Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 118 of 190
Found at i:35665398 original size:18 final size:17
Alignment explanation
Indices: 35665372--35665413 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
35665362 ACTTAGTAAC
*
35665372 TATAGTTTAGTTTAGTTT
1 TATATTTTAGTTTA-TTT
*
35665390 TATATTTTATTTTATTT
1 TATATTTTAGTTTATTT
35665407 TAT-TTTT
1 TATATTTT
35665414 GGCATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (17 bp):
TATATTTTAGTTTATTT
Found at i:35672476 original size:24 final size:25
Alignment explanation
Indices: 35672417--35672476 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
35672407 CTCACCACAT
35672417 CTCGTATGAGCTTACCGATATTCAG
1 CTCGTATGAGCTTACCGATATTCAG
* * *
35672442 CTCGGAAGAGCTTACCG-TTTATCA-
1 CTCGTATGAGCTTACCGATAT-TCAG
35672466 CTCGTATGAGC
1 CTCGTATGAGC
35672477 CTATATGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGATATTCAG
Found at i:35674599 original size:48 final size:47
Alignment explanation
Indices: 35674539--35674687 Score: 181
Period size: 48 Copynumber: 3.1 Consensus size: 47
35674529 TACTATGCGT
35674539 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGAT-ATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCC
* * * *
35674587 ATCGATATTCTGTTGTGACACAAGGGTGGCACGGATTGTGTGCAGGCC
1 ACCGATA-TCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCC
* * * * * *
35674635 ACCAATAACTTGTTAAGATACAAGGGCGGCACGGACTATGTGCAAGCC
1 ACCGATATC-TGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCC
35674683 ACCGA
1 ACCGA
35674688 GAAATCTGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
47 2 0.02
48 82 0.98
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (47 bp):
ACCGATATCTGTTATGACACAAGGGTGGCACGGACTATGTGCAGGCC
Found at i:35688270 original size:44 final size:44
Alignment explanation
Indices: 35688195--35688912 Score: 566
Period size: 44 Copynumber: 16.3 Consensus size: 44
35688185 CGCCAATGTG
* * * *
35688195 GGAATACAAGATCTG-CATCTTCGATCCACTTC-CTACCAATACA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATATA
* * * * * *
35688238 GGAAAATATGATCTGTTATCTTCGATCTACTTCACGCCAATACA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
* ** *
35688282 TGAAGACAAGATCCACTT-TCTTCGATCAACTTC-CTACCAATATA
1 GGAAGACAAGAT-CTGTTATCTTCGATCTACTTCGC-ACCAATATA
* * *
35688326 GGAAGACAGGATTTGTTATCTTCGATCTACTTCACACCAATATA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
* *
35688370 TGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAATAT-
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCG-CACCAATATA
* * * * *
35688414 GGAAGATAAGATCTG-CATTTTCGATCCACCTC-CTACCAATATA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATATA
* * * * * *
35688457 GGAAGACAGGATTTGTTATCATCGATCTACTTCACGCCAATACA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
* * * * *
35688501 TGAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCTAATACA
1 GGAAGACAAGATCTG-TTATCTTCGATCTACTTCGCACCAATATA
* * * * * *
35688545 TGAAGACAATATCTACTT-TTTTCGATCTACTTCGCCACCAGTATG
1 GGAAGACAAGATCT-GTTATCTTCGATCTACTTCG-CACCAATATA
* * * *
35688590 GGAAGACAAG-T-TGCTATCTTCGATCTACTTCACGCCAATACA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
* * *
35688632 TGAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATG
1 GGAAGACAAGATCTG-TTATCTTCGATCTACTTCG-CACCAATATA
* *
35688677 GGAAGACAAGATCTG-CATCTTCGATCCACTTCGCTACCAATATA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATATA
* * * * * *
35688721 GGAAGACAGGATCTGTTGTCTTCGATTTACTTCACGCCAATACA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
* * * * * *
35688765 TGAAGACTAGATTTGCTT-TCTTCGATATACTTCGCCACCAGTATG
1 GGAAGACAAGATCTG-TTATCTTCGATCTACTTCG-CACCAATATA
* *
35688810 GGAAGACAAGATCTG-CATCTTCGATCCACTTCGCTACCAATATA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGC-ACCAATATA
* * * * * *
35688854 TGAAGATAGGATCTGTTGTCTTCGATCTACTTCACGCCAATATA
1 GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
*
35688898 TGAAGACAAGATCTG
1 GGAAGACAAGATCTG
35688913 CTATTTTTTA
Statistics
Matches: 533, Mismatches: 115, Indels: 53
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.00
42 24 0.05
43 57 0.11
44 351 0.66
45 100 0.19
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
GGAAGACAAGATCTGTTATCTTCGATCTACTTCGCACCAATATA
Found at i:35688801 original size:133 final size:133
Alignment explanation
Indices: 35688211--35688914 Score: 850
Period size: 131 Copynumber: 5.3 Consensus size: 133
35688201 CAAGATCTGC
* * * * * * *
35688211 ATCTTCGATCCACTTC-CTACCAATACAGGAAAATATGATCTG-TTATCTTCGATCTACTTC-AC
1 ATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCC
* *** ** * *
35688273 GCCAATACATGAAGACAAGATCCACTTTCTTCGATCAACTTC-CTACCAATATAGGAAGACAGGA
64 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGA
*
35688337 TTTGTT
128 TCTGTT
* * *
35688343 ATCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* * * *
35688408 CAATAT-GGAAGATAAGATCTGCATTTTCGATCCACCTC-CTACCAATATAGGAAGACAGGATTT
66 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCT
35688471 GTT
131 GTT
* * *
35688474 ATCATCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* *** * * * * * * * * *
35688538 TAATACATGAAGACAATATCTACTTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG-T-
66 CAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATC
*
35688601 TGCT
130 TGTT
35688605 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
*
35688670 CAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCT
66 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCT
35688735 GTT
131 GTT
* * * * *
35688738 GTCTTCGATTTACTTCACGCCAATACATGAAGACTAGATTTGCTTTCTTCGATATACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* * *
35688803 CAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATATGAAGATAGGATCT
66 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCT
35688868 GTT
131 GTT
* *
35688871 GTCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
35688915 ATTTTTTAGC
Statistics
Matches: 497, Mismatches: 66, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
130 6 0.01
131 201 0.40
132 94 0.19
133 196 0.39
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (133 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCT
GTT
Found at i:35688947 original size:133 final size:130
Alignment explanation
Indices: 35688300--35688948 Score: 534
Period size: 133 Copynumber: 4.9 Consensus size: 130
35688290 AGATCCACTT
* * *
35688300 TCTTCGATCAACTTC-CTACCAATATAGGAAGACAGGATTTGTTATCTTCGATCTACTTCACACC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCC
* * * * * * *
35688364 AATATATGAAGACAAGATCTG-TTTTCTTCGATCTACTTCGCCACCA-AT--ATGGAAGATAAGA
66 AATACATGAAGACAAGATCTGCTTTT-TT-TAGC--CTGCTCCA-CAGTTGCA-GGAAGACAAGA
35688425 TCTGCA
125 TCTGCA
* * * *
35688431 TTTTCGATCCACCTC-CTACCAATATAGGAAGACAGGATTTGTTATCATCGATCTACTTCACGCC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCC
* * * * * * * *
35688495 AATACATGAAGACAAGATCTGC-TTTCTTCGATCTACTTCAC-GCTAATACATGAAGACAATATC
66 AATACATGAAGACAAGATCTGCTTTTTTTAG-CCTGCTCCACAG-T--TGCAGGAAGACAAGATC
* *
35688558 TACTT
127 TGC-A
* * * * * * *
35688563 TTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG-T-TGCTATCTTCGATCTACTTCACGCC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCC
** * * *
35688626 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG--GGAAGACAAGAT
66 AATACATGAAGACAAGATCTGCTTT-TTTTAGC--CTGCTCCA-CAGT-TGCAGGAAGACAAGAT
35688689 CTGCA
126 CTGCA
* *
35688694 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTGTCTTCGATTTACTTCACGCC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCC
* * * ** * *
35688759 AATACATGAAGACTAGATTTGCTTTCTTCGATATACTTCGCCACCAGTATG--GGAAGACAAGAT
66 AATACATGAAGACAAGATCTGCTTT-TT--TTAGCCTGCTCCA-CAGT-TGCAGGAAGACAAGAT
35688822 CTGCA
126 CTGCA
* * *
35688827 TCTTCGATCCACTTCGCTACCAATATATGAAGATAGGATCTGTTGTCTTCGATCTACTTCACGCC
1 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCC
* *
35688892 AATATATGAAGACAAGATCTGCTATTTTTTAGCCTGCTCCACTGTTGCCCAGGAAGA
66 AATACATGAAGACAAGATCTGCT-TTTTTTAGCCTGCTCCACAGTTG--CAGGAAGA
35688949 TAAGGCTTTA
Statistics
Matches: 425, Mismatches: 68, Indels: 48
0.79 0.13 0.09
Matches are distributed among these distances:
127 1 0.00
128 5 0.01
129 2 0.00
130 5 0.01
131 178 0.42
132 31 0.07
133 189 0.44
134 9 0.02
135 4 0.01
136 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (130 bp):
TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTTTTTAGCCTGCTCCACAGTTGCAGGAAGACAAGATCTGCA
Found at i:35700752 original size:14 final size:14
Alignment explanation
Indices: 35700733--35700779 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
35700723 ACAATGGCAT
35700733 ATAAATAATATAAA
1 ATAAATAATATAAA
*
35700747 ATAAATAA-ATGAA
1 ATAAATAATATAAA
*
35700760 ATGAATATATATAAA
1 ATAAATA-ATATAAA
35700775 A-AAAT
1 ATAAAT
35700780 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 10 0.37
14 12 0.44
15 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (14 bp):
ATAAATAATATAAA
Found at i:35701139 original size:2 final size:2
Alignment explanation
Indices: 35701132--35701168 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35701122 AAATAAATAA
35701132 AT AT AT AT AT AT AT AT AT AT 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 AT A
35701169 AAAGAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35703175 original size:13 final size:13
Alignment explanation
Indices: 35703157--35703198 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
35703147 AGATTTTTCT
35703157 TAAATATTATCAC
1 TAAATATTATCAC
35703170 TAAATA--ATC-C
1 TAAATATTATCAC
35703180 TAAATATTATCAC
1 TAAATATTATCAC
35703193 TAAATA
1 TAAATA
35703199 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:35703187 original size:23 final size:23
Alignment explanation
Indices: 35703157--35703200 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
35703147 AGATTTTTCT
35703157 TAAATATTATCACTAAATAATCC
1 TAAATATTATCACTAAATAATCC
35703180 TAAATATTATCACTAAATAAT
1 TAAATATTATCACTAAATAAT
35703201 TCAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCC
Found at i:35703207 original size:23 final size:23
Alignment explanation
Indices: 35703158--35703207 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
35703148 GATTTTTCTT
*
35703158 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
35703181 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
35703204 AAAT
1 AAAT
35703208 TTAAAAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:35705006 original size:17 final size:17
Alignment explanation
Indices: 35704984--35705046 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
35704974 ATTGAATCAC
35704984 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
35705001 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
35705021 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
35705038 TACATAATT
1 TACATAATT
35705047 CTTGAAATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 22 0.63
20 13 0.37
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:35705022 original size:37 final size:37
Alignment explanation
Indices: 35704975--35705049 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
35704965 ATTACCCGAA
35704975 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
35705012 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
35705049 T
1 T
35705050 GAAATTAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:35705063 original size:37 final size:37
Alignment explanation
Indices: 35704975--35705066 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
35704965 ATTACCCGAA
*
35704975 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
* *
35705012 TTGAATCACTACATAATTAAAAACATTACATAATTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
35705048 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
35705067 GAAATGTAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 3 0.06
37 45 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:35705265 original size:39 final size:39
Alignment explanation
Indices: 35705179--35705287 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
35705169 GACTTAGAGT
*
35705179 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
* *
35705217 TAGACTTTAGTTTTAGTTTTCTTAGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
35705256 TAGATTTTAGTTTTAGTTTTATTGGGTTGGGT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
35705288 TGGTAATTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
38 25 0.39
39 39 0.61
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.52
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:35705307 original size:13 final size:13
Alignment explanation
Indices: 35705285--35705317 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
35705275 TATTGGGTTG
35705285 GGTT-GGTAATTA
1 GGTTGGGTAATTA
35705297 GGTTGGGTAATTA
1 GGTTGGGTAATTA
35705310 GGTTGGGT
1 GGTTGGGT
35705318 TGGATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (13 bp):
GGTTGGGTAATTA
Found at i:35706825 original size:38 final size:37
Alignment explanation
Indices: 35706745--35706825 Score: 85
Period size: 38 Copynumber: 2.2 Consensus size: 37
35706735 TAATCACTTT
*
35706745 AATATTAAATTAATATAATATTTATCAAGATAAATAT
1 AATATTAAATTAATATAATATTTATCAAGATAAATAG
* * *
35706782 TATATTAAATTTAATATTAA-ATCTTATTAA-ATTAATAG
1 AATATTAAA-TTAATA-TAATAT-TTATCAAGATAAATAG
35706820 AATATT
1 AATATT
35706826 TTTAACAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
37 8 0.22
38 19 0.53
39 9 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (37 bp):
AATATTAAATTAATATAATATTTATCAAGATAAATAG
Found at i:35706851 original size:61 final size:58
Alignment explanation
Indices: 35706747--35706872 Score: 198
Period size: 61 Copynumber: 2.1 Consensus size: 58
35706737 ATCACTTTAA
* * *
35706747 TATTAAATTAATATAATATTTATCAAGATAAATATTATATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATATTTAACAAGATAAATATTAAATTAAATTTAATATTAAATC
35706805 TTATTAAATTAATAGAATATTTTTAACAAGATAAATATTAAATTAAATTTAATATTAAATC
1 -TATTAAATTAATAGAATA--TTTAACAAGATAAATATTAAATTAAATTTAATATTAAATC
35706866 TATTAAA
1 TATTAAA
35706873 ATGTTATTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
59 17 0.27
60 7 0.11
61 38 0.61
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (58 bp):
TATTAAATTAATAGAATATTTAACAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:35711444 original size:16 final size:16
Alignment explanation
Indices: 35711423--35711461 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35711413 GTTTGGTTTA
*
35711423 TTGTAATGCAATAAAG
1 TTGTAATACAATAAAG
*
35711439 TTGTAATATAATAAAG
1 TTGTAATACAATAAAG
*
35711455 CTGTAAT
1 TTGTAAT
35711462 TAGTAATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (16 bp):
TTGTAATACAATAAAG
Found at i:35713566 original size:19 final size:19
Alignment explanation
Indices: 35713542--35713578 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35713532 TTTATAATTT
* *
35713542 ATTCTGTTTTTATTTTTTA
1 ATTCTGTTATAATTTTTTA
35713561 ATTCTGTTATAATTTTTT
1 ATTCTGTTATAATTTTTT
35713579 TTTTTTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.70
Consensus pattern (19 bp):
ATTCTGTTATAATTTTTTA
Found at i:35715695 original size:21 final size:22
Alignment explanation
Indices: 35715669--35715719 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
35715659 CTGTAAGAAT
* *
35715669 GAGTTTTTAATTTTGA-AAATC
1 GAGTTTTTAAATGTGATAAATC
* *
35715690 GAGTTTTGAAATGTGATAAATT
1 GAGTTTTTAAATGTGATAAATC
35715712 GAGTTTTT
1 GAGTTTTT
35715720 CATTAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (22 bp):
GAGTTTTTAAATGTGATAAATC
Found at i:35721087 original size:13 final size:13
Alignment explanation
Indices: 35721069--35721096 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35721059 TCTAGATTTC
35721069 GACCCCAAATACT
1 GACCCCAAATACT
35721082 GACCCCAAATACT
1 GACCCCAAATACT
35721095 GA
1 GA
35721097 TTACCATGGG
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:0.39, C:0.36, G:0.11, T:0.14
Consensus pattern (13 bp):
GACCCCAAATACT
Found at i:35722597 original size:22 final size:22
Alignment explanation
Indices: 35722559--35722616 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
35722549 TTTTTTTAAG
*
35722559 TATATTATTATTTTATTGTAAAT
1 TATATTA-TATTATATTGTAAAT
35722582 TATATTATATTATATTGTAAAT
1 TATATTATATTATATTGTAAAT
35722604 TATATTATATTAT
1 TATATTATATTAT
35722617 TATATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TATATTATATTATATTGTAAAT
Found at i:35722617 original size:25 final size:23
Alignment explanation
Indices: 35722559--35722628 Score: 97
Period size: 22 Copynumber: 3.0 Consensus size: 23
35722549 TTTTTTTAAG
*
35722559 TATATTATTATTTTATTGTAAAT
1 TATATTATTATTATATTGTAAAT
35722582 TATATTA-TATTATATTGTAAAT
1 TATATTATTATTATATTGTAAAT
*
35722604 TATATTATATTATTATATTTTAAAT
1 TATA-T-TATTATTATATTGTAAAT
35722629 AAACAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.43
23 8 0.19
24 2 0.05
25 14 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (23 bp):
TATATTATTATTATATTGTAAAT
Found at i:35722854 original size:13 final size:13
Alignment explanation
Indices: 35722823--35722863 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
35722813 GACGAAACAG
*
35722823 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
35722835 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
35722848 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
35722861 AGA
1 AGA
35722864 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:35724225 original size:39 final size:39
Alignment explanation
Indices: 35724170--35724260 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
35724160 TACTGTTACC
* *
35724170 GTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACT
1 GTTACTGTTACTGATTCGA-CACTTTGTGTGTCGAATACT
*
35724209 GTTACTGTTACTGATTCGATACTTTGTGTGTCGAATACT
1 GTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACT
35724248 GTTACTGTTACTG
1 GTTACTGTTACTG
35724261 TTACCGTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 47 0.98
40 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (39 bp):
GTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACT
Found at i:35724261 original size:12 final size:12
Alignment explanation
Indices: 35724244--35724278 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
35724234 GTGTGTCGAA
*
35724244 TACTGTTACTGT
1 TACTGTTACCGT
35724256 TACTGTTACCGT
1 TACTGTTACCGT
*
35724268 TACCGTTACCG
1 TACTGTTACCG
35724279 ATTCGGCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (12 bp):
TACTGTTACCGT
Found at i:35724276 original size:57 final size:57
Alignment explanation
Indices: 35724209--35724317 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
35724199 GTTGAATACT
* * * * *
35724209 GTTACTGTTACTGATTCGATACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACC
1 GTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGTTACC
*
35724266 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAACACTGTTACCGTTACTG
1 GTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTG
35724318 ATTAATGTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (57 bp):
GTTACCGTTACCGATTCGACACTTTGTGTGTCGAACACTGTTACCGTTACTGTTACC
Found at i:35725192 original size:17 final size:17
Alignment explanation
Indices: 35725145--35725195 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
35725135 ACGTGGCATG
*
35725145 TACCTAAGTAATATATA
1 TACCTAAGTAATGTATA
*
35725162 TACCTAAGTAATGTTTA
1 TACCTAAGTAATGTATA
*
35725179 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
35725196 GGAATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:35726331 original size:22 final size:22
Alignment explanation
Indices: 35726306--35726353 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
35726296 AAAAGTATAG
35726306 TGAACCATGAAATGCTTA-TGAT
1 TGAACCATGAAATGCTTACT-AT
*
35726328 TGAACCATGAAATTCTTACTAT
1 TGAACCATGAAATGCTTACTAT
35726350 TGAA
1 TGAA
35726354 TTGAATGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (22 bp):
TGAACCATGAAATGCTTACTAT
Found at i:35729623 original size:45 final size:45
Alignment explanation
Indices: 35729371--35730167 Score: 684
Period size: 44 Copynumber: 17.8 Consensus size: 45
35729361 GGGCTTGTTG
* * * * *
35729371 CTTCAATCTACTCTACTGCAACTTTAGGGAGATTAGATTTGC-AG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * ** *
35729415 CTTTAATCTGCTCTACTGCAACTTTAAAGAGATAAGACTTG-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
35729459 CTTCAATCTACTCCATTGCAACTTCAGAGAGAT--GATTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
35729501 CTTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTCATAACTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--T-GC---TAT
* ** * *
35729552 CTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* *
35729597 CTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTG-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * *
35729641 CTTCAATCTGCTCCACTGTAATTTTC-GGGAGATAAGATTTG-TAA
1 CTTCAATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTTGCTAT
** * * *
35729685 CTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGACTTG-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * * **
35729729 CTTTAATCTGTTCTACTGCAATTTCAGGGAAATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * **
35729774 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * ** **
35729819 ATTCAATTTGTTCTGCTGCAACTTCAGGGAGATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * *
35729864 CTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTG-GAGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA-T
* * * * * *
35729909 -TTTAATCTGTTCCACTACAACTTTAGAGAGATAAGATTTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * *
35729953 CTTCAATTTGCTCCACTGCAACTTTAGGGAGTTAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * **
35729998 CTTCAATATGCTCCACTGCAACTTCAGGGAGATAAAATTTG-TGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * ** * * *
35730042 CTTTAATTTATTCCACTACAACTTCAAGGAGACAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* **
35730087 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTG-TGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * *
35730131 CTTTAATATGCTTCACTGCAACTTTAGGGGGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
35730168 GTCGCTATGA
Statistics
Matches: 616, Mismatches: 120, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
42 35 0.06
43 3 0.00
44 277 0.45
45 261 0.42
46 1 0.00
48 1 0.00
49 1 0.00
51 37 0.06
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:35729916 original size:134 final size:134
Alignment explanation
Indices: 35729419--35730167 Score: 636
Period size: 134 Copynumber: 5.6 Consensus size: 134
35729409 TTGCAGCTTT
* * * ** * * *
35729419 AATCTGCTCTACTGCAACTTTAAAGAGATAAGACTTG-TATCTTCAATCTACTCCATTGCAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * * *
35729483 CAGAGAGAT--GATTTGTAGCTTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTCATAAC
66 CAGGGAGATAAGATTTGGAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTC---AC
* *
35729546 TTGTAGCTTT
128 -TATA--TTC
* * * *
35729556 AATCTATTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAATTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * * * * * **
35729621 CAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGTAATTTTC-GGGAGATAAGATT-TGTA
66 CAGGGAGATAAGATTTGGAGCTTTAATCTGCTCCACTGCAA-CTTCAGAGAGATAAGATTCACTA
35729684 -ACTTC
130 TA-TTC
* * * * * * * *
35729689 AATCTATTCCACTGCAACTTCAAGGAGATAAGACTTG-TAACTTTAATCTGTTCTACTGCAATTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* *** * * *
35729753 CAGGGAAATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCACTA
66 CAGGGAGATAAGATT-TGGAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCACTA
35729818 TATTC
130 TATTC
* ** ** *
35729823 AATTTGTTCTGCTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTGCTCCACTACAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * * * * *
35729888 CAGAGAGATAAGATTTGGAGTTTTAATCTGTTCCACTACAACTTTAGAGAGATAAGATTTACTAT
66 CAGGGAGATAAGATTTGGAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCACTAT
*
35729953 CTTC
131 ATTC
* * * * *
35729957 AATTTGCTCCACTGCAACTTTAGGGAGTTAAGATTTGCTATCTTCAATATGCTCCACTGCAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * ** * * **
35730022 CAGGGAGATAAAATTTGTG-GCTTTAATTTATTCCACTACAACTTCA-AGGAGACAAGATTTGCT
66 CAGGGAGATAAGATTTG-GAGCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTCACT
*
35730085 ATCTTC
129 ATATTC
* * ** * * *
35730091 AATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTG-TGGCTTTAATATGCTTCACTGCAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* *
35730155 TAGGGGGATAAGA
66 CAGGGAGATAAGA
35730168 GTCGCTATGA
Statistics
Matches: 507, Mismatches: 94, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
132 40 0.08
133 103 0.20
134 223 0.44
135 37 0.07
137 28 0.06
138 32 0.06
140 40 0.08
141 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (134 bp):
AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
CAGGGAGATAAGATTTGGAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCACTAT
ATTC
Found at i:35729945 original size:179 final size:177
Alignment explanation
Indices: 35729389--35730167 Score: 577
Period size: 179 Copynumber: 4.4 Consensus size: 177
35729379 TACTCTACTG
* * * * * * * **
35729389 CAACTTTAGGGAGATTAGATTTGC-AGCTTTAATCTGCTCTACTGCAACTTTAAAGAGATAAGAC
1 CAACTTTAGGGAAATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-
* * * * * * ** * * *
35729453 TT-GTATCTTCAATCTACTCCATTGCAACTTCAGAGAGAT--GATTTGTAGCTTTAATCTGCTCC
65 TTACTATATTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTACTAACTTCAATCTACTCC
* * * * * *
35729515 ACTGCAATTTCAGGGAGATAAGATTCATAACTTGTAGCTTTAATCTATTCCACTA
130 ACTACAACTTCAAGGAGATAAG-------ACTTGGAACTTTAATCTGTTCCACTA
* * *
35729570 CAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGAT
1 CAACTTTAGGGAAATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * ** *
35729635 TTGTA-ACTTCAATCTGCTCCACTGTAATTTTC-GGGAGATAAGATTTGTAACTTCAATCTATTC
66 TACTATA-TTCAATATGCTCCACTGCAA-CTTCAGGGAGATAAGATTACTAACTTCAATCTACTC
* * * *
35729698 CACTGCAACTTCAAGGAGATAAGACTTGTAACTTTAATCTGTTCTACTG
129 CACTACAACTTCAAGGAGATAAGACTTGGAACTTTAATCTGTTCCACTA
* * *
35729747 CAA-TTTCAGGGAAATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGA
1 CAACTTT-AGGGAAATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * ** * *
35729811 TTCACTATATTCAATTTGTTCTGCTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTGCT
65 TT-ACTATATTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTAACTTCAATCTACT
* **
35729876 CCACTACAACTTC-AGAGAGATAAGATTTGGAGTTTTAATCTGTTCCACTA
128 CCACTACAACTTCAAG-GAGATAAGACTTGGAACTTTAATCTGTTCCACTA
* * * * *
35729926 CAACTTTAGAGAGATAAGATTTACTATCTTCAATTTGCTCCACTGCAACTTTAGGGAGTTAAGAT
1 CAACTTTAGGGAAATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-
* * * ** ** * * *
35729991 TTGCTATCTTCAATATGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTTAATTTATTCC
65 TTACTATATTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTACTAACTTCAATCTACTCC
* * * * * * * *
35730056 ACTACAACTTCAAGGAGACAAGATTTGCTATCTTCAATCTGCTCCATTG
130 ACTACAACTTCAAGGAGATAAGACTTG-GAACTTTAATCTGTTCCACTA
* * * ** * * * * *
35730105 CAACTTCAGGGAGATAAGATTT-GTGGCTTTAATATGCTTCACTGCAACTTTAGGGGGATAAGA
1 CAACTTTAGGGAAATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
35730168 GTCGCTATGA
Statistics
Matches: 489, Mismatches: 93, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
176 2 0.00
177 82 0.17
178 99 0.20
179 178 0.36
180 5 0.01
181 23 0.05
182 58 0.12
183 3 0.01
184 39 0.08
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (177 bp):
CAACTTTAGGGAAATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TACTATATTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTACTAACTTCAATCTACTCCA
CTACAACTTCAAGGAGATAAGACTTGGAACTTTAATCTGTTCCACTA
Found at i:35730127 original size:89 final size:88
Alignment explanation
Indices: 35729371--35730154 Score: 653
Period size: 89 Copynumber: 8.8 Consensus size: 88
35729361 GGGCTTGTTG
* * * * * * *
35729371 CTTCAATCTACTCTACTGCAACTTTAGGGAGATTAGATTTGCAGCTTTAATCTGCTCTACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
* * *
35729436 CTTTAAAGAGATAAGACTTGTAT
66 CTTCAAGGAGATAAGATTTGTAT
* * * *
35729459 CTTCAATCTACTCCATTGCAACTTCAGAGAGAT--GATTTGTAGCTTTAATCTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
* * *
35729522 TTTCAGGGAGATAAGATTCATAACTTGTAG
66 CTTCAAGGAGATAAG----AT---TTGTAT
* ** * * *
35729552 CTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCA
* * *
35729617 ATTTCAGGGAGATAAGATTTGTAA
65 ACTTCAAGGAGATAAGATTTGTAT
* * * **
35729641 CTTCAATCTGCTCCACTGTAATTTTC-GGGAGATAAGATTTGTAACTTCAATCTATTCCACTGCA
1 CTTCAATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
* *
35729705 ACTTCAAGGAGATAAGACTTGTAA
65 ACTTCAAGGAGATAAGATTTGTAT
* * * * * ** * *
35729729 CTTTAATCTGTTCTACTGCAATTTCAGGGAAATAAGATTCACTATCTTCAATCTACTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCTGCTCCACTGCA
**
35729794 ACTTC-AGAGAGATAAGATTCACTAT
65 ACTTCAAG-GAGATAAGATT-TGTAT
* * * ** ** * *
35729819 ATTCAATTTGTTCTGCTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTGCTCCACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCTGCTCCACTGCA
*
35729884 ACTTC-AGAGAGATAAGATTTGGAGT
65 ACTTCAAG-GAGATAAGATTTGTA-T
* * * * * * * *
35729909 -TTTAATCTGTTCCACTACAACTTTAGAGAGATAAGATTTACTATCTTCAATTTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-GTAGCTTCAATCTGCTCCACTGCA
* * *
35729973 ACTTTAGGGAGTTAAGATTTGCTAT
65 ACTTCAAGGAGATAAGATTTG-TAT
* * * * * ** *
35729998 CTTCAATATGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTTAATTTATTCCACTACAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
*
35730063 CTTCAAGGAGACAAGATTTGCTAT
66 CTTCAAGGAGATAAGATTTG-TAT
* * * * *
35730087 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATATGCTTCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
35730152 CTT
66 CTT
35730155 TAGGGGGATA
Statistics
Matches: 578, Mismatches: 98, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
86 39 0.07
87 4 0.01
88 101 0.17
89 240 0.42
90 117 0.20
92 2 0.00
93 32 0.06
95 6 0.01
96 37 0.06
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (88 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
CTTCAAGGAGATAAGATTTGTAT
Found at i:35750119 original size:20 final size:21
Alignment explanation
Indices: 35750094--35750133 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
35750084 AATTTTGCCG
*
35750094 AAAAATATTATAAA-TATTAT
1 AAAAATATAATAAATTATTAT
35750114 AAAAATATAATAAATTATTA
1 AAAAATATAATAAATTATTA
35750134 GAAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATATAATAAATTATTAT
Found at i:35757140 original size:23 final size:23
Alignment explanation
Indices: 35757110--35757155 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35757100 GAAGTCTTGG
35757110 GTTCAAGCTTGGGCTTGTGCACA
1 GTTCAAGCTTGGGCTTGTGCACA
35757133 GTTCAAGCTTGGGCTTGTGCACA
1 GTTCAAGCTTGGGCTTGTGCACA
35757156 AAATTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.30
Consensus pattern (23 bp):
GTTCAAGCTTGGGCTTGTGCACA
Found at i:35758361 original size:97 final size:97
Alignment explanation
Indices: 35758195--35758383 Score: 378
Period size: 97 Copynumber: 1.9 Consensus size: 97
35758185 GGTGGGGGCA
35758195 ATTTTCTCAACAAATAGGAACTAGGTGTGTAAACACTGCCTAAATCGTAAACCGATAAAAGTCAA
1 ATTTTCTCAACAAATAGGAACTAGGTGTGTAAACACTGCCTAAATCGTAAACCGATAAAAGTCAA
35758260 AAAATATGACAATTGACGCTACACGAGAGTGG
66 AAAATATGACAATTGACGCTACACGAGAGTGG
35758292 ATTTTCTCAACAAATAGGAACTAGGTGTGTAAACACTGCCTAAATCGTAAACCGATAAAAGTCAA
1 ATTTTCTCAACAAATAGGAACTAGGTGTGTAAACACTGCCTAAATCGTAAACCGATAAAAGTCAA
35758357 AAAATATGACAATTGACGCTACACGAG
66 AAAATATGACAATTGACGCTACACGAG
35758384 CGTGCGCTCG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (97 bp):
ATTTTCTCAACAAATAGGAACTAGGTGTGTAAACACTGCCTAAATCGTAAACCGATAAAAGTCAA
AAAATATGACAATTGACGCTACACGAGAGTGG
Found at i:35758510 original size:19 final size:18
Alignment explanation
Indices: 35758476--35758527 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
35758466 TTGGCTGTTT
35758476 TGGGCCATGTTGGGCCGAAA
1 TGGGCCATG-TGGGCC-AAA
* *
35758496 TGGGCCGTGTGGGCCCAA
1 TGGGCCATGTGGGCCAAA
*
35758514 TGGG-CTTGTGGGCC
1 TGGGCCATGTGGGCC
35758528 CCACATAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 6 0.21
20 8 0.28
ACGTcount: A:0.12, C:0.23, G:0.44, T:0.21
Consensus pattern (18 bp):
TGGGCCATGTGGGCCAAA
Found at i:35758819 original size:27 final size:26
Alignment explanation
Indices: 35758759--35758836 Score: 63
Period size: 27 Copynumber: 3.0 Consensus size: 26
35758749 AACTGATATA
* * *
35758759 AAATGACTGTTATGCCCTCACATGGT-G
1 AAATGACTGTTATGCCC-C-TATGTTAT
35758786 AAATGACTGTTATGCCCCTATGTTAT
1 AAATGACTGTTATGCCCCTATGTTAT
* *
35758812 AAATTGACT-ATATG-CTCTATGTTAT
1 AAA-TGACTGTTATGCCCCTATGTTAT
35758837 GTATGACTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 14 0.32
26 8 0.18
27 22 0.50
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (26 bp):
AAATGACTGTTATGCCCCTATGTTAT
Found at i:35760207 original size:18 final size:18
Alignment explanation
Indices: 35760184--35760220 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
35760174 AATAGAATAG
35760184 TCTCAACTTCTCTCACGT
1 TCTCAACTTCTCTCACGT
35760202 TCTCAACTTCTCTCACGT
1 TCTCAACTTCTCTCACGT
35760220 T
1 T
35760221 TTCTCACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.38, G:0.05, T:0.41
Consensus pattern (18 bp):
TCTCAACTTCTCTCACGT
Found at i:35761508 original size:37 final size:38
Alignment explanation
Indices: 35761456--35761553 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 38
35761446 GGCTTAGACC
* * **
35761456 CACTATTGTGCTGTGTAGGGTTGACGAGCATATTATAG
1 CACTATTGTGGTGTGTAGGGTGGACGAGCATACCATAG
* *
35761494 C-CTATTGTGGTGTGTAGGGTGGACGGGCCTACCATAG
1 CACTATTGTGGTGTGTAGGGTGGACGAGCATACCATAG
* *
35761531 CACAATTGTGGTATGTAGGGTGG
1 CACTATTGTGGTGTGTAGGGTGG
35761554 TCGGAGTGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 31 0.61
38 20 0.39
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.31
Consensus pattern (38 bp):
CACTATTGTGGTGTGTAGGGTGGACGAGCATACCATAG
Found at i:35763083 original size:18 final size:18
Alignment explanation
Indices: 35763062--35763100 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35763052 TTGATTTTCG
35763062 AATTCGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
35763080 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
35763098 AAT
1 AAT
35763101 AAACTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:35763188 original size:30 final size:30
Alignment explanation
Indices: 35763147--35763207 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
35763137 AAACCTATCT
*
35763147 ACTTTCCCCCAAAATTTTTACTC-CCTCCC
1 ACTTTCCCCCAAAACTTTTACTCTCCTCCC
*
35763176 ACTTTCCCCCCAAAACTTTTATTCTCCTCCC
1 ACTTT-CCCCCAAAACTTTTACTCTCCTCCC
35763207 A
1 A
35763208 TCCCAACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.18
30 16 0.57
31 7 0.25
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.34
Consensus pattern (30 bp):
ACTTTCCCCCAAAACTTTTACTCTCCTCCC
Found at i:35769889 original size:76 final size:77
Alignment explanation
Indices: 35769794--35769936 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 77
35769784 CAATACAAAA
* *
35769794 ACTTATACATGTATATACATACATATTCGAAATTACATATAC-ATACATAACATTCATACCTTTA
1 ACTTATACATGTATATACATACATATTCCAAATCACATATACAATACATAACATTCATACCTTTA
35769858 AATATAGTCAAG
66 AATATAGTCAAG
* * * * *
35769870 ACTTATTCATG-AGTATACATATATGTTCCAACTCACATATACATATATATAACATTCATACCTT
1 ACTTATACATGTA-TATACATACATATTCCAAATCACATATACA-ATACATAACATTCATACCTT
35769934 TAA
64 TAA
35769937 CCAAGTCCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.02
76 34 0.60
78 22 0.39
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (77 bp):
ACTTATACATGTATATACATACATATTCCAAATCACATATACAATACATAACATTCATACCTTTA
AATATAGTCAAG
Found at i:35771453 original size:34 final size:34
Alignment explanation
Indices: 35771378--35771447 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
35771368 CAAATAAAAT
* *
35771378 GCTTAAAACAATATGTAACCCATGTAAATGAGAT
1 GCTTAAAACAATATGTAACCCATGTAAATCAGAA
35771412 GCTTAAAACAATATGTAACCCATGT-AATCA-AA
1 GCTTAAAACAATATGTAACCCATGTAAATCAGAA
35771444 GCTT
1 GCTT
35771448 TTAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 5 0.15
33 4 0.12
34 25 0.74
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (34 bp):
GCTTAAAACAATATGTAACCCATGTAAATCAGAA
Found at i:35791189 original size:27 final size:27
Alignment explanation
Indices: 35790945--35791197 Score: 265
Period size: 27 Copynumber: 9.4 Consensus size: 27
35790935 CCCTAAAATA
* * *
35790945 GGTATAATGACCGTAATGCCCTTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
35790972 GGTAAAATGACCGTAATGTCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
** *
35790999 GGTAAAATGAATGTAATGCCCATGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
35791026 GGTAAAAAGACCGTAATGTCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * * *
35791053 GATAAAATGACTGTAATACTCATGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* **
35791080 GGTAAAATGACCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
35791107 GATAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
** * *
35791134 GGTAAAATGATTGTAATGCCCTTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
35791161 GGTAAAATGACCATAATGCCCCTGGAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
35791188 GGT-AAATGAC
1 GGTAAAATGAC
35791198 TATTTTGCCC
Statistics
Matches: 184, Mismatches: 42, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
26 7 0.04
27 177 0.96
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:35791206 original size:26 final size:26
Alignment explanation
Indices: 35791111--35791222 Score: 82
Period size: 27 Copynumber: 4.2 Consensus size: 26
35791101 CCATAGGATA
*
35791111 AAATGACCGTAATGCCCCT-GTAGGGT
1 AAATGACCATAATGCCCCTCG-AGGGT
*** * **
35791137 AAAATGATTGTAATGCCCTTATAGGGT
1 -AAATGACCATAATGCCCCTCGAGGGT
*
35791164 AAAATGACCATAATGCCCCTGGAGGGT
1 -AAATGACCATAATGCCCCTCGAGGGT
* ** *
35791191 AAATGACTATTTTGCCCCTCGAGTGT
1 AAATGACCATAATGCCCCTCGAGGGT
35791217 AAATGA
1 AAATGA
35791223 TTGATTTATC
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
26 27 0.39
27 42 0.61
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (26 bp):
AAATGACCATAATGCCCCTCGAGGGT
Found at i:35791245 original size:24 final size:24
Alignment explanation
Indices: 35791214--35791276 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
35791204 GCCCCTCGAG
*
35791214 TGTAAATGATTGATTTATCCGTGA
1 TGTAAATGACTGATTTATCCGTGA
* *
35791238 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTATCCGTGA
* **
35791262 TTTGTATGACTGATT
1 TGTAAATGACTGATT
35791277 CTGAGCATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (24 bp):
TGTAAATGACTGATTTATCCGTGA
Found at i:35791493 original size:32 final size:32
Alignment explanation
Indices: 35791446--35791618 Score: 213
Period size: 32 Copynumber: 5.4 Consensus size: 32
35791436 TTACTACGAT
35791446 GTTACTGATGGCTTTGTGCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * * *
35791478 GTTACTGACGACTTTGTGCTGGTCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* *
35791510 GTTACTGATGGCTTTATGTCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * * *
35791542 GATACTGATGGCTATGTGCCGATCATATCACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * *
35791574 GCTACTGATGGCTTTGTGCCAATCATATTACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
*
35791606 G-TACTTATGGCTT
1 GTTACTGATGGCTT
35791619 GTAGCCATTC
Statistics
Matches: 120, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
31 11 0.09
32 109 0.91
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCGATCATATTACC
Found at i:35797051 original size:17 final size:17
Alignment explanation
Indices: 35797031--35797067 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
35797021 ACAAAATAAA
*
35797031 GTGAAAGATAGTAAATT
1 GTGAAAGATAGTAAAGT
35797048 GTGAAAGATAGTAAAGT
1 GTGAAAGATAGTAAAGT
35797065 GTG
1 GTG
35797068 CATAAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (17 bp):
GTGAAAGATAGTAAAGT
Found at i:35797138 original size:45 final size:44
Alignment explanation
Indices: 35797026--35797122 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 44
35797016 AAAAGACAAA
*
35797026 ATAAAG-TGAAAGATAG-TAAATTGTGAAAGATAGTAAAGTGTGC
1 ATAAAGTTGAAA-AAAGATAAATTGTGAAAGATAGTAAAGTGTGC
35797069 ATAAAGTTGAAAAAAGACTAAATTGTGAAAGATAGTAAAGTGTGC
1 ATAAAGTTGAAAAAAGA-TAAATTGTGAAAGATAGTAAAGTGTGC
35797114 ATAAAGTTG
1 ATAAAGTTG
35797123 TGATTTTGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
43 9 0.18
44 5 0.10
45 36 0.72
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (44 bp):
ATAAAGTTGAAAAAAGATAAATTGTGAAAGATAGTAAAGTGTGC
Found at i:35797808 original size:46 final size:46
Alignment explanation
Indices: 35797730--35797828 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 46
35797720 AGTGTTATTG
* * * *
35797730 ATCAGAGGTAGCTTCGGTTACATATCAATGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACATATCAATGGTAACTTTGGCTACAT
* *
35797776 TTCAGTGGTAGCTACGGCTACATATCAGTGGTAACTTTGGCTACAT
1 ATCAGTGGTAGCTACGGCTACATATCAATGGTAACTTTGGCTACAT
35797822 ATCAGTG
1 ATCAGTG
35797829 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTACGGCTACATATCAATGGTAACTTTGGCTACAT
Found at i:35797827 original size:23 final size:23
Alignment explanation
Indices: 35797730--35797828 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
35797720 AGTGTTATTG
* *
35797730 ATCAGAGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
35797753 ATCAATGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
35797776 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
35797799 ATCAGTGGTAACTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
35797822 ATCAGTG
1 ATCAGTG
35797829 TGGCACTTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:35799215 original size:23 final size:23
Alignment explanation
Indices: 35799177--35799254 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
35799167 AGCACATAAC
*
35799177 TGCTAAATT-AGGAGCACCAAAA
1 TGCTAAATTCAGGAGCACCAAAG
*
35799199 TGCTAGATTCAGGAGCACCAAAG
1 TGCTAAATTCAGGAGCACCAAAG
* *
35799222 TGTTAAATTCAGGAGCACCGAAG
1 TGCTAAATTCAGGAGCACCAAAG
35799245 TGCTAAATTC
1 TGCTAAATTC
35799255 TCAAGTGCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
22 8 0.16
23 41 0.84
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (23 bp):
TGCTAAATTCAGGAGCACCAAAG
Found at i:35801719 original size:18 final size:19
Alignment explanation
Indices: 35801689--35801725 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
35801679 TCTCAATATG
35801689 ATTTCAAATTTC-ACATTT
1 ATTTCAAATTTCAACATTT
35801707 ATTTCAACA-TTCAACATTT
1 ATTTCAA-ATTTCAACATTT
35801726 TCACATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTCAAATTTCAACATTT
Found at i:35805710 original size:28 final size:27
Alignment explanation
Indices: 35805677--35805775 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
35805667 TAATGAGATT
*
35805677 AGCACTAAGTGTGCGTGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
35805704 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
35805733 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
35805761 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35805776 TACTTATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 55 0.92
29 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:35806814 original size:22 final size:22
Alignment explanation
Indices: 35806789--35806863 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
35806779 TTTGTGTTAT
35806789 AAATTTAATGTATAATGCTGTC
1 AAATTTAATGTATAATGCTGTC
35806811 AAATTTTAA-GTATATTGATGCTGTC
1 AAA-TTTAATGTATA---ATGCTGTC
* *
35806836 CATTTTAATGTATAATGCTGTC
1 AAATTTAATGTATAATGCTGTC
*
35806858 CAATTT
1 AAATTT
35806864 TGAGTATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 21 0.47
23 5 0.11
24 5 0.11
25 14 0.31
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (22 bp):
AAATTTAATGTATAATGCTGTC
Found at i:35806863 original size:47 final size:46
Alignment explanation
Indices: 35806790--35806954 Score: 172
Period size: 47 Copynumber: 3.5 Consensus size: 46
35806780 TTGTGTTATA
*
35806790 AATTTAATGTATAATGCTGTCAAATTTTAAGTATATTGATGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATT-ATGCTGTCC
* * * *
35806837 ATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATA-TTATGCTGTCC
*** *
35806884 AATTCGGTGTATAATGCTGTCC-A-TTTAGAGCATATTATTGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTA-AGTATATTA-TGCTGTCC
* *
35806930 AATTTGATGAATAATTGCTGTCCAA
1 AATTTAATGTATAA-TGCTGTCCAA
35806955 AACAAGGTTG
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
45 6 0.06
46 23 0.24
47 65 0.67
48 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (46 bp):
AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTATGCTGTCC
Found at i:35806881 original size:25 final size:24
Alignment explanation
Indices: 35806803--35806934 Score: 89
Period size: 22 Copynumber: 5.6 Consensus size: 24
35806793 TTAATGTATA
*
35806803 ATGCTGTCAAATTTTAAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
35806827 GATGCTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
*
35806850 ATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTTAAGTATA-TT
* * ** * *
35806875 AAGCTGTCTAA--TTCGGTGTATA
1 ATGCTGTCCAATTTTAAGTATATT
*
35806897 ATGCTGTCC-A-TTTAGAGCATATT
1 ATGCTGTCCAATTTTA-AGTATATT
35806920 ATTGCTGTCCAATTT
1 A-TGCTGTCCAATTT
35806935 GATGAATAAT
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 24 0.29
23 17 0.21
24 15 0.18
25 23 0.28
26 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.43
Consensus pattern (24 bp):
ATGCTGTCCAATTTTAAGTATATT
Found at i:35806950 original size:23 final size:23
Alignment explanation
Indices: 35806790--35806954 Score: 99
Period size: 25 Copynumber: 7.1 Consensus size: 23
35806780 TTGTGTTATA
* *
35806790 AATTTAATGTATAA-TGCTGTCA
1 AATTTGATGTATAATTGCTGTCC
* * *
35806812 AATTTTAAGTATATTGATGCTGTCC
1 AATTTGATGTATAAT--TGCTGTCC
* *
35806837 ATTTTAATGTATAA-TGCTGTCC
1 AATTTGATGTATAATTGCTGTCC
* *
35806859 AATTTTGA-GTATATTTAAGCTGTCT
1 AA-TTTGATGTATAATT--GCTGTCC
* *
35806884 AATTCGGTGTATAA-TGCTGTCC
1 AATTTGATGTATAATTGCTGTCC
*
35806906 -ATTTAGA-GCATATTATTGCTGTCC
1 AATTT-GATG--TATAATTGCTGTCC
*
35806930 AATTTGATGAATAATTGCTGTCC
1 AATTTGATGTATAATTGCTGTCC
35806953 AA
1 AA
35806955 AACAAGGTTG
Statistics
Matches: 108, Mismatches: 21, Indels: 27
0.69 0.13 0.17
Matches are distributed among these distances:
21 4 0.04
22 32 0.30
23 23 0.21
24 14 0.13
25 35 0.32
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (23 bp):
AATTTGATGTATAATTGCTGTCC
Found at i:35808000 original size:93 final size:93
Alignment explanation
Indices: 35807841--35808026 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
35807831 AAATAACACA
35807841 ATCATACAAAACTATGCTTCACATAATATTCATCACAAAGATTAGTTAAGTGTATAATCTTCCAA
1 ATCATACAAAACTATGCTTCACATAATATTCATCACAAAGATTAGTTAAGTGTATAATCTTCCAA
35807906 AGTCATACTATCATAGTTTACCGAAACT
66 AGTCATACTATCATAGTTTACCGAAACT
*
35807934 ATCATACAAAACTATGCTTCGCATAATATTCATCACAAAGATTAGTTAAGTGTATAATCTTCCAA
1 ATCATACAAAACTATGCTTCACATAATATTCATCACAAAGATTAGTTAAGTGTATAATCTTCCAA
35807999 AGTCATACTATCATAGTTTACCGAAACT
66 AGTCATACTATCATAGTTTACCGAAACT
35808027 CCTAACGTAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (93 bp):
ATCATACAAAACTATGCTTCACATAATATTCATCACAAAGATTAGTTAAGTGTATAATCTTCCAA
AGTCATACTATCATAGTTTACCGAAACT
Found at i:35817496 original size:29 final size:29
Alignment explanation
Indices: 35817464--35817522 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
35817454 ACATTTTCAC
35817464 ACTCAAATAATCAAAATAGACATGAAACT
1 ACTCAAATAATCAAAATAGACATGAAACT
35817493 ACTCAAATAATCAAAATAGACATGAAACT
1 ACTCAAATAATCAAAATAGACATGAAACT
35817522 A
1 A
35817523 TTACTAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.20
Consensus pattern (29 bp):
ACTCAAATAATCAAAATAGACATGAAACT
Found at i:35823817 original size:42 final size:42
Alignment explanation
Indices: 35823770--35823858 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
35823760 TTATGAGGAA
*
35823770 GTTGAAAATTTGCAGAATGATGATGATCTAAAGAGTACGTTG
1 GTTGAAAATTTGCAGAATGATGATGATCTAAAGAGTACGGTG
35823812 GTTGAAAATTTGCAGAATGATGATGATCTAAAGAGTACGGTG
1 GTTGAAAATTTGCAGAATGATGATGATCTAAAGAGTACGGTG
35823854 GTTGA
1 GTTGA
35823859 TTCGGAGTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (42 bp):
GTTGAAAATTTGCAGAATGATGATGATCTAAAGAGTACGGTG
Found at i:35825881 original size:22 final size:22
Alignment explanation
Indices: 35825856--35825899 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35825846 TATATGGGTG
35825856 ACAAAAAAATTCTTATGCTTCA
1 ACAAAAAAATTCTTATGCTTCA
35825878 ACAAAAAAATTCTTATGCTTCA
1 ACAAAAAAATTCTTATGCTTCA
35825900 TACATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (22 bp):
ACAAAAAAATTCTTATGCTTCA
Found at i:35826218 original size:20 final size:20
Alignment explanation
Indices: 35826190--35826270 Score: 94
Period size: 20 Copynumber: 4.1 Consensus size: 20
35826180 ATTATAAAAT
35826190 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
* *
35826210 AATTTAAAATGATTTTT-AA
1 AATTCAAAATAATTTTTAAA
*
35826229 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTTTAAA
* *
35826248 AACTTCAAAATAAATTCTAAA
1 AA-TTCAAAATAATTTTTAAA
35826269 AA
1 AA
35826271 ATATATGAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
18 5 0.10
19 15 0.29
20 23 0.44
21 9 0.17
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:35826269 original size:39 final size:39
Alignment explanation
Indices: 35826190--35826269 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
35826180 ATTATAAAAT
* * * * *
35826190 AATTCAAAATAATTTTTAAAAATTTAAAATGATTTTTAA
1 AATTCAAAATAATTTATAAAAATTCAAAATAAATTCTAA
35826229 AATTCAAAAT-ATTTATAAAAACTTCAAAATAAATTCTAA
1 AATTCAAAATAATTTATAAAAA-TTCAAAATAAATTCTAA
35826268 AA
1 AA
35826270 AATATATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 10 0.29
39 25 0.71
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (39 bp):
AATTCAAAATAATTTATAAAAATTCAAAATAAATTCTAA
Found at i:35827704 original size:16 final size:15
Alignment explanation
Indices: 35827683--35827713 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
35827673 AAACGATTCA
35827683 TATATAAACTTTTTTT
1 TATATAAA-TTTTTTT
35827699 TATATAAATTTTTTT
1 TATATAAATTTTTTT
35827714 ATCCAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATAAATTTTTTT
Found at i:35827710 original size:14 final size:15
Alignment explanation
Indices: 35827683--35827715 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
35827673 AAACGATTCA
35827683 TATATAAACTTTTTTT
1 TATATAAAC-TTTTTT
35827699 TATATAAA-TTTTTT
1 TATATAAACTTTTTT
35827713 TAT
1 TAT
35827716 CCAATTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATATAAACTTTTTT
Found at i:35830883 original size:12 final size:13
Alignment explanation
Indices: 35830866--35830894 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35830856 ATGTACAATT
35830866 GAAAAAAAA-TGA
1 GAAAAAAAATTGA
35830878 GAAAAAAAATTGA
1 GAAAAAAAATTGA
35830891 GAAA
1 GAAA
35830895 TTGAAAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (13 bp):
GAAAAAAAATTGA
Found at i:35831030 original size:24 final size:25
Alignment explanation
Indices: 35830980--35831030 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
35830970 GACTCAAATT
* **
35830980 AAAATTTTTATTTATTTATTTTATA
1 AAAATTTTAATTTATTTATAATATA
*
35831005 AAAATTTTAATTT-TTTATAATGTA
1 AAAATTTTAATTTATTTATAATATA
35831029 AA
1 AA
35831031 CATAAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AAAATTTTAATTTATTTATAATATA
Found at i:35834523 original size:21 final size:21
Alignment explanation
Indices: 35834499--35834538 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
35834489 CTGTGCGGAG
35834499 GAGGCACACGA-CCGTGTGGAT
1 GAGGCACAC-ACCCGTGTGGAT
35834520 GAGGCACACACCCGTGTGG
1 GAGGCACACACCCGTGTGG
35834539 GACAGGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
GAGGCACACACCCGTGTGGAT
Found at i:35836995 original size:107 final size:107
Alignment explanation
Indices: 35836809--35837028 Score: 386
Period size: 107 Copynumber: 2.1 Consensus size: 107
35836799 AAGTTTTAAG
* * *
35836809 AGGATATTTGGCTAGTTAGTCGAACGAGAAATCGAAACCCAGCACGTTGGGGCACGTTTTCTCGA
1 AGGATATTTGGCCAGTTAGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
*
35836874 ATTTCCTAACGCAAAACATTGCCTCGTTTTGAAATTATTGAA
66 ATTTCCAAACGCAAAACATTGCCTCGTTTTGAAATTATTGAA
* *
35836916 AGGATATTTGGCCATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCCAGTTAGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
35836981 ATTTCCAAACGCAAAACATTGCCTCGTTTTGAAATTATTGAA
66 ATTTCCAAACGCAAAACATTGCCTCGTTTTGAAATTATTGAA
35837023 AGGATA
1 AGGATA
35837029 AAATACAATG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (107 bp):
AGGATATTTGGCCAGTTAGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
ATTTCCAAACGCAAAACATTGCCTCGTTTTGAAATTATTGAA
Found at i:35837450 original size:2 final size:2
Alignment explanation
Indices: 35837443--35837475 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35837433 AATTTAAAAG
35837443 AT AT AT AT AT AT AT AT 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 A
35837476 ATAGTTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35839305 original size:43 final size:43
Alignment explanation
Indices: 35839251--35839439 Score: 110
Period size: 44 Copynumber: 4.3 Consensus size: 43
35839241 CTGTGGTTTT
* *
35839251 AATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGGCTTC
1 AATCTACTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTC
* * * * * * ** **
35839294 AATGTACTCCACTG-TAATCTCAGGAAGGTAAAATCCGCCATCTTC
1 AATCTACTCCACTGCT--GCCCAGGGAGATAGAA-CTACCGGCTTC
* * * ** * *****
35839339 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
1 AATCTACTCCACTGCTGCCCAGGGAGAT-AGAACTACCGGCTTC
*
35839383 AATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTC
1 AATCTACTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTC
*
35839426 AATGTACTCCACTG
1 AATCTACTCCACTG
35839440 TAATCTCAAG
Statistics
Matches: 102, Mismatches: 39, Indels: 10
0.68 0.26 0.07
Matches are distributed among these distances:
42 1 0.01
43 33 0.32
44 49 0.48
45 18 0.18
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
AATCTACTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTC
Found at i:35839323 original size:131 final size:133
Alignment explanation
Indices: 35838983--35839475 Score: 730
Period size: 132 Copynumber: 3.7 Consensus size: 133
35838973 TTTCGTCTGC
* * * *
35838983 TCTTCAATCTATTTCACTGTTGTCCAGGGA-AGTAGAACTACTGGCTTCAATGTACTCTACTGTA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGAACTACTGGCTTCAATGTACTCCACTGTA
* * *
35839047 ATCTCA-GAGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAATATCT
66 ATCTCAGGA-AGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
35839111 GTAA
130 GTAA
* * * *
35839115 TCTTCAATCTATTCCACTGTTGCCCA-GGAAAGTAGAATTTCTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGAACTACTGGCTTCAATGTACTCCACTGTA
* * * * *
35839179 ACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
66 ATCTCAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
**
35839244 TGG
131 TAA
*
35839247 T-TTTAATCTATTCCACTGCTGCCCAGGGAGA-TAGAACTACTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGAACTACTGGCTTCAATGTACTCCACTGTA
35839310 ATCTCAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 ATCTCAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
35839375 TAA
131 TAA
*
35839378 TCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAACTACCGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGAACTACTGGCTTCAATGTACTCCACTGTA
*
35839442 ATCTCAAGG-AGGTAAAATCCGCCATCTTCAATCT
66 ATCTC-AGGAAGGTAAAATCCGCCATCTTCGATCT
35839476 TCAATCTTCA
Statistics
Matches: 328, Mismatches: 28, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
131 117 0.36
132 207 0.63
133 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (133 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGAGTAGAACTACTGGCTTCAATGTACTCCACTGTA
ATCTCAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
TAA
Found at i:35839477 original size:7 final size:7
Alignment explanation
Indices: 35839465--35839496 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
35839455 AAAATCCGCC
35839465 ATCTTCA
1 ATCTTCA
35839472 ATCTTCA
1 ATCTTCA
35839479 ATCTTCA
1 ATCTTCA
35839486 ATCTTCA
1 ATCTTCA
35839493 ATCT
1 ATCT
35839497 ATTCCACTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
ATCTTCA
Found at i:35839481 original size:21 final size:21
Alignment explanation
Indices: 35839457--35839496 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35839447 AAGGAGGTAA
*
35839457 AATCCGCCATCTTCAATCTTC
1 AATCCGCAATCTTCAATCTTC
**
35839478 AATCTTCAATCTTCAATCT
1 AATCCGCAATCTTCAATCT
35839497 ATTCCACTGC
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:0.28, C:0.33, G:0.03, T:0.38
Consensus pattern (21 bp):
AATCCGCAATCTTCAATCTTC
Found at i:35839568 original size:110 final size:109
Alignment explanation
Indices: 35839376--35839585 Score: 348
Period size: 110 Copynumber: 1.9 Consensus size: 109
35839366 TAAGATCTGT
**
35839376 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGCAACCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
35839441 AATCTCAAGGAGGTAAAATCCGCCATCTTCAATCTTCAATCTTC
66 AATCTCAAGGAGGTAAAATCCGCCATCTTCAATCTTCAATCTTC
* *
35839485 AATCTTCAATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTG-CAACCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTG
* * *
35839550 TAGTCTCATGGAGGTAAAATCCGCCATCTTCGATCT
65 TAATCTCAAGGAGGTAAAATCCGCCATCTTCAATCT
35839586 GCTCCACTAC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 21 0.23
110 72 0.77
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (109 bp):
AATCTTCAATCTATTCCACTGCAACCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
AATCTCAAGGAGGTAAAATCCGCCATCTTCAATCTTCAATCTTC
Found at i:35839697 original size:242 final size:227
Alignment explanation
Indices: 35839251--35839815 Score: 873
Period size: 242 Copynumber: 2.4 Consensus size: 227
35839241 CTGTGGTTTT
** * *
35839251 AATCTATTCCACTG-CTGCCCAGGGAGATAGAACTA-CTGGCTTCAATGTACTCCACTGTAATCT
1 AATCTATTCCACTGCCAACCCAGGGAGATAGAATTATC-GGCTTCAATGTACTCCACTGTAGTCT
35839314 CAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
65 CAGG-AGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
35839379 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGTAAT
129 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGTAAT
35839444 CTCAAGGAGGTAAAATCCGCCATCTTCAATCTTCAATCTTCAATCTTC
194 CTCAAGGAGGTAAAATCCG-----------C--C-ATCTTCAATCTTC
35839492 AATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCTC
1 AATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCTC
35839557 ATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
66 A-GGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
*
35839622 TTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGTAATC
130 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGTAATC
*
35839687 TCAGGGAGGTAAAATCCGCCATCTTCAATCTTC
195 TCAAGGAGGTAAAATCCGCCATCTTCAATCTTC
35839720 AATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCTC
1 AATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCTC
* * *
35839785 AGGGAGGTAAAATCTGCCATATTTGATCTGC
66 A-GGAGGTAAAATCCGCCATCTTCGATCTGC
35839816 CCCGCTGTCG
Statistics
Matches: 311, Mismatches: 10, Indels: 19
0.91 0.03 0.06
Matches are distributed among these distances:
228 105 0.34
229 1 0.00
231 1 0.00
241 14 0.05
242 187 0.60
243 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (227 bp):
AATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCTC
AGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCT
TCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGTAATCT
CAAGGAGGTAAAATCCGCCATCTTCAATCTTC
Found at i:35839785 original size:96 final size:95
Alignment explanation
Indices: 35839618--35839804 Score: 302
Period size: 96 Copynumber: 2.0 Consensus size: 95
35839608 TAAGATCTGT
***
35839618 AATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGCAACCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
35839683 AATCTCAGGGAGGTAAAATCCGCCATCTTC
66 AATCTCAGGGAGGTAAAATCCGCCATCTTC
* *
35839713 AATCTTCAATCTATTCCACTGCCAACCCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 AATCTTCAATCTATTCCACTG-CAACCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTG
* *
35839778 TAGTCTCAGGGAGGTAAAATCTGCCAT
65 TAATCTCAGGGAGGTAAAATCCGCCAT
35839805 ATTTGATCTG
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 21 0.25
96 63 0.75
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (95 bp):
AATCTTCAATCTATTCCACTGCAACCCAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
AATCTCAGGGAGGTAAAATCCGCCATCTTC
Found at i:35839878 original size:45 final size:46
Alignment explanation
Indices: 35839829--35839943 Score: 139
Period size: 44 Copynumber: 2.6 Consensus size: 46
35839819 GCTGTCGATG
* * *
35839829 CAGGAGGGCAAGATCTGCTATCTTTAG-TCTGCTCCACTGTTAGTA
1 CAGGAAGGCAAGATCTGCTATCTTTAGATCTGCTCCACCGTCAGTA
* * *
35839874 CAGGAAGGCAAGA-CTGGCT-TC-TTCGATCTGCTTCGCCGTCAGTA
1 CAGGAAGGCAAGATCT-GCTATCTTTAGATCTGCTCCACCGTCAGTA
35839918 CAGGAAGGCAAGATCTGCTATCTTTA
1 CAGGAAGGCAAGATCTGCTATCTTTA
35839944 ACCAGCTCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
43 3 0.05
44 34 0.59
45 19 0.33
46 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (46 bp):
CAGGAAGGCAAGATCTGCTATCTTTAGATCTGCTCCACCGTCAGTA
Found at i:35840016 original size:43 final size:43
Alignment explanation
Indices: 35839967--35840103 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
35839957 CAACCGATGG
35839967 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
* * ** * * * * * * *
35840010 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAA-CCGATGA
1 AGGCAAGGTTTTG-T-T-TTCGATCTGCTTCGCTGTTAATGC-AGGA
35840054 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
35840097 AGGCAAG
1 AGGCAAG
35840104 ATCTGCTATC
Statistics
Matches: 65, Mismatches: 22, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
42 15 0.23
43 21 0.32
44 14 0.22
45 15 0.23
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
Found at i:35840291 original size:87 final size:87
Alignment explanation
Indices: 35839895--35840284 Score: 620
Period size: 87 Copynumber: 4.5 Consensus size: 87
35839885 GACTGGCTTC
* * * *
35839895 TTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
35839960 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
*
35839982 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
35840047 CCGATGAAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
35840069 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
35840134 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* * * * * **
35840156 TTTGATCTGCTTTGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
35840221 CCGA-GAGAGGCAAGGTTTGTGTC
66 CCGATG-GAGGCAAGGTTT-TGTT
*
35840244 TTCGATCTGCTTCGCTATTAATGCAGGAAGGCAAGATCTGC
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
35840285 AACTTCATCG
Statistics
Matches: 281, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
86 1 0.00
87 240 0.85
88 40 0.14
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGTTTTGTT
Found at i:35840903 original size:108 final size:108
Alignment explanation
Indices: 35840714--35840909 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
35840704 TGAAAATGCT
35840714 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
35840779 CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
66 AAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
* * * **
35840822 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAA
*
35840886 TAAATCAAGATAGCAAATTTTGCT
65 TAAATCAAGACAGCAAATTTTGCT
35840910 AGAATACAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 76 0.95
109 4 0.05
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.24
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
AAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:35840951 original size:45 final size:47
Alignment explanation
Indices: 35840883--35840970 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 47
35840873 CTAAATGAAC
* *
35840883 AAATAAATCAAGATAGCAAATTTTG-CTAGAATACAAA-ATGAGAAT
1 AAATAAATCAAGATAGCAAATTTTGTCAAAAATACAAAGATGAGAAT
* * **
35840928 AAATTAATCAAGATGGCGTATTTTGTCAAAAATACAAAGATGA
1 AAATAAATCAAGATAGCAAATTTTGTCAAAAATACAAAGATGA
35840971 ATAAAATGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 21 0.60
46 10 0.29
47 4 0.11
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (47 bp):
AAATAAATCAAGATAGCAAATTTTGTCAAAAATACAAAGATGAGAAT
Found at i:35841262 original size:13 final size:13
Alignment explanation
Indices: 35841244--35841293 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
35841234 TTGGCCTCTC
35841244 CTTTTTC-TCTTTT
1 CTTTTTCGT-TTTT
35841257 CTTTTTCGTTTTT
1 CTTTTTCGTTTTT
* *
35841270 CTTTTCCTTTTTTT
1 CTTTTTC-GTTTTT
35841284 CTTTTT-GTTT
1 CTTTTTCGTTT
35841294 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 3 0.10
13 17 0.55
14 11 0.35
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (13 bp):
CTTTTTCGTTTTT
Found at i:35841278 original size:32 final size:30
Alignment explanation
Indices: 35841242--35841305 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
35841232 CCTTGGCCTC
*
35841242 TCCTTTTTCTCTTTTCTTTTTCGTTTTTCTTT
1 TCCTTTTTCTCTTTT-TGTTTC-TTTTTCTTT
* *
35841274 TCCTTTTTTTCTTTTTGTTTCTTTTTTTTT
1 TCCTTTTTCTCTTTTTGTTTCTTTTTCTTT
35841304 TC
1 TC
35841306 AAGTGAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 10 0.34
31 5 0.17
32 14 0.48
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (30 bp):
TCCTTTTTCTCTTTTTGTTTCTTTTTCTTT
Found at i:35841281 original size:7 final size:6
Alignment explanation
Indices: 35841244--35841305 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
35841234 TTGGCCTCTC
*
35841244 CTTTTT CTCTTTT CTTTTT CGTTTTT CTTTTC CTTTTT -TTCTTT -TTGTTT
1 CTTTTT CT-TTTT CTTTTT C-TTTTT CTTTTT CTTTTT CTT-TTT CTT-TTT
35841294 CTTTTT -TTTTT C
1 CTTTTT CTTTTT C
35841306 AAGTGAAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 7 0.15
6 27 0.56
7 14 0.29
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:35841302 original size:19 final size:21
Alignment explanation
Indices: 35841258--35841302 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
35841248 TTCTCTTTTC
*
35841258 TTTTTCGTTTTTCTTTTCCTT
1 TTTTTCGTTTTTCGTTTCCTT
*
35841279 TTTTTC-TTTTT-GTTTCTTT
1 TTTTTCGTTTTTCGTTTCCTT
35841298 TTTTT
1 TTTTT
35841303 TTCAAGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 5 0.23
21 6 0.27
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (21 bp):
TTTTTCGTTTTTCGTTTCCTT
Found at i:35841756 original size:1 final size:1
Alignment explanation
Indices: 35841740--35841815 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
35841730 CCGGTAGAGG
* * * * * * * * * *
35841740 TTTTTTCTTTTGTTTTTGTTTTTGTTTTTGTTTTTTTGTTGTTTTTTTGTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
35841805 GTTTTTTTTTT
1 TTTTTTTTTTT
35841816 GCCTCCACTG
Statistics
Matches: 53, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:35841756 original size:6 final size:6
Alignment explanation
Indices: 35841747--35841816 Score: 83
Period size: 6 Copynumber: 11.8 Consensus size: 6
35841737 AGGTTTTTTC
* *
35841747 TTTTGT TTTTGT TTTTGT TTTTGT TTTT-T TGTTGT TTTT-T TGTTGTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT T-TT-TGT
35841795 TTTTGT TTTTGT TTTT-T TTTTG
1 TTTTGT TTTTGT TTTTGT TTTTG
35841817 CCTCCACTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
5 11 0.20
6 40 0.71
7 3 0.05
8 2 0.04
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:35841756 original size:12 final size:11
Alignment explanation
Indices: 35841740--35841816 Score: 82
Period size: 11 Copynumber: 6.6 Consensus size: 11
35841730 CCGGTAGAGG
*
35841740 TTTTTTCTTTT
1 TTTTTTGTTTT
*
35841751 GTTTTTGTTTT
1 TTTTTTGTTTT
35841762 TGTTTTTGTTTT
1 T-TTTTTGTTTT
*
35841774 TTTGTTGTTTT
1 TTTTTTGTTTT
*
35841785 TTTGTTGTTTTTT
1 TTT-TT-TGTTTT
35841798 TGTTTTTGTTTT
1 T-TTTTTGTTTT
35841810 TTTTTTG
1 TTTTTTG
35841817 CCTCCACTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
11 27 0.49
12 18 0.33
13 8 0.15
14 2 0.04
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.84
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:35841777 original size:14 final size:13
Alignment explanation
Indices: 35841740--35841815 Score: 91
Period size: 14 Copynumber: 5.7 Consensus size: 13
35841730 CCGGTAGAGG
*
35841740 TTTTTTCTTTTG-
1 TTTTTTTTTTTGT
*
35841752 TTTTTGTTTTTGT
1 TTTTTTTTTTTGT
35841765 TTTTGTTTTTTTGT
1 TTTT-TTTTTTTGT
*
35841779 TGTTTTTTTGTTGT
1 T-TTTTTTTTTTGT
35841793 TTTTTTGTTTTTGT
1 TTTTTT-TTTTTGT
35841807 TTTTTTTTT
1 TTTTTTTTT
35841816 GCCTCCACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
12 10 0.18
13 12 0.22
14 30 0.55
15 3 0.05
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:35844822 original size:107 final size:107
Alignment explanation
Indices: 35844657--35844854 Score: 333
Period size: 107 Copynumber: 1.9 Consensus size: 107
35844647 TAGTTAGTTT
* * * *
35844657 AACGAGAAATCGAAACCCAGCACGTTGGGGCACGTTTTCTCAAATTTCCTAACGCAAAACATTGC
1 AACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAAACACAAAACATTGC
35844722 CTCGTTTTGAAATTATTGAAAGGATATTTGGCCATTTGGTCA
66 CTCGTTTTGAAATTATTGAAAGGATATTTGGCCATTTGGTCA
** *
35844764 AACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTTGAATTTTCAAACACAAAACATTGC
1 AACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAAACACAAAACATTGC
35844829 CTCGTTTTGAAATTATTGAAAGGATA
66 CTCGTTTTGAAATTATTGAAAGGATA
35844855 AAATACAATG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 84 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (107 bp):
AACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAAACACAAAACATTGC
CTCGTTTTGAAATTATTGAAAGGATATTTGGCCATTTGGTCA
Found at i:35847363 original size:43 final size:43
Alignment explanation
Indices: 35847147--35847356 Score: 242
Period size: 43 Copynumber: 4.9 Consensus size: 43
35847137 TTTATGTGGA
* * ** *
35847147 AAACACCGCTATAGAACATGATCTTTAGCAACGCTTTCCCTAC
1 AAACGCCGCTATAGAACATGATTTTTAGCGGCGCTTTTCCTAC
* * *
35847190 AAACGCCGCTATAGAACATGATCTTTCGCGGTGCTTTTCCTAC
1 AAACGCCGCTATAGAACATGATTTTTAGCGGCGCTTTTCCTAC
* *
35847233 AAACGCCGCTATAGAACATGATTTTTAACGGCACTTTTCCTAC
1 AAACGCCGCTATAGAACATGATTTTTAGCGGCGCTTTTCCTAC
* * **
35847276 AAACGCCACTATAGAACATGATATTTAGCGAG-GCTTTTATTAC
1 AAACGCCGCTATAGAACATGATTTTTAGCG-GCGCTTTTCCTAC
* * * *
35847319 AAACGCCGCTAAAGAATATGTTTTTTAGCGGCGTTTTT
1 AAACGCCGCTATAGAACATGATTTTTAGCGGCGCTTTT
35847357 TTTACAAGTG
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 140 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGATTTTTAGCGGCGCTTTTCCTAC
Found at i:35847795 original size:21 final size:21
Alignment explanation
Indices: 35847771--35847812 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35847761 GCCTTTGCTA
*
35847771 CCCTTGCTGCCGCCTCTACTT
1 CCCTTGCTGCCGCCTCCACTT
*
35847792 CCCTTGCTGCTGCCTCCACTT
1 CCCTTGCTGCCGCCTCCACTT
35847813 TAAGTTGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.48, G:0.14, T:0.33
Consensus pattern (21 bp):
CCCTTGCTGCCGCCTCCACTT
Found at i:35856720 original size:22 final size:22
Alignment explanation
Indices: 35856694--35856748 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
35856684 CTGTGGTGTA
35856694 GTGGCAAGGTGGCGA-CACAGGT
1 GTGGCAAGGTGGC-ATCACAGGT
35856716 GTGGCAAGGAGGTGGCATCACAGGT
1 GTGGC-A--AGGTGGCATCACAGGT
35856741 GTGGCAAG
1 GTGGCAAG
35856749 AGTTGATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 7 0.24
23 1 0.03
24 2 0.07
25 19 0.66
ACGTcount: A:0.24, C:0.16, G:0.45, T:0.15
Consensus pattern (22 bp):
GTGGCAAGGTGGCATCACAGGT
Found at i:35856728 original size:25 final size:25
Alignment explanation
Indices: 35856700--35856748 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
35856690 TGTAGTGGCA
35856700 AGGTGGCGA-CACAGGTGTGGCAAGG
1 AGGTGGC-ATCACAGGTGTGGCAAGG
35856725 AGGTGGCATCACAGGTGTGGCAAG
1 AGGTGGCATCACAGGTGTGGCAAG
35856749 AGTTGATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.24, C:0.16, G:0.45, T:0.14
Consensus pattern (25 bp):
AGGTGGCATCACAGGTGTGGCAAGG
Found at i:35858145 original size:27 final size:27
Alignment explanation
Indices: 35858087--35858147 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
35858077 GGGAAAGGTT
*
35858087 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
35858114 ATAAAATTACCGAAATACCCTCG-TAGG
1 GTAAAATTACCGAAATACCCTCGAT-GG
35858141 GTAAAAT
1 GTAAAAT
35858148 GACGATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGATGG
Found at i:35858664 original size:28 final size:28
Alignment explanation
Indices: 35858633--35858732 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
35858623 TACTGTGTGA
*
35858633 GGCTAAGGCCCACACTAATTTTGTATTG
1 GGCTAAGGCCCACACTAATTCTGTATTG
*
35858661 GGCTAAGGCCAACACTAATTCTGTATTG
1 GGCTAAGGCCCACACTAATTCTGTATTG
* *
35858689 GGCTAAGGCTCACACTGATTCTGTATTG
1 GGCTAAGGCCCACACTAATTCTGTATTG
*
35858717 GGCTAAGGCACACACT
1 GGCTAAGGCCCACACT
35858733 GTACTGTTAC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (28 bp):
GGCTAAGGCCCACACTAATTCTGTATTG
Found at i:35861398 original size:64 final size:63
Alignment explanation
Indices: 35861273--35861453 Score: 235
Period size: 64 Copynumber: 2.9 Consensus size: 63
35861263 GCAAACAAAC
*
35861273 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAATTTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATTAAA-TTCAGCTCAAA-AACTTTGTAACCTA
35861334 T
63 T
*
35861335 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCCGCTCAAAAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
* * * *
35861399 ATTTGAACCACATATGTATATATAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTT
35861454 AAATATATAT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
62 18 0.17
63 2 0.02
64 74 0.70
65 12 0.11
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
Found at i:35865048 original size:43 final size:43
Alignment explanation
Indices: 35864960--35865192 Score: 267
Period size: 43 Copynumber: 5.4 Consensus size: 43
35864950 CGAGGTTACA
* * * * * *
35864960 TGTAAGACCATATCTGGGATA-TGGCATCAATATAATAATTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
35865002 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
* *
35865045 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
* * * *
35865088 TGTAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
* *
35865131 TGTAAGACCATAG-CTGGG-CTATTGGCATCGATACGAG-ATTACA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGAGAATT-CG
* *
35865174 TCTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
35865193 TATGATATTG
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
42 22 0.13
43 144 0.86
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGAATTCG
Found at i:35873587 original size:19 final size:19
Alignment explanation
Indices: 35873542--35873600 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
35873532 ATAAAAAAAA
* *
35873542 CAAAGTAATTTTCAAAATCT
1 CAAAATAATTTTTAAAAT-T
*
35873562 GAAAATAATTTTTAAAATT
1 CAAAATAATTTTTAAAATT
*
35873581 CAAAAT-ATTTATAGAAATT
1 CAAAATAATTTTTA-AAATT
35873600 C
1 C
35873601 TAATATTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 15 0.45
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
CAAAATAATTTTTAAAATT
Found at i:35875820 original size:17 final size:17
Alignment explanation
Indices: 35875798--35875858 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
35875788 ATTAAATCAC
35875798 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
35875815 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
35875835 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
35875852 TACATAA
1 TACATAA
35875859 ATCTTAAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:35875833 original size:37 final size:37
Alignment explanation
Indices: 35875792--35875863 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
35875782 AACTGAATTA
* *
35875792 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAATCTTTG
35875829 AATCACTACATAATTAAAAACATTACATAAATCTT
1 AATCACTACATAATTAAAAACATTACATAAATCTT
35875864 AAAATTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAATCTTTG
Found at i:35875877 original size:37 final size:37
Alignment explanation
Indices: 35875791--35875880 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
35875781 TAACTGAATT
* * * *
35875791 AAATCACTACATAATTAAAAATATTACATAAGTCTTT
1 AAATAACTACATAATTAAAAACATTACATAAATCTTA
* *
35875828 GAATCACTACATAATTAAAAACATTACATAAATCTTA
1 AAATAACTACATAATTAAAAACATTACATAAATCTTA
35875865 AAATTAAC-ACATAATT
1 AAA-TAACTACATAATT
35875881 GAAATGTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 43 0.93
38 3 0.07
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.32
Consensus pattern (37 bp):
AAATAACTACATAATTAAAAACATTACATAAATCTTA
Found at i:35876010 original size:18 final size:18
Alignment explanation
Indices: 35875987--35876032 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
35875977 TATTTATATA
35875987 TTATTTTTTAAATTATTT
1 TTATTTTTTAAATTATTT
*
35876005 TTATTTATTAAATTATTT
1 TTATTTTTTAAATTATTT
* *
35876023 GTAATTTTTA
1 TTATTTTTTA
35876033 TGATTGGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTTTTTAAATTATTT
Found at i:35879794 original size:10 final size:11
Alignment explanation
Indices: 35879777--35879801 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35879767 TTTTGTTTTG
35879777 TTTTTTTTCTT
1 TTTTTTTTCTT
35879788 TTTTTTTTCTT
1 TTTTTTTTCTT
35879799 TTT
1 TTT
35879802 CGTTCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:35888414 original size:42 final size:43
Alignment explanation
Indices: 35888338--35888444 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 43
35888328 CAATTTGAGA
* * *
35888338 ATTACATGTAAGACCATGTTTGGGACATTAGCATCG-TATCTG
1 ATTACATGTAAGACCATGTCTGAGACAGTAGCATCGATATCTG
* * * * *
35888380 ATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGATATTTG
1 ATTACATGTAAGACCATGTCTGAGACAGTAGCATCGATATCTG
*
35888423 ATTACATGTAAGACCACGTCTG
1 ATTACATGTAAGACCATGTCTG
35888445 GGACGTTGGC
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 29 0.56
43 23 0.44
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGAGACAGTAGCATCGATATCTG
Found at i:35888455 original size:43 final size:43
Alignment explanation
Indices: 35888300--35888456 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
35888290 TGTGTTATCG
*
35888300 TGTAAGACCACGTCTGGAACGTTGGCATC-A-ATTTGAGAATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTT--G-ATTACA
* * * * * * *
35888344 TGTAAGACCATGTTTGGGACATTAGCATCG-TATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
*
35888386 TGTAAGACC-CTGTCTGAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
35888429 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
35888457 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 28 0.31
43 33 0.37
44 25 0.28
45 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:35890542 original size:21 final size:22
Alignment explanation
Indices: 35890516--35890557 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35890506 AAGGGACTTT
*
35890516 ATGATGATGTTTGAC-TATGAG
1 ATGATGATGTATGACTTATGAG
35890537 ATGATGATGTATGACTTATGA
1 ATGATGATGTATGACTTATGA
35890558 TTTTGAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (22 bp):
ATGATGATGTATGACTTATGAG
Found at i:35897610 original size:20 final size:19
Alignment explanation
Indices: 35897584--35897628 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
35897574 GTAGGCAACT
35897584 TTTTTTTTACGCTTTTTGC
1 TTTTTTTTACGCTTTTTGC
*
35897603 TCTTTTTTTCCGCTTTTTGC
1 T-TTTTTTTACGCTTTTTGC
35897623 TTTTTT
1 TTTTTT
35897629 CTGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.02, C:0.18, G:0.09, T:0.71
Consensus pattern (19 bp):
TTTTTTTTACGCTTTTTGC
Found at i:35899777 original size:6 final size:6
Alignment explanation
Indices: 35899755--35899796 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
35899745 TACTATATTA
*
35899755 ATTTTT AATTATTT ATTTTT ATTTCT ATTTTT A-TTTT ATTTT
1 ATTTTT -ATT-TTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
35899797 AGGTCGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 5 0.16
6 17 0.55
7 6 0.19
8 3 0.10
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:35902842 original size:17 final size:17
Alignment explanation
Indices: 35902820--35902856 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
35902810 TTACCATCTC
35902820 TTTCTTCTTCTTCTTCT
1 TTTCTTCTTCTTCTTCT
* *
35902837 TTTCTTTTTCTTTTTCT
1 TTTCTTCTTCTTCTTCT
35902854 TTT
1 TTT
35902857 TGCCACAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTCTTCTTCTTCTTCT
Found at i:35902855 original size:6 final size:6
Alignment explanation
Indices: 35902820--35902857 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
35902810 TTACCATCTC
* *
35902820 TTTCTT CTTCTT CTTC-T TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
35902858 GCCACAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:35906242 original size:19 final size:20
Alignment explanation
Indices: 35906218--35906267 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
35906208 AATTACGGGC
35906218 TTTTGGAATTTTAATTTTG-
1 TTTTGGAATTTTAATTTTGA
* *
35906237 TTTTGGGACTTTAATTTTGA
1 TTTTGGAATTTTAATTTTGA
*
35906257 TTTTGGTATTT
1 TTTTGGAATTT
35906268 ATTTTGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (20 bp):
TTTTGGAATTTTAATTTTGA
Found at i:35907517 original size:19 final size:19
Alignment explanation
Indices: 35907493--35907533 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
35907483 ATTATGCTTG
35907493 ATGATAATTCAATTTAATT
1 ATGATAATTCAATTTAATT
35907512 ATGATAATTCAATTTAATT
1 ATGATAATTCAATTTAATT
35907531 ATG
1 ATG
35907534 TGTGTGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (19 bp):
ATGATAATTCAATTTAATT
Found at i:35912188 original size:68 final size:67
Alignment explanation
Indices: 35912097--35912232 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 67
35912087 AATCGATAGC
* * *
35912097 TAATCTACCCTAAAACCCAAATTCGAAGTTAGTTACAAACCCTG-AACTGAGTTAATCTTCCTGA
1 TAATCTACCATAAAACCCAAATTCAAAGTTAGTTAC-AACCCTGAAAC-GAGTTAATCTTCATGA
35912161 TTGG
64 TTGG
*
35912165 TAATCTACCATAAATCCCAAATTCAAAGTTAGTTACAACCCTGAAACGAGTTAATCTTCATGATT
1 TAATCTACCATAAAACCCAAATTCAAAGTTAGTTACAACCCTGAAACGAGTTAATCTTCATGATT
35912230 GG
66 GG
35912232 T
1 T
35912233 TTATTGATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 27 0.43
68 36 0.57
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.30
Consensus pattern (67 bp):
TAATCTACCATAAAACCCAAATTCAAAGTTAGTTACAACCCTGAAACGAGTTAATCTTCATGATT
GG
Found at i:35912278 original size:17 final size:17
Alignment explanation
Indices: 35912258--35912295 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
35912248 GTTTGTCTAT
*
35912258 TTTTCTTTATTTATTTC
1 TTTTCTTTATTTATTTA
35912275 TTTTCTTTATTTATTTA
1 TTTTCTTTATTTATTTA
35912292 TTTT
1 TTTT
35912296 TAGTCCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTATTTATTTA
Found at i:35913532 original size:14 final size:14
Alignment explanation
Indices: 35913513--35913542 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35913503 TAAGTACTAA
*
35913513 AAGTAACATATTTT
1 AAGTAAAATATTTT
35913527 AAGTAAAATATTTT
1 AAGTAAAATATTTT
35913541 AA
1 AA
35913543 CCTCATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (14 bp):
AAGTAAAATATTTT
Done.