Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 199 of 235
Found at i:67857633 original size:23 final size:22
Alignment explanation
Indices: 67857601--67857644 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
67857591 TTACATAAAT
*
67857601 ATTTTCAAAAAATATAATAATAA
1 ATTTT-AAAAAATATAAAAATAA
67857624 ATTTTAAAAAATATAAAAATA
1 ATTTTAAAAAATATAAAAATA
67857645 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTTTAAAAAATATAAAAATAA
Found at i:67857692 original size:24 final size:25
Alignment explanation
Indices: 67857595--67857692 Score: 55
Period size: 25 Copynumber: 3.9 Consensus size: 25
67857585 ATAAAATTAC
67857595 ATAAATATTTTCAAAAA-ATATAATA-
1 ATAAATA-TTT-AAAAATATATAATAT
*
67857620 ATAAAT-TTTAAAAAATATAAAAATAT
1 ATAAATATTT-AAAAATAT-ATAATAT
* * *
67857646 AAAAAATTATTGATAAGA-A-ATAATAT
1 -ATAAA-TATTTA-AAAATATATAATAT
67857672 ATAAATATTT-AAAATATATAA
1 ATAAATATTTAAAAATATATAA
67857693 AAAAATTCAA
Statistics
Matches: 55, Mismatches: 9, Indels: 19
0.66 0.11 0.23
Matches are distributed among these distances:
22 3 0.05
23 9 0.16
24 10 0.18
25 15 0.27
26 6 0.11
27 4 0.07
28 3 0.05
29 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (25 bp):
ATAAATATTTAAAAATATATAATAT
Found at i:67857720 original size:21 final size:19
Alignment explanation
Indices: 67857667--67857711 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
67857657 GATAAGAAAT
* * *
67857667 AATATATAAATATTTAAAA
1 AATATAAAAAAATTCAAAA
*
67857686 TATATAAAAAAATTCAAAA
1 AATATAAAAAAATTCAAAA
67857705 AATATAA
1 AATATAA
67857712 TAATAAATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AATATAAAAAAATTCAAAA
Found at i:67857863 original size:51 final size:51
Alignment explanation
Indices: 67857787--67857895 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
67857777 CTTATCCTAG
*
67857787 TCCCTCTCCCCTTCCCCCACCAGACCTCCCTCACCAC-CATCATTTTCTCTC
1 TCCCTCTCCCCTTCCCCCACCAGACCTCCCTCACCACTCA-CATTCTCTCTC
** * * *
67857838 TCCCTCTCCCCTTCCTTCACTAGACCTTCCTCACCACTGACATTCTCTCTC
1 TCCCTCTCCCCTTCCCCCACCAGACCTCCCTCACCACTCACATTCTCTCTC
67857889 TCCCTCT
1 TCCCTCT
67857896 TTGCTATTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.13, C:0.53, G:0.03, T:0.31
Consensus pattern (51 bp):
TCCCTCTCCCCTTCCCCCACCAGACCTCCCTCACCACTCACATTCTCTCTC
Found at i:67859197 original size:41 final size:41
Alignment explanation
Indices: 67859140--67859234 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
67859130 GTGTCATACT
* * * * *
67859140 TTACATGTAATCAGTATCTATGGTAATAATTAGTGGCATGC
1 TTACATGCAATCAGTATCTACGGTAACAATCAGTGACATGC
*
67859181 TTACATGCAATCAGTATGTACGGTAACAATCAGTGACATGC
1 TTACATGCAATCAGTATCTACGGTAACAATCAGTGACATGC
67859222 TTACATGCAATCA
1 TTACATGCAATCA
67859235 ATACACAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (41 bp):
TTACATGCAATCAGTATCTACGGTAACAATCAGTGACATGC
Found at i:67861287 original size:162 final size:161
Alignment explanation
Indices: 67861020--67861343 Score: 549
Period size: 162 Copynumber: 2.0 Consensus size: 161
67861010 CATCATCTTC
*
67861020 ATGAATCGATTTTCTAGAATTTTATGAAATTGATTTAAAGATGAAATTGATGCTTAATAGAAGTG
1 ATGAATCGATTTTCTAAAATTTTATGAAATTGATTTAAAGATGAAATTGATGCTTAATAGAAGTG
* * *
67861085 TATTTAGTCTAGTATTGATGATTGAAAGTGTTTAGGAGGGCTAGAAAGATCGATTTTGTGAGGAA
66 TATTTAGTCTAATATTAATGATTGAAACTGTTTAGGAGGGCTAGAAAGATCGATTTTGTGAGGAA
67861150 TCAAGTTTTCGACTTGATGTTACAAATCCAGT
131 TCAAGTTTTCGACTTGATG-TACAAATCCAGT
* * *
67861182 ATGAATCGATTTTCTAAAATTTTATGAAATTGATTTAATGATGAAATTGATGCTTAGTATAAGTG
1 ATGAATCGATTTTCTAAAATTTTATGAAATTGATTTAAAGATGAAATTGATGCTTAATAGAAGTG
* *
67861247 TATTTAGTCTAATATTAATGATTGAAACTGTTTAGGAGGGCTGGAGAGATCGATTTTGTGAGGAA
66 TATTTAGTCTAATATTAATGATTGAAACTGTTTAGGAGGGCTAGAAAGATCGATTTTGTGAGGAA
*
67861312 TCAAGTTTTTGACTTGATGTACAAATCCAGT
131 TCAAGTTTTCGACTTGATGTACAAATCCAGT
67861343 A
1 A
67861344 AGGTATCTTT
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
161 13 0.09
162 139 0.91
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (161 bp):
ATGAATCGATTTTCTAAAATTTTATGAAATTGATTTAAAGATGAAATTGATGCTTAATAGAAGTG
TATTTAGTCTAATATTAATGATTGAAACTGTTTAGGAGGGCTAGAAAGATCGATTTTGTGAGGAA
TCAAGTTTTCGACTTGATGTACAAATCCAGT
Found at i:67868454 original size:30 final size:28
Alignment explanation
Indices: 67868417--67868530 Score: 140
Period size: 28 Copynumber: 4.0 Consensus size: 28
67868407 GTATCAGTAC
*
67868417 AGTGTGGGCCTTAGCCCATTACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
67868445 AGTGTGTGGGCGTTAGCCCAATACAATAAT
1 A--GTGTGGGCCTTAGCCCAATACAGTAAT
*
67868475 AGTGTGGGCCTTA-CCTCAATATAGTAAT
1 AGTGTGGGCCTTAGCC-CAATACAGTAAT
* *
67868503 AGTGTGGGCCTTAGACCAATACGGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
67868531 CAGTAGAATG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
27 2 0.03
28 45 0.62
29 1 0.01
30 25 0.34
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:67868501 original size:58 final size:56
Alignment explanation
Indices: 67868417--67868524 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 56
67868407 GTATCAGTAC
* * *
67868417 AGTGTGGGCCTTAGCCCATTACAGTAATAGTGTGTGGGCGTTAGCCCAATACAATAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAATA--GTGTGGGCCTTAGACCAATACAATAAT
*
67868475 AGTGTGGGCCTTA-CCTCAATATAGTAATAGTGTGGGCCTTAGACCAATAC
1 AGTGTGGGCCTTAGCC-CAATACAGTAATAGTGTGGGCCTTAGACCAATAC
67868525 GGTAATCAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
56 19 0.42
57 2 0.04
58 24 0.53
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (56 bp):
AGTGTGGGCCTTAGCCCAATACAGTAATAGTGTGGGCCTTAGACCAATACAATAAT
Found at i:67868694 original size:26 final size:26
Alignment explanation
Indices: 67868634--67868695 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
67868624 GCCAACACAC
* * *
67868634 CAATATCGCATCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGGAA
* *
67868660 TAATGACGCAGCAAAGCTGCCAGGAA
1 CAATAACGCAGCAAAGCTGCCAGGAA
*
67868686 CAGTAACGCA
1 CAATAACGCA
67868696 ACAAGGCTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.15
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTGCCAGGAA
Found at i:67868913 original size:27 final size:27
Alignment explanation
Indices: 67868883--67868940 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
67868873 ACTCTGAGAA
67868883 GTATAACAGTCATTTTACACTATGGGG
1 GTATAACAGTCATTTTACACTATGGGG
** * * *
67868910 GTATTTCGGTCATTTTACCCTTTGGGG
1 GTATAACAGTCATTTTACACTATGGGG
67868937 GTAT
1 GTAT
67868941 TTCGATCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (27 bp):
GTATAACAGTCATTTTACACTATGGGG
Found at i:67868941 original size:27 final size:27
Alignment explanation
Indices: 67868891--67869195 Score: 295
Period size: 27 Copynumber: 11.3 Consensus size: 27
67868881 AAGTATAACA
* *
67868891 GTCATTTTACACTATGGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
67868918 GTCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * *
67868945 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* *
67868972 ATCATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * *
67868999 GTCATTTTACCCTTTAGGGGAATTTTG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * *
67869026 GTCACTTTAACCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * * *
67869053 ATTATTTTATCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * * *
67869080 GTCATTTTACCATTCGAGGATATTTTG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * *
67869107 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTTGGGGGTATTTCG
* ** *
67869134 GTCATTTTACCCTTCGAAGGTATTTTG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * *
67869161 GTCATTTTACCATTTAGGGGTAGTTCA
1 GTCATTTTACCCTTTGGGGGTATTTCG
67869188 GTCATTTT
1 GTCATTTT
67869196 TCCCACAAAT
Statistics
Matches: 231, Mismatches: 47, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 231 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTTGGGGGTATTTCG
Found at i:67872281 original size:33 final size:34
Alignment explanation
Indices: 67872233--67872323 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
67872223 AGATTTAAAC
* *
67872233 AAATTATTTACTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
67872267 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
* *
67872300 AATTTAATAAACT-A-ACTTATTTAA
1 AAATTAAT-TACTAACACTTATTTAA
67872324 TTTATTCTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 38 0.78
34 9 0.18
35 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:67879495 original size:40 final size:39
Alignment explanation
Indices: 67879397--67879619 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
67879387 TCCTCGTTCA
* * * * *
67879397 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
67879436 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
67879475 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
67879515 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
67879555 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
67879596 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
67879620 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:67879619 original size:120 final size:119
Alignment explanation
Indices: 67879397--67879619 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
67879387 TCCTCGTTCA
* * * *
67879397 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
67879462 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
67879516 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
67879580 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
67879620 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:67882136 original size:235 final size:235
Alignment explanation
Indices: 67881725--67882163 Score: 743
Period size: 235 Copynumber: 1.9 Consensus size: 235
67881715 GTCCCTCCTC
* *
67881725 TGAGTCCTCAATCAACCTTGCAAATCTTGCGAACATCAGACAAACTCTTGAAAGTTCAAATGAAC
1 TGAGTCCTCAATCAACCTTGCAAATCCTACGAACATCAGACAAACTCTTGAAAGTTCAAATGAAC
* * *
67881790 TTATTGAGTCTCTTCACTGCACCATAATTAAACCATATCTCATGAGGTAATAAATGTAAAATAAC
66 TCATTGAGTCTCTTCACAGCACCATAATCAAACCATATCTCATGAGGTAATAAATGTAAAATAAC
* *
67881855 ATAAACATAAATTAACTCCCTTCTCACTTGAAACGAGTGTTCTTTATTAGGGCGGTGGACTCCAC
131 ATAAACATAAATTAACTCCCTACTCACTTAAAACGAGTGTTCTTTATTAGGGCGGTGGACTCCAC
67881920 CCAATCCTCAAAGCTTCTCGGCTTACTATAAATATTGTTT
196 CCAATCCTCAAAGCTTCTCGGCTTACTATAAATATTGTTT
** * *
67881960 TGAGTCCTTGATCAACCTTGCAAATCCTACGAACATTAGACAAACTCTTGAAATTTCAAATGAAC
1 TGAGTCCTCAATCAACCTTGCAAATCCTACGAACATCAGACAAACTCTTGAAAGTTCAAATGAAC
*
67882025 TCATTGAGTGTCTTCACAGCACCATAATCAAACCATATCTCATGAGGTAATAAATGTAAAATAAC
66 TCATTGAGTCTCTTCACAGCACCATAATCAAACCATATCTCATGAGGTAATAAATGTAAAATAAC
* * *
67882090 ATAAATATAAATTAACTCCCTACTCACTTAAAATGAGTGTTCTTTATTAGGGTGGTGGACTCCAC
131 ATAAACATAAATTAACTCCCTACTCACTTAAAACGAGTGTTCTTTATTAGGGCGGTGGACTCCAC
67882155 CCAATCCTC
196 CCAATCCTC
67882164 TATAACAGCC
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
235 189 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (235 bp):
TGAGTCCTCAATCAACCTTGCAAATCCTACGAACATCAGACAAACTCTTGAAAGTTCAAATGAAC
TCATTGAGTCTCTTCACAGCACCATAATCAAACCATATCTCATGAGGTAATAAATGTAAAATAAC
ATAAACATAAATTAACTCCCTACTCACTTAAAACGAGTGTTCTTTATTAGGGCGGTGGACTCCAC
CCAATCCTCAAAGCTTCTCGGCTTACTATAAATATTGTTT
Found at i:67883405 original size:28 final size:28
Alignment explanation
Indices: 67883371--67883468 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
67883361 TAATGAGATT
* *
67883371 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* * * *
67883399 ATCACTAAGTATGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* *
67883427 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
*
67883455 AGCACTAGGTGTGC
1 AGCACTAAGTGTGC
67883469 AAACTTATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Found at i:67884443 original size:23 final size:23
Alignment explanation
Indices: 67884194--67884440 Score: 203
Period size: 23 Copynumber: 10.5 Consensus size: 23
67884184 TGATGCTTAA
* * *
67884194 ATGCTGCCCAAATTGTTATATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
67884217 ATGCTGTCCAAATTTTTGGTGTAAAA
1 ATGCTGTCC-AA--TTTGTTGTATAT
*
67884243 ATGCTG-CTCAATTTGTTGTATTT
1 ATGCTGTC-CAATTTGTTGTATAT
*
67884266 ATGCTGTCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
67884289 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGTTGTATAT
* *
67884313 ATGCTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGTTGTATAT
** *
67884336 ATGCTACCCAATTTGTTGTACAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
67884359 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA--TTTGTTGTATAT
67884384 ATGCTG-CTCAATTTGTTGTATAT
1 ATGCTGTC-CAATTTGTTGTATAT
* *
67884407 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
67884430 ATGCTGTCCAA
1 ATGCTGTCCAA
67884441 ATTTTGGTGT
Statistics
Matches: 178, Mismatches: 34, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
23 120 0.67
24 23 0.13
25 21 0.12
26 14 0.08
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTGTTGTATAT
Found at i:67884512 original size:71 final size:71
Alignment explanation
Indices: 67884194--67884497 Score: 423
Period size: 71 Copynumber: 4.3 Consensus size: 71
67884184 TGATGCTTAA
* *
67884194 ATGCTGCCCAAATTGTTATATATATGCTGTCCAAATTTTTGGTGTAAAAATGCTGCTCAATTTGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAA-TTTTGGTGTAAAAATGCTGCTCAATTTGG
* *
67884259 TGTATTT
65 TATATAT
* *
67884266 ATGCTGTCCAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGCTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
67884330 ATATAT
66 ATATAT
* * * * *
67884336 ATGCTACCCAATTTGTTGTACATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATTTGTT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
*
67884401 GTATAT
66 ATATAT
* *
67884407 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAAATGCTG-TCTAGTTTGG
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTC-AATTTGG
*
67884471 TATATAA
65 TATATAT
* *
67884478 ATGCTGTCCAAATTGATGTA
1 ATGCTGCCCAAATTGTTGTA
67884498 AAAGAGCTGT
Statistics
Matches: 205, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
70 62 0.30
71 113 0.55
72 30 0.15
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (71 bp):
ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
ATATAT
Found at i:67885752 original size:41 final size:41
Alignment explanation
Indices: 67885690--67885798 Score: 137
Period size: 41 Copynumber: 2.6 Consensus size: 41
67885680 GATTAGTATC
* *
67885690 GTGGCATGGTTTACATGCAATCAATATGTACGATAATAATTA
1 GTGGCAT-GATTACATGCAATCAATATGTACGATAACAATTA
* * *
67885732 GTGGCATGATTATATGCAATCAGTATGTACGGTAACAATTA
1 GTGGCATGATTACATGCAATCAATATGTACGATAACAATTA
* * *
67885773 GTGACATGCTTACATGCAATTAATAT
1 GTGGCATGATTACATGCAATCAATAT
67885799 ACAATATTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 50 0.88
42 7 0.12
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (41 bp):
GTGGCATGATTACATGCAATCAATATGTACGATAACAATTA
Found at i:67888803 original size:21 final size:22
Alignment explanation
Indices: 67888778--67888822 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
67888768 TTTTATAATT
67888778 AATTA-CTAATATAATTTTAAA
1 AATTATCTAATATAATTTTAAA
* * *
67888799 AATTATTTTATATATTTTTAAA
1 AATTATCTAATATAATTTTAAA
67888821 AA
1 AA
67888823 ATATAAGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATCTAATATAATTTTAAA
Found at i:67889258 original size:46 final size:46
Alignment explanation
Indices: 67889186--67889317 Score: 201
Period size: 46 Copynumber: 2.9 Consensus size: 46
67889176 GAAAAGAAAA
* **
67889186 ACACTAAATTATAGCAATAAATTTATTTATAAATCATAAACATTAT
1 ACACAAAATTATAATAATAAATTTATTTATAAATCATAAACATTAT
* *
67889232 ACACAAAATTATAATAATAAATTTATTCATAAATCATAATCATTAT
1 ACACAAAATTATAATAATAAATTTATTTATAAATCATAAACATTAT
* *
67889278 ACACAAAATTATAATACTAAATTTATTTATAAATAATAAA
1 ACACAAAATTATAATAATAAATTTATTTATAAATCATAAA
67889318 TTATAAACTC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (46 bp):
ACACAAAATTATAATAATAAATTTATTTATAAATCATAAACATTAT
Found at i:67889291 original size:21 final size:21
Alignment explanation
Indices: 67889216--67889292 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
67889206 ATTTATTTAT
*
67889216 AAATCATAAACATTATACACA
1 AAATCATAATCATTATACACA
* * * **
67889237 AAATTATAATAATAAATTTATTCA
1 AAATCATAATCAT---TATACACA
67889261 TAAATCATAATCATTATACACA
1 -AAATCATAATCATTATACACA
*
67889283 AAATTATAAT
1 AAATCATAAT
67889293 ACTAAATTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
21 19 0.47
22 5 0.12
24 5 0.12
25 11 0.28
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATCATAATCATTATACACA
Found at i:67891913 original size:50 final size:50
Alignment explanation
Indices: 67891784--67891915 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
67891774 GGGAATGAGG
* * **
67891784 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* ** ***
67891834 TCTCC-TATAAGACCATGTCTAAGACATGGCATGGGCACCGTTATGAGAAC
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* *
67891884 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCAT
67891916 TGGTAGTACA
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.03
50 61 0.94
51 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:67903710 original size:20 final size:21
Alignment explanation
Indices: 67903675--67903713 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
67903665 CAGTTCGTTG
67903675 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
67903696 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
67903714 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:67904120 original size:13 final size:13
Alignment explanation
Indices: 67904102--67904127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67904092 TGTGTCCTAA
67904102 TATGAATTAAATT
1 TATGAATTAAATT
67904115 TATGAATTAAATT
1 TATGAATTAAATT
67904128 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:67934043 original size:7 final size:6
Alignment explanation
Indices: 67934026--67934068 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
67934016 CAAAAATAGG
* *
67934026 AGAAAA AGAAAGA AGAAAC AGAAAA A-AAAA AGAAAA GGAAAA A
1 AGAAAA AGAAA-A AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A
67934069 TGAGAGGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:67934068 original size:17 final size:19
Alignment explanation
Indices: 67934026--67934060 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67934016 CAAAAATAGG
67934026 AGAAAAAGAAAGAAGAAAC
1 AGAAAAAGAAAGAAGAAAC
67934045 AGAAAAA-AAA-AAGAAA
1 AGAAAAAGAAAGAAGAAA
67934061 AGGAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAGAAGAAAC
Found at i:67936209 original size:44 final size:44
Alignment explanation
Indices: 67936073--67936211 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
67936063 AGTTGCAGAT
* *
67936073 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACACAAGC
** ** * * * *
67936117 CTTGCC-TCTCTTGGTTGTGATG-G-AGCTGGTTGAAGACA-ATAGAT
1 CTTGCCTTC-CTTCATTGACA-GCGAAGCAGATCGAAGACACA-AG-C
67936161 CTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACACAAGC
67936205 CTTGCCT
1 CTTGCCT
67936212 CTCTTGGTTT
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 1 0.01
43 16 0.23
44 34 0.49
45 17 0.25
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACACAAGC
Found at i:67936234 original size:43 final size:43
Alignment explanation
Indices: 67936097--67936240 Score: 105
Period size: 43 Copynumber: 3.3 Consensus size: 43
67936087 TTGACAGCGA
* *
67936097 AGCAGATCGAAGACACAAACCTTGCCTCTCTTGGTTGT-GATGG
1 AGCAGATCGAAGACACAAGCCTTGCCTCTCTTGGTTATAG-TGG
* * * * ** * * *
67936140 AGCTGGTTGAAGACA-ATAGATCTTGCCT-TCCTTCATTGACAGCGA
1 AGCAGATCGAAGACACA-AG-CCTTGCCTCT-CTTGGTT-ATAGTGG
*
67936185 AGCAGATCGAAGACACAAGCCTTGCCTCTCTTGGTTTTAGTGG
1 AGCAGATCGAAGACACAAGCCTTGCCTCTCTTGGTTATAGTGG
*
67936228 AGCAGATCAAAGA
1 AGCAGATCGAAGA
67936241 TGGTGAATCT
Statistics
Matches: 72, Mismatches: 22, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
42 1 0.01
43 29 0.40
44 24 0.33
45 16 0.22
46 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
AGCAGATCGAAGACACAAGCCTTGCCTCTCTTGGTTATAGTGG
Found at i:67936251 original size:88 final size:88
Alignment explanation
Indices: 67936069--67936240 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 88
67936059 ATGAAGTTGC
67936069 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTTGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTTGGTTG
* * **
67936134 TGATGGAGCTGGTTGAAGACAAT
66 TGATGGAGCAGATCAAAGACAAT
* *
67936157 AGATCTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCTCTTGGTT-
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTTGGTTG
*
67936221 TTAGTGGAGCAGATCAAAGA
66 TGA-TGGAGCAGATCAAAGA
67936241 TGGTGAATCT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
87 2 0.03
88 74 0.97
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTTGGTTG
TGATGGAGCAGATCAAAGACAAT
Found at i:67936469 original size:132 final size:132
Alignment explanation
Indices: 67936222--67936501 Score: 425
Period size: 132 Copynumber: 2.1 Consensus size: 132
67936212 CTCTTGGTTT
*
67936222 TAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCC
* * ** * *
67936287 ATTGGTCCTATCACCCTAAGTAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACTCTAAGC
66 ATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTGTCACCCTAAGC
*
67936352 AG
131 AA
* * *
67936354 TAGTGGGGCAGATCGAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCATATTTAAGCC
1 TAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCC
* * * *
67936419 ATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGATTTTGTCCCCCTAAGC
66 ATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTGTCACCCTAAGC
67936484 AA
131 AA
67936486 TAGTGGAGCAGATCAA
1 TAGTGGAGCAGATCAA
67936502 CAATAACGAA
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
TAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCC
ATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTGTCACCCTAAGC
AA
Found at i:67937904 original size:3 final size:3
Alignment explanation
Indices: 67937858--67937934 Score: 52
Period size: 3 Copynumber: 25.7 Consensus size: 3
67937848 TTTAGCATTT
* * * *
67937858 TTA TTA TT- TTC TTCA TTA TT- TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
67937902 TTA TTG TTG TTA TTA TTA GTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
67937935 TCTTCATCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
2 6 0.10
3 48 0.80
4 6 0.10
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:67938272 original size:22 final size:22
Alignment explanation
Indices: 67938244--67938314 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
67938234 TTTATTGTTT
*
67938244 TTTATGTTCATTTATGTATTTA
1 TTTATGTTCATTTATTTATTTA
67938266 TTTATGTGTTC-TTT-TTTATTTA
1 TTTA--TGTTCATTTATTTATTTA
*
67938288 CTTTA-GTTTATTTATTTATTTA
1 -TTTATGTTCATTTATTTATTTA
67938310 TTTAT
1 TTTAT
67938315 TTATTTGCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
20 3 0.07
21 7 0.17
22 19 0.46
23 7 0.17
24 5 0.12
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTATGTTCATTTATTTATTTA
Found at i:67938338 original size:4 final size:4
Alignment explanation
Indices: 67938253--67938320 Score: 68
Period size: 4 Copynumber: 17.0 Consensus size: 4
67938243 TTTTATGTTC
* * * *
67938253 ATTT ATGT ATTT ATTT ATGT -GTT CTTT -TTT ATTT ACTTT AGTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT A-TTT ATTT
67938301 ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT
67938321 GCTATGATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
3 4 0.07
4 42 0.78
5 8 0.15
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:67938624 original size:111 final size:110
Alignment explanation
Indices: 67938426--67938739 Score: 472
Period size: 111 Copynumber: 2.9 Consensus size: 110
67938416 TCAAAAAAGG
* * * *
67938426 AAAATTTTTCT-AAATGAGGCAATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAATTTTT-TAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
67938490 TGGGTGTCGTTTTTTCTCGTTCAACCAAATGACTTAATAACCTTTTA
65 TGGGTGTCGTTTTTTCTCGTTCAACCAAATGACTTAA-AACCTTTTA
* * *
67938537 AAAATTTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAAGATGCCCTAAGGTGCT
1 AAAATTTTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
67938602 GGGTGTCGTTTTTTCTCATTCAATCAAATGGCTTAAATCCTTTTA
66 GGGTGTCGTTTTTTCTCGTTCAACCAAATGACTTAAAACCTTTTA
67938647 AAAA--TTTTAAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAATTTTTTAAAATAAGGCAATGTTTTGCATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGC
*
67938710 TGGGTGTCGATTTTTCTCGTTCAACCAAAT
65 TGGGTGTCGTTTTTTCTCGTTCAACCAAAT
67938740 TGCCAAATAT
Statistics
Matches: 185, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
108 27 0.15
109 55 0.30
110 13 0.07
111 90 0.49
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (110 bp):
AAAATTTTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGTTTTTTCTCGTTCAACCAAATGACTTAAAACCTTTTA
Found at i:67941759 original size:2 final size:2
Alignment explanation
Indices: 67941752--67941778 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
67941742 TTCCTTAAAA
67941752 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
67941779 AAGGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:67942217 original size:15 final size:15
Alignment explanation
Indices: 67942197--67942226 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
67942187 TTGGATTGAA
67942197 AATTTAGTATTTGCT
1 AATTTAGTATTTGCT
67942212 AATTTAGTATTTGCT
1 AATTTAGTATTTGCT
67942227 GTGCCTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
AATTTAGTATTTGCT
Found at i:67942271 original size:4 final size:4
Alignment explanation
Indices: 67942262--67942286 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
67942252 GTGGATGCTT
67942262 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
67942287 GTTGGTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:67962452 original size:6 final size:6
Alignment explanation
Indices: 67962441--67962501 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
67962431 AGTTTGAGAG
* * * *
67962441 AAAAGA AAAAGA AAGAG- AAAAG- AAAGGA AAAGGA AAAAGA AAATGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
67962487 AAATGA AAATGA AAA
1 AAAAGA AAAAGA AAA
67962502 TGAGAAGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
5 8 0.16
6 41 0.84
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:67962489 original size:12 final size:12
Alignment explanation
Indices: 67962441--67962501 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
67962431 AGTTTGAGAG
*
67962441 AAAAGAAAAAGA
1 AAAAGAAAATGA
*
67962453 AAGAGAAAA-G-
1 AAAAGAAAATGA
* *
67962463 AAAGGAAAAGGA
1 AAAAGAAAATGA
67962475 AAAAGAAAATGA
1 AAAAGAAAATGA
*
67962487 AAATGAAAATGA
1 AAAAGAAAATGA
67962499 AAA
1 AAA
67962502 TGAGAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 32 0.78
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:67962494 original size:18 final size:17
Alignment explanation
Indices: 67962441--67962513 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 17
67962431 AGTTTGAGAG
*
67962441 AAAAGAAAAAG-AAAGA
1 AAAAGAAAATGAAAAGA
*
67962457 GAAAAG-AAAGGAAAAGGA
1 -AAAAGAAAATGAAAA-GA
67962475 AAAAGAAAATGAAAATGA
1 AAAAGAAAATGAAAA-GA
* *
67962493 AAATGAAAATGAGAAGA
1 AAAAGAAAATGAAAAGA
67962510 AAAA
1 AAAA
67962514 TATTGTTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.09
17 18 0.38
18 25 0.53
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (17 bp):
AAAAGAAAATGAAAAGA
Found at i:67962495 original size:17 final size:16
Alignment explanation
Indices: 67962439--67962512 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 16
67962429 AGAGTTTGAG
*
67962439 AGAAAAGAAAAAGAAA
1 AGAAAAGAAAATGAAA
*
67962455 GAGAAAAG-AAAGGAAA
1 -AGAAAAGAAAATGAAA
67962471 AGGAAAAAGAAAATGAAA
1 A-G-AAAAGAAAATGAAA
*
67962489 ATGAAAATGAAAATGAGA
1 A-GAAAA-GAAAATGAAA
67962507 AGAAAA
1 AGAAAA
67962513 ATATTGTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.02
16 8 0.16
17 21 0.43
18 19 0.39
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (16 bp):
AGAAAAGAAAATGAAA
Found at i:67962502 original size:6 final size:6
Alignment explanation
Indices: 67962467--67962504 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
67962457 GAAAAGAAAG
* *
67962467 GAAAAG GAAAAA GAAAAT GAAAAT GAAAAT GAAAAT GA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GA
67962505 GAAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (6 bp):
GAAAAT
Found at i:67971366 original size:30 final size:30
Alignment explanation
Indices: 67971326--67971384 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
67971316 CATGTGACAC
*
67971326 ACACACGGCTATGCGACATGCCCGTGTGTG
1 ACACACGGCTATGCAACATGCCCGTGTGTG
*
67971356 ACACATGGCTATGCAACATGCCCGTGTGT
1 ACACACGGCTATGCAACATGCCCGTGTGT
67971385 CCCCTATAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (30 bp):
ACACACGGCTATGCAACATGCCCGTGTGTG
Found at i:67972641 original size:19 final size:21
Alignment explanation
Indices: 67972621--67972661 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
67972611 ATTAAAAGAT
67972621 AAAG-ATAAAATAAAGAAATA
1 AAAGTATAAAATAAAGAAATA
67972641 AAAGTTAATAAAATAAAGAAA
1 AAAG-T-ATAAAATAAAGAAA
67972662 ACATAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
23 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAGTATAAAATAAAGAAATA
Found at i:67986573 original size:44 final size:45
Alignment explanation
Indices: 67986439--67986573 Score: 182
Period size: 45 Copynumber: 3.0 Consensus size: 45
67986429 GGAGAAAGAA
* *
67986439 TTGGTGGCTTCATCTACAACCTACATGGTAGCTTGTCTGCGAATA
1 TTGGTGGCTTCATCCACAACCTACATGGTAGCTTGTCTGCGAATT
* *
67986484 TTGGTGGCTTCGTCCACAACCTACATGGTAGCTTGTCTACGAATT
1 TTGGTGGCTTCATCCACAACCTACATGGTAGCTTGTCTGCGAATT
* ** * *
67986529 TTGGTGG-TTTATCCACAACCTACATGACAACTTGTCTGCAAATT
1 TTGGTGGCTTCATCCACAACCTACATGGTAGCTTGTCTGCGAATT
67986573 T
1 T
67986574 GGAGTGTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 31 0.39
45 48 0.61
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (45 bp):
TTGGTGGCTTCATCCACAACCTACATGGTAGCTTGTCTGCGAATT
Found at i:67989005 original size:27 final size:25
Alignment explanation
Indices: 67988975--67989028 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
67988965 ATTTCAAAAA
*
67988975 AATATTATTTTAATAGATTTAATACTT
1 AATAGTATTTTAATA-ATTTAATA-TT
*
67989002 AATAGTATTTTATTAATTTAATATT
1 AATAGTATTTTAATAATTTAATATT
67989027 AA
1 AA
67989029 AGTTATTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 8 0.32
27 13 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
AATAGTATTTTAATAATTTAATATT
Found at i:67989036 original size:20 final size:19
Alignment explanation
Indices: 67989011--67989060 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
67989001 TAATAGTATT
67989011 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
67989030 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
67989050 -T-TTAATTTAAT
1 TTATTAATTTAAT
67989061 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 2 0.07
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:67989111 original size:62 final size:59
Alignment explanation
Indices: 67989039--67989155 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
67989029 AGTTATTATC
* * *
67989039 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTC-TCTTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATA-TCGTATTAATTTAATAAGAT
67989101 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATCGTATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATCGTATTAATTTAATA
67989156 TTAAAGTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 2 0.04
59 20 0.39
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATCGTATTAATTTAATAAGAT
Found at i:67990716 original size:34 final size:34
Alignment explanation
Indices: 67990673--67990740 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
67990663 GCACCCCAAG
67990673 GTAAACTTTATTATGTGGGTTCACTGAAGGAGAT
1 GTAAACTTTATTATGTGGGTTCACTGAAGGAGAT
67990707 GTAAACTTTATTATGTGGGTTCACTGAAGGAGAT
1 GTAAACTTTATTATGTGGGTTCACTGAAGGAGAT
67990741 TTCCTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (34 bp):
GTAAACTTTATTATGTGGGTTCACTGAAGGAGAT
Found at i:67991520 original size:16 final size:16
Alignment explanation
Indices: 67991499--67991530 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
67991489 CTCGACAATC
67991499 CACTATTAAAATTTGA
1 CACTATTAAAATTTGA
67991515 CACTATTAAAATTTGA
1 CACTATTAAAATTTGA
67991531 TAAACTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
CACTATTAAAATTTGA
Found at i:67992439 original size:51 final size:51
Alignment explanation
Indices: 67992325--67992744 Score: 662
Period size: 51 Copynumber: 8.3 Consensus size: 51
67992315 CTTACGTATG
* *
67992325 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * *
67992375 CTCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
67992426 ATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * *
67992477 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
67992528 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * *
67992579 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
67992630 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
67992681 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
67992732 ATCACTTGTCACT
1 ATCACTTGTCACT
67992745 AATCAGAAGT
Statistics
Matches: 335, Mismatches: 34, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
50 34 0.10
51 301 0.90
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:67992501 original size:102 final size:102
Alignment explanation
Indices: 67992325--67992744 Score: 734
Period size: 102 Copynumber: 4.1 Consensus size: 102
67992315 CTTACGTATG
* * * * *
67992325 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTTCTCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
*
67992389 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
66 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
* *
67992426 ATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
67992491 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
66 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
67992528 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
67992593 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
66 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
67992630 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
* * *
67992695 GTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
66 GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
67992732 ATCACTTGTCACT
1 ATCACTTGTCACT
67992745 AATCAGAAGT
Statistics
Matches: 307, Mismatches: 11, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
101 35 0.11
102 272 0.89
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (102 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGCGTAGCTGAAGCTATCACTTATCACTTGCCACTT
GTCACTGATCAGATAAGTGTAGCTAAAGATACCACTT
Found at i:67999814 original size:20 final size:20
Alignment explanation
Indices: 67999772--67999813 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
67999762 ATAAGATCGT
67999772 AAATTGGACCCAAGAGCCCA
1 AAATTGGACCCAAGAGCCCA
67999792 AAATTGAGA-CCAAGA-CCCA
1 AAATTG-GACCCAAGAGCCCA
67999811 AAA
1 AAA
67999814 ACTGGTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 12 0.57
21 2 0.10
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.10
Consensus pattern (20 bp):
AAATTGGACCCAAGAGCCCA
Found at i:68003431 original size:22 final size:22
Alignment explanation
Indices: 68003395--68003450 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
68003385 GAATTGAAAT
68003395 TAAATTATTAATATATTGAATTTTAA
1 TAAATT-TT-ATA-ATT-AATTTTAA
* *
68003421 TTAATTTTATAATTAATTTTGA
1 TAAATTTTATAATTAATTTTAA
68003443 TAAATTTT
1 TAAATTTT
68003451 GATTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.52
23 3 0.11
24 3 0.11
25 2 0.07
26 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
TAAATTTTATAATTAATTTTAA
Found at i:68003433 original size:27 final size:27
Alignment explanation
Indices: 68003370--68003438 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
68003360 AATATATAAT
*
68003370 AATTATAAAATAATTGAATTGAAATTA
1 AATTATAATATAATTGAATTGAAATTA
**
68003397 AATTATTAATAT-ATTGAATTTTAATTA
1 AATTA-TAATATAATTGAATTGAAATTA
*
68003424 ATTTTATAAT-TAATT
1 A-ATTATAATATAATT
68003439 TTGATAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.03
27 26 0.74
28 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
AATTATAATATAATTGAATTGAAATTA
Found at i:68006306 original size:14 final size:15
Alignment explanation
Indices: 68006271--68006301 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68006261 AACATGGAAA
*
68006271 AAATATATAAAAAAT
1 AAATTTATAAAAAAT
68006286 AAATTTATAAAAAAT
1 AAATTTATAAAAAAT
68006301 A
1 A
68006302 TTTTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTTATAAAAAAT
Found at i:68006526 original size:13 final size:13
Alignment explanation
Indices: 68006510--68006538 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
68006500 TATATATTTA
68006510 TAATTTATAAAAT
1 TAATTTATAAAAT
68006523 TAA-TTATAAAAT
1 TAATTTATAAAAT
68006535 TAAT
1 TAAT
68006539 GAAATACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTTATAAAAT
Found at i:68014171 original size:3 final size:3
Alignment explanation
Indices: 68014156--68014216 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
68014146 ATGTTATACC
* * * * *
68014156 ATT ATT -TT TTT ATT ATT GTT ATT ATT ATT AAT ATT ATT ATT CTT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
68014203 AAT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
68014217 CATTTTTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:68014195 original size:18 final size:18
Alignment explanation
Indices: 68014156--68014216 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
68014146 ATGTTATACC
* *
68014156 ATTATT-TTTTTATTATT
1 ATTATTATTATTAATATT
*
68014173 GTTATTATTATTAATATT
1 ATTATTATTATTAATATT
* *
68014191 ATTATTCTTGTTAATATT
1 ATTATTATTATTAATATT
68014209 ATTATTAT
1 ATTATTAT
68014217 CATTTTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 5 0.14
18 31 0.86
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTATTATTATTAATATT
Found at i:68014256 original size:29 final size:28
Alignment explanation
Indices: 68014223--68014286 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
68014213 TTATCATTTT
* * *
68014223 TATATTTATATACACAATTTTTTTTATAG
1 TATATATATATACA-AATTTTTTATATAA
* *
68014252 TATATATATATGCATATTTTTTATATAA
1 TATATATATATACAAATTTTTTATATAA
68014280 TATATAT
1 TATATAT
68014287 TTTTAAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (28 bp):
TATATATATATACAAATTTTTTATATAA
Found at i:68015912 original size:22 final size:21
Alignment explanation
Indices: 68015861--68015912 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
68015851 TACACGGCTT
* *
68015861 GTTCACACAGCCATGTCCTTA
1 GTTCACACGGCCATGTCCTCA
*
68015882 GGTCACACGGCCATGTGCCTCA
1 GTTCACACGGCCATGT-CCTCA
*
68015904 TTTCACACG
1 GTTCACACG
68015913 AGTGTGTGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
GTTCACACGGCCATGTCCTCA
Found at i:68019720 original size:23 final size:22
Alignment explanation
Indices: 68019677--68019720 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
68019667 TTCTAAGTCG
68019677 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
68019700 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
68019721 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:68019829 original size:45 final size:45
Alignment explanation
Indices: 68019765--68019858 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
68019755 AACAGATACT
* *
68019765 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
68019810 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
68019855 CGGT
1 CGGT
68019859 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:68023449 original size:20 final size:20
Alignment explanation
Indices: 68023426--68023464 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
68023416 TTCTCACGCC
*
68023426 GAGCTCGTGTAGCTCACCCA
1 GAGCTCGTATAGCTCACCCA
68023446 GAGCTCGTATAGCTCACCC
1 GAGCTCGTATAGCTCACCC
68023465 CTCCTTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.21
Consensus pattern (20 bp):
GAGCTCGTATAGCTCACCCA
Found at i:68034014 original size:11 final size:11
Alignment explanation
Indices: 68034000--68034040 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
68033990 TATTTTCTTT
68034000 CTATTTTGCTA
1 CTATTTTGCTA
*
68034011 CTATTTTACTA
1 CTATTTTGCTA
* *
68034022 TTATGTTGCTA
1 CTATTTTGCTA
68034033 CTATTTTG
1 CTATTTTG
68034041 TTGTTACTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:68035680 original size:12 final size:12
Alignment explanation
Indices: 68035663--68035687 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68035653 TTTGTCTAAT
68035663 TTGTAGCTTTGG
1 TTGTAGCTTTGG
68035675 TTGTAGCTTTGG
1 TTGTAGCTTTGG
68035687 T
1 T
68035688 GTTGCTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TTGTAGCTTTGG
Found at i:68037855 original size:17 final size:17
Alignment explanation
Indices: 68037833--68037867 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
68037823 CGTAAGTTAG
68037833 AACACGATCTTTTATTA
1 AACACGATCTTTTATTA
68037850 AACACGATCTTTTATTA
1 AACACGATCTTTTATTA
68037867 A
1 A
68037868 TTCCCGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
AACACGATCTTTTATTA
Found at i:68045629 original size:24 final size:24
Alignment explanation
Indices: 68045601--68045650 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
68045591 TTGTTGGTCC
68045601 AACACTTCTTAGATGTATGTAGGG
1 AACACTTCTTAGATGTATGTAGGG
*
68045625 AACACTTCTTAGATGTATTTAGGG
1 AACACTTCTTAGATGTATGTAGGG
68045649 AA
1 AA
68045651 AGGTAGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (24 bp):
AACACTTCTTAGATGTATGTAGGG
Found at i:68047402 original size:13 final size:14
Alignment explanation
Indices: 68047369--68047402 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
68047359 GCCCGGAGGC
*
68047369 TAAAGAAAAAGTGA
1 TAAAAAAAAAGTGA
68047383 TAAAAAAAAAGTGA
1 TAAAAAAAAAGTGA
68047397 TGAAAA
1 T-AAAA
68047403 GTTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAAAAAAGTGA
Found at i:68048701 original size:25 final size:24
Alignment explanation
Indices: 68048673--68048787 Score: 117
Period size: 25 Copynumber: 4.7 Consensus size: 24
68048663 AAAAATAGAA
*
68048673 ATAAATATATATATAATAATAATAT
1 ATAAATATATAAATAATAA-AATAT
* *
68048698 ATAAATATAAAAATAATATTAATAT
1 ATAAATATATAAATAATA-AAATAT
*
68048723 ATAAATATAAAAATATATAAAATAT
1 ATAAATATATAAATA-ATAAAATAT
* *
68048748 TTAGAATATAT--ATAATAAAATAG
1 ATA-AATATATAAATAATAAAATAT
68048771 ATATAATATATAAATAA
1 ATA-AATATATAAATAA
68048788 ATTGAATATA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
23 17 0.22
24 3 0.04
25 47 0.62
26 9 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAAATATATAAATAATAAAATAT
Found at i:68048765 original size:23 final size:23
Alignment explanation
Indices: 68048735--68048788 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
68048725 AAATATAAAA
**
68048735 ATAT-ATAAAATATTTAGAATAT
1 ATATAATAAAATAGATAGAATAT
*
68048757 ATATAATAAAATAGATATAATAT
1 ATATAATAAAATAGATAGAATAT
68048780 ATA-AATAAA
1 ATATAATAAA
68048789 TTGAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAATAAAATAGATAGAATAT
Found at i:68048797 original size:38 final size:37
Alignment explanation
Indices: 68048681--68048815 Score: 104
Period size: 38 Copynumber: 3.6 Consensus size: 37
68048671 AAATAAATAT
* *
68048681 ATATATAATAATAATATATAAATATAAAAATAATATT-A
1 ATATATAATAA-AATAGATAAATATATAAATAA-ATTGA
* *
68048719 ATATAT-A-AATATA-A-AAATATATAAA-ATATTTAGAA
1 ATATATAATAAAATAGATAAATATATAAATA-AATT-G-A
68048754 TATATATAATAAAATAGATATAATATATAAATAAATTGA
1 -ATATATAATAAAATAGATA-AATATATAAATAAATTGA
*
68048793 ATATA-ATATTAAATAGATAAATA
1 ATATATA-ATAAAATAGATAAATA
68048816 AATTAAACCA
Statistics
Matches: 79, Mismatches: 6, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
32 3 0.04
33 11 0.14
34 1 0.01
35 4 0.05
36 8 0.10
37 7 0.09
38 27 0.34
39 2 0.03
40 2 0.03
41 13 0.16
42 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (37 bp):
ATATATAATAAAATAGATAAATATATAAATAAATTGA
Found at i:68049213 original size:13 final size:13
Alignment explanation
Indices: 68049195--68049222 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
68049185 GTTATTCATA
68049195 ATTAATATGAATT
1 ATTAATATGAATT
68049208 ATTAATATGAATT
1 ATTAATATGAATT
68049221 AT
1 AT
68049223 AGACTCGAAT
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:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:68049404 original size:19 final size:21
Alignment explanation
Indices: 68049376--68049425 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
68049366 AAATTAAAAT
68049376 TTTATATATATA-TTTAT-TA
1 TTTATATATATATTTTATATA
*
68049395 TTTATCTATATATTTTATATA
1 TTTATATATATATTTTATATA
68049416 TTTA-ATATAT
1 TTTATATATAT
68049426 TTAATATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 10 0.37
21 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATATATATTTTATATA
Found at i:68049518 original size:17 final size:17
Alignment explanation
Indices: 68049496--68049534 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
68049486 CTGACTCCAT
*
68049496 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
68049513 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
68049530 TTTTA
1 TTTTA
68049535 CATCTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:68049700 original size:15 final size:17
Alignment explanation
Indices: 68049670--68049701 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
68049660 GTCAAAATCT
68049670 TTTTATGCAGTTATATA
1 TTTTATGCAGTTATATA
68049687 TTTTATG-A-TTATATA
1 TTTTATGCAGTTATATA
68049702 AATGAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTATGCAGTTATATA
Found at i:68049824 original size:27 final size:28
Alignment explanation
Indices: 68049794--68049850 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
68049784 AAATGAATGG
*
68049794 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
68049821 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
68049849 AA
1 AA
68049851 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:68050388 original size:11 final size:11
Alignment explanation
Indices: 68050351--68050388 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
68050341 ATAAACAAAT
*
68050351 GAAAGAAGGGG
1 GAAAGGAGGGG
68050362 GAAA-GAGGGG
1 GAAAGGAGGGG
*
68050372 GAAAGGAGGGA
1 GAAAGGAGGGG
68050383 GAAAGG
1 GAAAGG
68050389 GGAAAGGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
GAAAGGAGGGG
Found at i:68051281 original size:10 final size:10
Alignment explanation
Indices: 68051251--68051291 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
68051241 ATCACAAGTC
68051251 TTGTGATATA
1 TTGTGATATA
*
68051261 GTGTGATATA
1 TTGTGATATA
68051271 TTGTGATATA
1 TTGTGATATA
*
68051281 TATATGATATA
1 T-TGTGATATA
68051292 CGTAGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (10 bp):
TTGTGATATA
Found at i:68054774 original size:13 final size:13
Alignment explanation
Indices: 68054756--68054783 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
68054746 TGAAAATTCG
68054756 TTAATGGTACATT
1 TTAATGGTACATT
68054769 TTAATGGTACATT
1 TTAATGGTACATT
68054782 TT
1 TT
68054784 CCCCTATATT
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:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:68063864 original size:3 final size:3
Alignment explanation
Indices: 68063856--68063910 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
68063846 AATAACAATT
* * * *
68063856 TAA TAA TAA TAA CAA TAA TTA TAA TAT TAA -CA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
68063901 TAA TAA TAA T
1 TAA TAA TAA T
68063911 GTGTAATAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 39 0.93
4 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:68064141 original size:67 final size:65
Alignment explanation
Indices: 68064078--68064210 Score: 175
Period size: 63 Copynumber: 2.1 Consensus size: 65
68064068 TAAATAAGTA
* * *
68064078 AAAATAAA-AAGAT-TCATGAAAGGCTAAAATTTCAATAATAAATGAACAAAT-AATAAT-AAAA
1 AAAATAAATAA-ATCTCATGAAAAGCTAAAATTGCAATAATAAATAAACAAATGAATAATAAAAA
68064139 T
65 T
*
68064140 AAAATAAATAAATCTCATGAAAAGCTAAAATTGCAATAATAAATAAATAAATGAATAATAATAAA
1 AAAATAAATAAATCTCATGAAAAGCTAAAATTGCAATAATAAATAAACAAATGAATAAT-A-AAA
68064205 AT
64 AT
68064207 AAAA
1 AAAA
68064211 AATTTATGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
62 10 0.16
63 36 0.59
64 6 0.10
67 9 0.15
ACGTcount: A:0.63, C:0.06, G:0.07, T:0.24
Consensus pattern (65 bp):
AAAATAAATAAATCTCATGAAAAGCTAAAATTGCAATAATAAATAAACAAATGAATAATAAAAAT
Found at i:68064190 original size:22 final size:20
Alignment explanation
Indices: 68064174--68064210 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
68064164 CTAAAATTGC
68064174 AATAATAA-ATAAAT-AAATG
1 AATAATAATA-AAATAAAATG
68064193 AATAATAATAAAATAAAA
1 AATAATAATAAAATAAAA
68064211 AATTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
AATAATAATAAAATAAAATG
Found at i:68069117 original size:40 final size:42
Alignment explanation
Indices: 68069066--68069151 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 42
68069056 TACGTACATG
*
68069066 TATATATATAGTATTATCTTTT-ATTAC-T-TTATTTTTATTA
1 TATATATATAGTATGAT-TTTTAATTACTTATTATTTTTATTA
*
68069106 TATATATATAGTATGGTTTTTAATTACTTCATTATTTTTATTA
1 TATATATATAGTATGATTTTTAATTACTT-ATTATTTTTATTA
68069149 TAT
1 TAT
68069152 TTTATTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 4 0.10
40 20 0.50
41 1 0.03
43 15 0.38
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (42 bp):
TATATATATAGTATGATTTTTAATTACTTATTATTTTTATTA
Found at i:68069158 original size:19 final size:19
Alignment explanation
Indices: 68069136--68069174 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
68069126 TAATTACTTC
68069136 ATTATTTTTATTATATTTT
1 ATTATTTTTATTATATTTT
* *
68069155 ATTATTTTTTTTGTATTTT
1 ATTATTTTTATTATATTTT
68069174 A
1 A
68069175 AAACCATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (19 bp):
ATTATTTTTATTATATTTT
Found at i:68072714 original size:132 final size:131
Alignment explanation
Indices: 68072452--68072715 Score: 334
Period size: 132 Copynumber: 2.0 Consensus size: 131
68072442 GTCTCGCTTC
* * * * * *
68072452 AGAAAACGTGAATGAAATTTAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTACAACCCA
1 AGAAAACATGAACGAAATTTAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
* * * * * *
68072517 GCACGATAGGGCACGTTTCCCCGAATTGCCGAACGTCAAACATTTCCTTCGTTTTAAAATTTTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATGTCCTCCGTTTTAAAATATTTT
68072582 T
131 T
**
68072583 AGAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTACAACCC
1 AGAAAACATGAACGAAATT-TAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCC
* * *
68072648 AGCATGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACATCGT-CTCCGTTTTAAAGA-AT
65 AGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACAT-GTCCTCCGTTTTAAA-ATAT
68072711 TTTT
128 TTTT
68072715 A
1 A
68072716 AACGAATAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
131 17 0.15
132 94 0.83
133 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (131 bp):
AGAAAACATGAACGAAATTTAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATGTCCTCCGTTTTAAAATATTTT
T
Found at i:68073016 original size:3 final size:3
Alignment explanation
Indices: 68073010--68073044 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
68073000 TAATAATAAT
68073010 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
68073045 TAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:68073049 original size:3 final size:3
Alignment explanation
Indices: 68073043--68073091 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
68073033 CAACAACAAC
68073043 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
68073089 AAT
1 AAT
68073092 GCAATGATAG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:68073215 original size:75 final size:72
Alignment explanation
Indices: 68073064--68073234 Score: 326
Period size: 72 Copynumber: 2.4 Consensus size: 72
68073054 TAATAATAAT
68073064 AATAATAATA-ATTAATAATAATAATAATGCAATGATAGTAAGAAAGAAAAAAGTGATAACAATA
1 AATAATAA-AGATTAATAATAATAATAATGCAATGATAGTAAGAAAGAAAAAAGTGATAACAATA
68073128 ATATGTCA
65 ATATGTCA
68073136 AATAATAAAGATTAATAATAATAATAATGCAATGATAGTAAGAAAGAAAAAAGTGATAACAATAA
1 AATAATAAAGATTAATAATAATAATAATGCAATGATAGTAAGAAAGAAAAAAGTGATAACAATAA
68073201 TATGTCA
66 TATGTCA
68073208 AATAATAAAGATTAATAATAATAATAA
1 AATAATAAAGATTAATAATAATAATAA
68073235 ATATAGCAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
71 1 0.01
72 97 0.99
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.26
Consensus pattern (72 bp):
AATAATAAAGATTAATAATAATAATAATGCAATGATAGTAAGAAAGAAAAAAGTGATAACAATAA
TATGTCA
Found at i:68074776 original size:26 final size:27
Alignment explanation
Indices: 68074736--68074797 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
68074726 AACTTTACTT
*
68074736 TTTTTTATTCTATTACCAACTTT-CCC
1 TTTTTTATTCCATTACCAACTTTCCCC
*
68074762 TTTTTTATTCCATTACCAATTTTCCCC
1 TTTTTTATTCCATTACCAACTTTCCCC
68074789 TTTTTTATT
1 TTTTTTATT
68074798 TTTTATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTTATTCCATTACCAACTTTCCCC
Found at i:68080463 original size:65 final size:65
Alignment explanation
Indices: 68080382--68080513 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
68080372 CTCTTTGGAA
68080382 AATCCATTGAAGCTGCTCTGTTTAGCTTCCTCAGTCCCCTAAATCTGATTAGGGAATTGCGGTAC
1 AATCCATTGAAGCTGCTCTGTTTAGCTTCCTCAGTCCCCTAAATCTGATTAGGGAATTGCGGTAC
68080447 AATCCATTGAAGCTGCTCTGTTTAGCTTCCTCAGTCCCCTAAATCTGATTAGGGAATTGCGGTAC
1 AATCCATTGAAGCTGCTCTGTTTAGCTTCCTCAGTCCCCTAAATCTGATTAGGGAATTGCGGTAC
68080512 AA
1 AA
68080514 GAAAACAAAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (65 bp):
AATCCATTGAAGCTGCTCTGTTTAGCTTCCTCAGTCCCCTAAATCTGATTAGGGAATTGCGGTAC
Found at i:68080700 original size:21 final size:22
Alignment explanation
Indices: 68080676--68080716 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
68080666 CAATTGACAA
68080676 ATAAGATATTT-CAATATGTGT
1 ATAAGATATTTACAATATGTGT
* *
68080697 ATAATATGTTTACAATATGT
1 ATAAGATATTTACAATATGT
68080717 CAATATCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ATAAGATATTTACAATATGTGT
Found at i:68085446 original size:3 final size:3
Alignment explanation
Indices: 68085438--68085491 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
68085428 AACCTTCACA
* * * *
68085438 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
68085483 TAT TAT TAT
1 TAT TAT TAT
68085492 ACTTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:68085596 original size:18 final size:17
Alignment explanation
Indices: 68085549--68085602 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
68085539 TTATTGTACG
*
68085549 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
68085565 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
68085583 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
68085602 T
1 T
68085603 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:68086215 original size:18 final size:18
Alignment explanation
Indices: 68086194--68086248 Score: 87
Period size: 17 Copynumber: 3.2 Consensus size: 18
68086184 ATTCGGATCC
68086194 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
68086212 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
*
68086229 AAAAAATTTTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
68086246 CAA
1 CAA
68086249 TCGGATCACG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 22 0.65
18 12 0.35
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:68088258 original size:23 final size:23
Alignment explanation
Indices: 68088227--68088270 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
68088217 ATTGAGTATT
* *
68088227 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
68088250 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
68088271 TATTGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:68088330 original size:26 final size:24
Alignment explanation
Indices: 68088293--68088356 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 24
68088283 TTATGGGATA
68088293 ATATAAAAAATATATGA-ATAATGTG
1 ATATAAAAAATATAT-ACATAAT-TG
*
68088318 ATATTAAAAAATATATACATAATTT
1 ATA-TAAAAAATATATACATAATTG
68088343 ATATAAAAAATATA
1 ATATAAAAAATATA
68088357 ATATTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 11 0.31
25 8 0.22
26 17 0.47
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (24 bp):
ATATAAAAAATATATACATAATTG
Found at i:68088365 original size:14 final size:14
Alignment explanation
Indices: 68088343--68088398 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
68088333 TACATAATTT
68088343 ATATAAAAAATATA
1 ATATAAAAAATATA
*
68088357 ATATTAAAAATAT-
1 ATATAAAAAATATA
*
68088370 ATATACATATAATAT-
1 ATATA-A-AAAATATA
*
68088385 ATATAAAATATATA
1 ATATAAAAAATATA
68088399 CATAATATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 9 0.26
14 14 0.41
15 11 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAAAAATATA
Found at i:68088370 original size:64 final size:66
Alignment explanation
Indices: 68088290--68088422 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 66
68088280 TATTTATGGG
* * *
68088290 ATAATATAAAAAATATATGAATA-ATGTGATAT-TAAAAAATATATACATAATTTA-TA-TAAAA
1 ATAATATAAAAAATATAT--ATACATATAATATATAAAAAATATATACATAATATAGTATTAAAA
68088351 AAT
64 AAT
* * *
68088354 ATAATATTAAAAATATATATACATATAATATATATAAAATATATACATAATATAGTATTAAAATA
1 ATAATATAAAAAATATATATACATATAATATATAAAAAATATATACATAATATAGTATTAAAAAA
68088419 T
66 T
68088420 ATA
1 ATA
68088423 CATGATATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
62 3 0.05
63 7 0.12
64 37 0.63
65 2 0.03
66 10 0.17
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (66 bp):
ATAATATAAAAAATATATATACATATAATATATAAAAAATATATACATAATATAGTATTAAAAAA
T
Found at i:68088379 original size:24 final size:23
Alignment explanation
Indices: 68088351--68088454 Score: 84
Period size: 26 Copynumber: 4.1 Consensus size: 23
68088341 TTATATAAAA
68088351 AATATAATATTAAAAATATATAT
1 AATATAATATTAAAAATATATAT
68088374 ACATATAATATATATAAAATATATACAT
1 A-ATATAATAT-TA-AAAATATAT--AT
* *
68088402 AATATAGTATTAAAATATATACAT
1 AATATAATATTAAAA-ATATATAT
*
68088426 GATATATACATATTAGAAATA-ATAAT
1 -A-ATATA-ATATTAAAAATATAT-AT
68088452 AAT
1 AAT
68088455 GTTACAAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
23 1 0.02
24 13 0.20
25 8 0.12
26 26 0.39
27 15 0.23
28 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.37
Consensus pattern (23 bp):
AATATAATATTAAAAATATATAT
Found at i:68088386 original size:40 final size:39
Alignment explanation
Indices: 68088318--68088398 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 39
68088308 GAATAATGTG
*
68088318 ATATTAAAAAATATATACATAATTTATATAAAAAATATA
1 ATATTAAAAAATATATACATAATATATATAAAAAATATA
*
68088357 ATATTAAAAATATATATACATATAATATATATAAAATATATA
1 ATATTAAAAA-ATATATAC--ATAATATATATAAAAAATATA
68088399 CATAATATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 10 0.27
40 8 0.22
42 19 0.51
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (39 bp):
ATATTAAAAAATATATACATAATATATATAAAAAATATA
Found at i:68089254 original size:131 final size:130
Alignment explanation
Indices: 68089062--68089548 Score: 443
Period size: 131 Copynumber: 3.7 Consensus size: 130
68089052 TATTTTTAGA
* * * *
68089062 ATTTTAAAAAACATGAGTGAAATTCTAAAGGAATATTAGATTATTTTGAACAAACAGGAAATTGC
1 ATTTTAGAAAACATGAGTGAAATTCCAAAGGAATCTTCGATTATTTTGAACAAACA-GAAATTGC
* * *
68089127 AACCTAGCACGATAGGGCACGATTCCCCAAGTTGCCAAACATCGAGTATTACCTTCGTTTTGAAG
65 AACCCAGCACGATAGGGCACGATTCCCCAA-TTGCCAAACACCGAGTATTACCTTCGTTTTAAAG
68089192 AG
129 AG
* * * * * * *
68089194 TTTTTA-AAGATATGAGTGGAATTCCAAAGGAATCTTCGATTGTTTCGAACAAACGAGAAATCGC
1 ATTTTAGAAAACATGAGTGAAATTCCAAAGGAATCTTCGATTATTTTGAACAAAC-AGAAATTGC
* * * *
68089258 AACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAGCACCGAGTATTGCCTTCGTTTTAAAGA
65 AACCCAGCACGATAGGGCACGATTCCCCAATTGCCAAACACCGAGTATTACCTTCGTTTTAAAGA
68089323 G
130 G
* * * * * *
68089324 ATTTTAGAAAACGTAAGTGAAATT-CAGAAGGGACCTTCGATTATTTTGAAGAAACAAGAGATTG
1 ATTTTAGAAAACATGAGTGAAATTCCA-AAGGAATCTTCGATTATTTTGAACAAAC-AGAAATTG
* * * * ** **
68089388 CAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCAAACATCGCCTT--TATTT--
64 CAACCCAGCACGATAGGGCACGATTCC-CCAATTGCCAAACACCGAGTATTACCTTCGT-TTTAA
68089449 AG-G
127 AGAG
** * * * *
68089452 A-TTTAGAAAAACACAAGTGAGATTCTAAAGGAA-CATTCGATTATTTTGAACAAATGAGAAATC
1 ATTTTAG-AAAACATGAGTGAAATTCCAAAGGAATC-TTCGATTATTTTGAACAAA-CAGAAATT
** * *
68089515 AAAACCCAGCACGATAGGGCATGATTCCCGAATT
63 GCAACCCAGCACGATAGGGCACGATTCCCCAATT
68089549 TTCAAGCAAT
Statistics
Matches: 294, Mismatches: 52, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
127 12 0.04
128 69 0.23
129 3 0.01
130 40 0.14
131 144 0.49
132 26 0.09
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (130 bp):
ATTTTAGAAAACATGAGTGAAATTCCAAAGGAATCTTCGATTATTTTGAACAAACAGAAATTGCA
ACCCAGCACGATAGGGCACGATTCCCCAATTGCCAAACACCGAGTATTACCTTCGTTTTAAAGAG
Found at i:68094354 original size:130 final size:130
Alignment explanation
Indices: 68093934--68094419 Score: 405
Period size: 130 Copynumber: 3.7 Consensus size: 130
68093924 TTCAAAAATT
* * * * * *
68093934 CTTTAAAACGAAGGGGATATTTGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTGCTGGGTT
1 CTTTAAAACGAAGGTGATGTTCGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTT
* * * *
68093999 GCAATTTCGCGTTTGCTCAAAATAATCGAATA-TCACTTCAAAATTTCACTT-ATTTCTTTTAAA
66 GCAATTTCTCGATTGTTCAAAATAATCGAATATTC-CTTCAAAATTTCA-TTCATGT-TTTTAAA
*
68094062 ATC
128 AAC
* * * * * *
68094065 CCTT-AAACGAAGGTGATGTGCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTT
1 CTTTAAAACGAAGGTGATGTTCGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTT
* * * * * *
68094129 GCAATTTCTCGATTGCTT-AAGATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAA
66 GCAATTTCTCGATTG-TTCAAAATAATCGAATATTCCTTCAAAATTTCATTCATGT-TTTTAAAA
68094193 ATC
129 A-C
* ** * *** *
68094196 CTTTAAAACGAAGGTAATACTCGGTGTTTAATAATTCG-GGAATCATGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAGGTGATGTTCGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTT
** * **
68094260 GTGATTTCTC-ATTGTTCAAAATAATCGAATATTCCTTTAAGTTTTCATTCATGTTTATTAAAAA
66 GCAATTTCTCGATTGTTCAAAATAATCGAATATTCCTTCAAAATTTCATTCATGTTT-TTAAAAA
68094324 C
130 C
* * * * * *
68094325 CTTTCAAAACGAAGGCGATGTTCGATGTTTGGCGATTTG-AGAATCGA-GCCCTATCGTGTTGGG
1 CTTT-AAAACGAAGGTGATGTTCGATGTTTGGCAATTCGCGGAATC-ATGCCCTAACGTGCTGGG
** * *
68094388 TTGCGCTTTTTC-ATTTGTTCAAAACAATCGAA
64 TTGCAATTTCTCGA-TTGTTCAAAATAATCGAA
68094420 GATCCCTCCG
Statistics
Matches: 286, Mismatches: 59, Indels: 20
0.78 0.16 0.05
Matches are distributed among these distances:
129 10 0.03
130 194 0.68
131 58 0.20
132 24 0.08
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (130 bp):
CTTTAAAACGAAGGTGATGTTCGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTT
GCAATTTCTCGATTGTTCAAAATAATCGAATATTCCTTCAAAATTTCATTCATGTTTTTAAAAAC
Found at i:68095447 original size:21 final size:20
Alignment explanation
Indices: 68095417--68095474 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
68095407 TACAATAGAC
*
68095417 ATAT-ATATATATTAAAGAT
1 ATATAATATATAATAAAGAT
*
68095436 ATATACATATATAATAAA-AC
1 ATATA-ATATATAATAAAGAT
68095456 ATATAATA-ATAATAAAGAT
1 ATATAATATATAATAAAGAT
68095475 GTAATATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
20 6 0.18
21 11 0.33
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATAATATATAATAAAGAT
Found at i:68095472 original size:39 final size:41
Alignment explanation
Indices: 68095415--68095492 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 41
68095405 ATTACAATAG
* *
68095415 ACATATATATATATTAAAGATAT-ATA-CATATATAATAAA
1 ACATATATATATAATAAAGATATAATATCATAAATAATAAA
*
68095454 ACATATA-ATAATAATAAAGATGTAATATCATAAATAATA
1 ACATATATAT-ATAATAAAGATATAATATCATAAATAATA
68095493 TTAGAGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.06
39 18 0.55
40 3 0.09
41 10 0.30
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (41 bp):
ACATATATATATAATAAAGATATAATATCATAAATAATAAA
Found at i:68096058 original size:27 final size:28
Alignment explanation
Indices: 68096001--68096061 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
68095991 AAGTCAGATT
** *
68096001 TTTTTTAAAAATTCATTCTTTCCTTTGC
1 TTTTTTAAAAAAACATTCTTTCCCTTGC
68096029 TTTTTTAAAAAAAC-TTCCTTTCCCTT-C
1 TTTTTTAAAAAAACATT-CTTTCCCTTGC
68096056 TTTTTT
1 TTTTTT
68096062 TTCTCTGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.21, C:0.20, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTTTAAAAAAACATTCTTTCCCTTGC
Found at i:68096269 original size:10 final size:9
Alignment explanation
Indices: 68096248--68096284 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
68096238 GAATAAATTC
68096248 AAAAAT-AA
1 AAAAATAAA
68096256 AAAAATAAA
1 AAAAATAAA
68096265 AAAAATGAAA
1 AAAAAT-AAA
68096275 AAAAATAAA
1 AAAAATAAA
68096284 A
1 A
68096285 TCACCTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 6 0.22
9 12 0.44
10 9 0.33
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:68097736 original size:131 final size:130
Alignment explanation
Indices: 68097515--68097758 Score: 355
Period size: 131 Copynumber: 1.9 Consensus size: 130
68097505 TAATTATTCA
* * **
68097515 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGACAATTCGGGAATCGTGCCCTATTG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGACAATTCGGGAATAGTGCCCTATCA
*
68097580 TGCTGGGTTGCGATTTCTCGCTTGTTCAAAATAATCGAATATTCCTTTTGTTTTTCACCCATGTC
66 TGCTGGGTTGCGATTTCTCGCTTGTTCAAAATAATCGAATATCCCTTTTGTTTTTCACCCATGTC
** ** * *
68097645 TTTAAAAATTCTTCAAAACGAAGTTAATGTTTGATGTTTGGCAATTCGGGGAATAGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGACAATTC-GGGAATAGTGCCCTATC
*
68097710 ATGCTGGGTTGCGATTTC-CTGTTTGTTCAAAATAATCGAATATCCCTTT
65 ATGCTGGGTTGCGATTTCTC-GCTTGTTCAAAATAATCGAATATCCCTTT
68097759 AGAATTTCAC
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
130 41 0.41
131 59 0.59
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (130 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGACAATTCGGGAATAGTGCCCTATCA
TGCTGGGTTGCGATTTCTCGCTTGTTCAAAATAATCGAATATCCCTTTTGTTTTTCACCCATGTC
Found at i:68101543 original size:44 final size:44
Alignment explanation
Indices: 68101480--68101574 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 44
68101470 CAGTAGTGCT
68101480 AATATAATTCAAATTCAAACATATTGCATTAAAAATAAATAAGC
1 AATATAATTCAAATTCAAACATATTGCATTAAAAATAAATAAGC
*
68101524 AATATAATTCAAATTCAAACATATTGCTTTAAAAATAAATAAGC
1 AATATAATTCAAATTCAAACATATTGCATTAAAAATAAATAAGC
68101568 AAGTATA
1 AA-TATA
68101575 TATAACACCT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 45 0.92
45 4 0.08
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (44 bp):
AATATAATTCAAATTCAAACATATTGCATTAAAAATAAATAAGC
Found at i:68103704 original size:42 final size:42
Alignment explanation
Indices: 68103641--68103767 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
68103631 CTTCGTTTTC
** *
68103641 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* * *
68103684 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
68103725 TCGATGCCATAGCCCAACTATGGTCTTCCACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
68103766 TC
1 TC
68103768 TCACTGATGC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 10 0.14
42 60 0.83
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:68103855 original size:31 final size:31
Alignment explanation
Indices: 68103820--68104030 Score: 296
Period size: 31 Copynumber: 6.8 Consensus size: 31
68103810 CTTGTCACTT
* *
68103820 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
68103851 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68103882 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
68103913 GTAGCCGGAGCTACCACTTTTCACTAATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68103944 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
68103975 GTAGCTGAAGCTACCACTTTTCACTGATCTG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
68104006 GTAGCTGAAGCTACAACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
68104031 TGTCATTTGT
Statistics
Matches: 164, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 164 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:68107677 original size:32 final size:32
Alignment explanation
Indices: 68107636--68107699 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
68107626 CCTACGCCTT
68107636 CGCCTCCGTACTCCTCACGCCAAGCGCCAGCA
1 CGCCTCCGTACTCCTCACGCCAAGCGCCAGCA
68107668 CGCCTCCGTACTCCTCACGCCAAGCGCCAGCA
1 CGCCTCCGTACTCCTCACGCCAAGCGCCAGCA
68107700 TGACACCCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (32 bp):
CGCCTCCGTACTCCTCACGCCAAGCGCCAGCA
Found at i:68110455 original size:132 final size:132
Alignment explanation
Indices: 68110160--68110545 Score: 390
Period size: 132 Copynumber: 2.9 Consensus size: 132
68110150 AAAATTCTTT
* * * * *
68110160 AAAACGAAGGCAATACTCGGTGTTTGATAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGTGAT
1 AAAACGAAGACAATACTCGATGCTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGTGAT
* ** *
68110225 TTCTCGTTTGTTCAAAACAATCGAATATTCCTT-TAGGTTTTCACT-CGTATTTATTAAAAACCT
66 TTCTCGTTTGTTCAAAACAATCGAATATTCCTTCGA-AATTTCACTCCGTATTTACTAAAAACCT
68110288 TCC
130 TCC
* * * * * *
68110291 AAAACGAATACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGTGAT
1 AAAACGAAGACAATACTCGATGCTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGTGAT
* *
68110356 TTCTCGTTTTTTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGT-TTT-CTAAAAACC
66 TTCTCG-TTTGTTCAAAACAATCGAATATTCCTTCGAAATTTCACTC-CGTATTTACTAAAAA-C
*
68110419 CTTTC
128 CTTCC
* * * * * * * **
68110424 -AAACGGAGGCGATATTCGATGCTTGGCAATTCGGGGAATAGTACCCTATCGTGCTGGGTTGCAA
1 AAAACGAAGACAATACTCGATGCTTGACAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGTGA
* * * *
68110488 TTTCCCGTTTGTTCAAAATAATCGAATA-TCTCTTCGGAATTTCACT-CGTATTTTCTAA
65 TTTCTCGTTTGTTCAAAACAATCGAATATTC-CTTCGAAATTTCACTCCGTATTTACTAA
68110546 GGTGAGGCAA
Statistics
Matches: 214, Mismatches: 32, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
130 3 0.01
131 71 0.33
132 97 0.45
133 40 0.19
134 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (132 bp):
AAAACGAAGACAATACTCGATGCTTGACAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGTGAT
TTCTCGTTTGTTCAAAACAATCGAATATTCCTTCGAAATTTCACTCCGTATTTACTAAAAACCTT
CC
Found at i:68111812 original size:13 final size:13
Alignment explanation
Indices: 68111794--68111831 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
68111784 TTATTTTACT
68111794 TTATATTATTATA
1 TTATATTATTATA
*
68111807 TTATATTTTTA-A
1 TTATATTATTATA
68111819 TTATAATTATTAT
1 TTAT-ATTATTAT
68111832 TTCTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:68115712 original size:10 final size:10
Alignment explanation
Indices: 68115693--68115722 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
68115683 TCCTGTAACA
68115693 TGAA-AATTG
1 TGAAGAATTG
68115702 TGAAGAATTG
1 TGAAGAATTG
68115712 TGAAGAATTG
1 TGAAGAATTG
68115722 T
1 T
68115723 TATGTATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (10 bp):
TGAAGAATTG
Found at i:68122640 original size:37 final size:37
Alignment explanation
Indices: 68122590--68122663 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
68122580 TGAGGTTTGT
68122590 CAGCTTGGTAAGCAGGCTAGACTGCCTTTTCCTGCTG
1 CAGCTTGGTAAGCAGGCTAGACTGCCTTTTCCTGCTG
*
68122627 CAGCTTGGTAAGCAGGTTAGACTGCCTTTTCCTGCTG
1 CAGCTTGGTAAGCAGGCTAGACTGCCTTTTCCTGCTG
68122664 ACAGTGCTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.31
Consensus pattern (37 bp):
CAGCTTGGTAAGCAGGCTAGACTGCCTTTTCCTGCTG
Found at i:68128477 original size:18 final size:19
Alignment explanation
Indices: 68128445--68128486 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
68128435 ATATATCTAA
68128445 AATAATAATAAAATTA-AC
1 AATAATAATAAAATTATAC
68128463 AATAA-AATAAGAATTATAC
1 AATAATAATAA-AATTATAC
68128482 AATAA
1 AATAA
68128487 CAACAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 10 0.45
19 7 0.32
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAATAAAATTATAC
Found at i:68137035 original size:15 final size:15
Alignment explanation
Indices: 68137015--68137065 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
68137005 AAAAATTTAT
68137015 AAATAAATTTTAATA
1 AAATAAATTTTAATA
68137030 AAATAAAATTTT-A-A
1 AAAT-AAATTTTAATA
* * *
68137044 AAATATATTATAATT
1 AAATAAATTTTAATA
68137059 AAATAAA
1 AAATAAA
68137066 ATAAGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 11 0.38
16 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATAAATTTTAATA
Found at i:68137067 original size:29 final size:29
Alignment explanation
Indices: 68137004--68137067 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
68136994 ATTATATTTG
* * *
68137004 TAAAAATTTATAAATAAATTTTAATAAAA
1 TAAAATTTTAAAAATAAATTATAATAAAA
* *
68137033 TAAAATTTTAAAAATATATTATAATTAAA
1 TAAAATTTTAAAAATAAATTATAATAAAA
68137062 TAAAAT
1 TAAAAT
68137068 AAGTTTTGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAATTTTAAAAATAAATTATAATAAAA
Done.