 GGTGTTGTCTCAGTCGATTCTATAAGAC-CTCCAACCAT-AATTTT-
66 GGTGTTGTCTCAGTCGATTCTATAAGACACTCCAA-CATGAATTTTA
* * *
4674971 TAAGACCTCCGGGCATAATTTTGATTCGCGGTATTATCCTGATCAATTCATT-ATTCTTGACTTA
1 TAAGACCTCCGGGTATGATTTTGATTCGCGGTATTATCCTGATCAATTCTTTAATT-TTGACTTA
* * * * * * ** *
4675035 CGATGTTATCCCAGTCAATTCTGTAAGACATTCGGACATGATTTTTA
65 CGGTGTTGTCTCAGTCGATTCTATAAGACACTCCAACATGAATTTTA
* * * *
4675082 TAAGATCTTCGAGTATGATTTTGATTCACGGTATTATCCTGATCAATTCTTTAATTTTGACTTAC
1 TAAGACCTCCGGGTATGATTTTGATTCGCGGTATTATCCTGATCAATTCTTTAATTTTGACTTAC
*
4675147 GGTGTTGTCTCAGTTGATTCT
66 GGTGTTGTCTCAGTCGATTCT
4675168 GTAAAATCTC
Statistics
Matches: 161, Mismatches: 31, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
108 3 0.02
109 77 0.48
110 8 0.05
111 70 0.43
112 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (111 bp):
TAAGACCTCCGGGTATGATTTTGATTCGCGGTATTATCCTGATCAATTCTTTAATTTTGACTTAC
GGTGTTGTCTCAGTCGATTCTATAAGACACTCCAACATGAATTTTA
Found at i:4675036 original size:283 final size:283
Alignment explanation
Indices: 4674504--4675068 Score: 656
Period size: 283 Copynumber: 2.0 Consensus size: 283
4674494 AAAGCTCTGG
* * **
4674504 GCATAATTTTGATTCGCGATATTATTTCGATCAATTCATTATTCTCGACTTACGGTGTTGTTCCA
1 GCATAATTTCGATTCACGATATTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTTCCA
* * * * * *
4674569 GTCGATTTTGTAAGACTTTCAGGCATAATTTCGATTCATGGTGTTATCTCAATCGATTCATTATT
66 GTCGATTCTGTAAGACCTCCAGGCATAATTTCAATTCACGATGTTATCTCAATCGATTCATTATT
* * *
4674634 CTCGACTTACGGTGTTATCCTAGTCGATTCTGTAAGACCTCCAGACATGATTTTTAAGACCTCTG
131 CTCGACTTACGGTGTTATCCTAGTCGATTCTATAAGACCTCCAGACATAATTTTTAAGACCTCCG
* * * ** * * **
4674699 GGCATAATTTCAATTTGCTGTATTATCCCCATCGATTTTTTAATTTTAACTTACGGTGTTGTTGC
196 GGCATAATTTCAATTCGCGGTATTATCCCCATCAATTCATTAATTTTAACTTACGATGTTATCCC
*
4674764 AATTAATTCTGTAAGACATTCGA
261 AATCAATTCTGTAAGACATTCGA
* * *
4674787 GCATAATTTCGATTCATGATGTTATCCCGATCAATTCATTATTCTTGACTTACGGTGTTG-TCTC
1 GCATAATTTCGATTCACGATATTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTTC-C
* * * * * * *
4674851 AGTCGATTCTGTAAGACCTCCGGGTATGATTTCAATTCGCGATGTTATC-CTGATTGATTCTTTA
65 AGTCGATTCTGTAAGACCTCCAGGCATAATTTCAATTCACGATGTTATCTC-AATCGATTCATT-
* * *
4674915 ATT-TTGACTTATGGTGTTGT-CTCAGTCGATTCTATAAGACCTCCA-ACCATAATTTTTAAGAC
128 ATTCTCGACTTACGGTGTTATCCT-AGTCGATTCTATAAGACCTCCAGA-CATAATTTTTAAGAC
** ** *
4674977 CTCCGGGCATAATTTTGATTCGCGGTATTATCCTGATCAATTCATT-ATTCTTGACTTACGATGT
191 CTCCGGGCATAATTTCAATTCGCGGTATTATCCCCATCAATTCATTAATT-TTAACTTACGATGT
*
4675041 TATCCCAGTCAATTCTGTAAGACATTCG
255 TATCCCAATCAATTCTGTAAGACATTCG
4675069 GACATGATTT
Statistics
Matches: 234, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
282 9 0.04
283 222 0.95
284 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (283 bp):
GCATAATTTCGATTCACGATATTATCCCGATCAATTCATTATTCTCGACTTACGGTGTTGTTCCA
GTCGATTCTGTAAGACCTCCAGGCATAATTTCAATTCACGATGTTATCTCAATCGATTCATTATT
CTCGACTTACGGTGTTATCCTAGTCGATTCTATAAGACCTCCAGACATAATTTTTAAGACCTCCG
GGCATAATTTCAATTCGCGGTATTATCCCCATCAATTCATTAATTTTAACTTACGATGTTATCCC
AATCAATTCTGTAAGACATTCGA
Found at i:4675190 original size:111 final size:109
Alignment explanation
Indices: 4674895--4675190 Score: 319
Period size: 111 Copynumber: 2.7 Consensus size: 109
4674885 ATTCGCGATG
** * * * * **
4674895 TTATCCTGATTGATTCTTTAATTTTGACTTATGGTGTTGTCTCAGTCGATTCTATAAGACCTCCA
1 TTATCCTGATCAATTCTTTAATTTTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAAATCTCGG
* *
4674960 ACCATAA-TTTTTAAGACCTCCGGGCATAATTTTGATTCGCGGTA
66 A-CATAATTTTTTAAGACCTCCGAGCATAATTTTGATTCACGGTA
* * * * *
4675004 TTATCCTGATCAATTCATT-ATTCTTGACTTACGATGTTATCCCAGTCAATTCTGTAAGACAT-T
1 TTATCCTGATCAATTCTTTAATT-TTGACTTACGGTGTTGTCTCAGTCGATTCTGTAA-A-ATCT
* * * * *
4675067 CGGACATGATTTTTATAAGATCTTCGAGTATGATTTTGATTCACGGTA
63 CGGACATAATTTTT-TAAGACCTCCGAGCATAATTTTGATTCACGGTA
*
4675115 TTATCCTGATCAATTCTTTAATTTTGACTTACGGTGTTGTCTCAGTTGATTCTGTAAAATCTCTG
1 TTATCCTGATCAATTCTTTAATTTTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAAATCTC-G
*
4675180 GGCATAATTTT
65 GACATAATTTT
4675191 GATTTACAAT
Statistics
Matches: 151, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
108 3 0.02
109 50 0.33
110 10 0.07
111 85 0.56
112 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.42
Consensus pattern (109 bp):
TTATCCTGATCAATTCTTTAATTTTGACTTACGGTGTTGTCTCAGTCGATTCTGTAAAATCTCGG
ACATAATTTTTTAAGACCTCCGAGCATAATTTTGATTCACGGTA
Found at i:4675288 original size:21 final size:21
Alignment explanation
Indices: 4675262--4675315 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
4675252 AATATCTCCG
*
4675262 AACATGATTTTTAAGACTTTC
1 AACATGATTTTTAAGACTTAC
* *
4675283 GACATGATTTCTAAGACTTAC
1 AACATGATTTTTAAGACTTAC
4675304 AAGCATGATTTT
1 AA-CATGATTTT
4675316 GATTCGGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (21 bp):
AACATGATTTTTAAGACTTAC
Found at i:4675406 original size:22 final size:22
Alignment explanation
Indices: 4675381--4675423 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4675371 GTCGATTCTG
4675381 TAAGACCTTCGGACATGATTTT
1 TAAGACCTTCGGACATGATTTT
*
4675403 TAAGACCTTCGGGCATGATTT
1 TAAGACCTTCGGACATGATTT
4675424 GGATTCACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (22 bp):
TAAGACCTTCGGACATGATTTT
Found at i:4675422 original size:109 final size:109
Alignment explanation
Indices: 4675273--4675838 Score: 570
Period size: 109 Copynumber: 5.2 Consensus size: 109
4675263 ACATGATTTT
* * * *
4675273 TAAGACTTTC-GACATGATTTCTAAGA-CTTACAAGCATGATTTTGATTCG-GCATATTATCCCG
1 TAAGACCTTCGGACATGATTTCTAAGACCTT-CAGGCATAATTTTGATTCGCG-ATGTTATCCCG
* * *
4675335 ATCGATTCTTTAATTTTAACTTGC-AGTGTTGTCCCAGTCGATTCTG
64 ATCGATTCTTTAATTTTGACTTGCGA-TGTTATCTCAGTCGATTCTG
* * * * * *
4675381 TAAGACCTTCGGACATGATTTTTAAGACCTTCGGGCATGATTTGGATTCACGGTGTTATCCCGAT
1 TAAGACCTTCGGACATGATTTCTAAGACCTTCAGGCATAATTTTGATTCGCGATGTTATCCCGAT
*
4675446 CGATTCTTTAATTTCGACTTGCGATGTTATCTCAGTCGATTCTG
66 CGATTCTTTAATTTTGACTTGCGATGTTATCTCAGTCGATTCTG
* ** * * * ** * *
4675490 TAAGACCTCCGGGTATGATTTTTAATACTTTCAGATATAATTTTGATTCGCGGTGTTATCTCGAT
1 TAAGACCTTCGGACATGATTTCTAAGACCTTCAGGCATAATTTTGATTCGCGATGTTATCCCGAT
* * *
4675555 CGATTCTTTAATTTCGTCTTGCGATGTTATC-CGAGTCGATTTTG
66 CGATTCTTTAATTTTGACTTGCGATGTTATCTC-AGTCGATTCTG
* * * * * * * * *
4675599 TAAGACCTCCGAATATTATTTCTAAGACCTTAAGACATAATTTTGATTCACGATGTTATCTCAAT
1 TAAGACCTTCGGACATGATTTCTAAGACCTTCAGGCATAATTTTGATTCGCGATGTTATCCCGAT
* * *
4675664 CAATTCTTTAATTTTGACTTGCGATGTTATCTCAGTTGATTTTG
66 CGATTCTTTAATTTTGACTTGCGATGTTATCTCAGTCGATTCTG
* * * * *
4675708 TAAGACC-TCTGGATATGATTTCTAAGACCTCCGGGTATAATTTTGATTCGCTG-TGTTATTCCG
1 TAAGACCTTC-GGACATGATTTCTAAGACCTTCAGGCATAATTTTGATTCGC-GATGTTATCCCG
** * * * *
4675771 ATCGATTCTTTAATTTTGACTTATGGTATTGTCTCAATCGATTCTG
64 ATCGATTCTTTAATTTTGACTTGCGATGTTATCTCAGTCGATTCTG
*
4675817 TAAGACCTTCGGGCATGATTTC
1 TAAGACCTTCGGACATGATTTC
4675839 AATTCGCAGT
Statistics
Matches: 385, Mismatches: 64, Indels: 17
0.83 0.14 0.04
Matches are distributed among these distances:
108 11 0.03
109 365 0.95
110 9 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (109 bp):
TAAGACCTTCGGACATGATTTCTAAGACCTTCAGGCATAATTTTGATTCGCGATGTTATCCCGAT
CGATTCTTTAATTTTGACTTGCGATGTTATCTCAGTCGATTCTG
Found at i:4675750 original size:22 final size:22
Alignment explanation
Indices: 4675708--4675750 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4675698 GTTGATTTTG
* *
4675708 TAAGACCTCTGGATATGATTTC
1 TAAGACCTCCGGATATAATTTC
*
4675730 TAAGACCTCCGGGTATAATTT
1 TAAGACCTCCGGATATAATTT
4675751 TGATTCGCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (22 bp):
TAAGACCTCCGGATATAATTTC
Found at i:4675856 original size:87 final size:87
Alignment explanation
Indices: 4675730--4675924 Score: 246
Period size: 87 Copynumber: 2.2 Consensus size: 87
4675720 ATATGATTTC
* * ** * * * * *
4675730 TAAGACCTCCGGGTATAATTTTGATTCGCTGTGTTATTCCGATCGATTCTTTAATTTTGACTTAT
1 TAAGACCTCCGGGCATGATTTCAATTCGCAGTATTATTCCAATCGATTATTTAATTTTGACTTAC
* * *
4675795 GGTATTGTCTCAATCGATTCTG
66 AGTATTGTCTCAATCAATTCTA
*
4675817 TAAGACCTTCGGGCATGATTTCAATTCGCAGTATTATTCCAATCGATTATTTAATTTTGACTTAC
1 TAAGACCTCCGGGCATGATTTCAATTCGCAGTATTATTCCAATCGATTATTTAATTTTGACTTAC
* *
4675882 AGTATTGTCTCAGTCAATTTTA
66 AGTATTGTCTCAATCAATTCTA
*
4675904 TAAGACCTCCAGGCATGATTT
1 TAAGACCTCCGGGCATGATTT
4675925 TTAGGACCTC
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (87 bp):
TAAGACCTCCGGGCATGATTTCAATTCGCAGTATTATTCCAATCGATTATTTAATTTTGACTTAC
AGTATTGTCTCAATCAATTCTA
Found at i:4675933 original size:22 final size:23
Alignment explanation
Indices: 4675897--4675946 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
4675887 TGTCTCAGTC
4675897 AATTTTATAAGACCTCCAGGCAT
1 AATTTTATAAGACCTCCAGGCAT
* * *
4675920 GATTTT-TAGGACCTCCGGGCAT
1 AATTTTATAAGACCTCCAGGCAT
4675942 AATTT
1 AATTT
4675947 CAATTCGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (23 bp):
AATTTTATAAGACCTCCAGGCAT
Found at i:4675962 original size:196 final size:196
Alignment explanation
Indices: 4675660--4676032 Score: 464
Period size: 196 Copynumber: 1.9 Consensus size: 196
4675650 GATGTTATCT
* * * ** * * *
4675660 CAATCAATTCTTTAATTTTGACTTGCGATGTTATCTCAGTTGATTTTGTAAGACCTCTGGATATG
1 CAATCAATTATTTAATTTTGACTTACGATATTATCTCAGTCAATTTTATAAGACCTCAGGACATG
* ** ** * *
4675725 ATTTCTAAGACCTCCGGGTATAATTTTGATTCGCTGTGTTAT-TCCGATCGATTCTTTAATTTTG
66 ATTTCTAAGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCT-AGATCGATTCTTTAATTTCG
* * *
4675789 ACTTATGGTATTGTCTCAATCGATTCTGTAAGACCTTCGGGCATGATTTCAATTCGCAGTATTAT
130 ACTTACGATATTATCTCAATCGATTCTGTAAGACCTTCGGGCATGATTTCAATTCGCAGTATTAT
4675854 TC
195 TC
* *
4675856 CAATCGATTATTTAATTTTGACTTAC-AGTATTGTCTCAGTCAATTTTATAAGACCTCCAGG-CA
1 CAATCAATTATTTAATTTTGACTTACGA-TATTATCTCAGTCAATTTTATAAGACCT-CAGGACA
* *
4675919 TGATTTTTAGGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTC
64 TGATTTCTAAGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTC
* * * *
4675984 GACTTACGATGTTATTTCAGTCGATTCTGTAAGACCTTCGGGTATGATT
129 GACTTACGATATTATCTCAATCGATTCTGTAAGACCTTCGGGCATGATT
4676033 GCTAAGACCT
Statistics
Matches: 148, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
195 1 0.01
196 143 0.97
197 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (196 bp):
CAATCAATTATTTAATTTTGACTTACGATATTATCTCAGTCAATTTTATAAGACCTCAGGACATG
ATTTCTAAGACCTCCGGGCATAATTTCAATTCGAGGTGTTATCTAGATCGATTCTTTAATTTCGA
CTTACGATATTATCTCAATCGATTCTGTAAGACCTTCGGGCATGATTTCAATTCGCAGTATTATT
C
Done.