Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 13 of 297
Found at i:4104249 original size:50 final size:50
Alignment explanation
Indices: 4104184--4104428 Score: 156
Period size: 52 Copynumber: 4.9 Consensus size: 50
4104174 TTTTTTAACC
* *
4104184 TTATTTTTATATTATATATTATAATTATTTTATTATATATTATTTATATTA
1 TTATTATT-TATTATATATTATAATTATTATATTATATATTATTTATATTA
** * * * *
4104235 TTATTATTTATTATATATTATTTTTCA-CAAATTGT-TATTATTT-TA-CA
1 TTATTATTTATTATATATTATAATT-ATTATATTATATATTATTTATATTA
* *
4104282 TTATTATTTA-TATATTATTATTA-TATTATATGT-T-TATTAATTATATATA
1 TTATTATTTATTATA-TATTATAATTATTATAT-TATATATTATTTATAT-TA
* *
4104331 TTATTTTTTTATATATATACTTTTATATTA-TATATTATA-ATTATTTTATATTA
1 TTA-TTATTTAT-TATATA-TTATA-ATTATTATATTATATATTA-TTTATATTA
4104384 TTATGTCATTT-TTATATTATTATACATT-TT-TATCTATATATTATT
1 TTAT-T-ATTTATTATA-TATTATA-ATTATTATAT-TATATATTATT
4104429 ATCATTAAAG
Statistics
Matches: 152, Mismatches: 20, Indels: 43
0.71 0.09 0.20
Matches are distributed among these distances:
45 1 0.01
46 16 0.11
47 21 0.14
48 2 0.01
49 12 0.08
50 25 0.16
51 13 0.09
52 27 0.18
53 24 0.16
54 11 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (50 bp):
TTATTATTTATTATATATTATAATTATTATATTATATATTATTTATATTA
Found at i:4104259 original size:80 final size:78
Alignment explanation
Indices: 4104137--4104387 Score: 203
Period size: 80 Copynumber: 3.1 Consensus size: 78
4104127 CCCTATATAT
* * *
4104137 TTATTATTATATATATT-TTA-TATTGTTATT-TGTTTTATTTTTTAACCTTATTTTTATATTAT
1 TTATTATTATTTATATTATTATTA-T-TTATTATATATTA-TTTTTAA-CTTATTTTTATATTAT
4104199 ATATTATAATTATTTTA
62 ATATTATAATTATTTTA
* ** * * *
4104216 TTATATATTATTTATATTATTATTATTTATTATATATTATTTTTCACAAATTGTTATTATTTTAC
1 TTAT-TATTATTTATATTATTATTATTTATTATATATTATTTTTAACTTATTTTTA-TATTATAT
* *
4104281 ATTATTATT-TATATA
64 ATTATAATTAT-TTTA
*
4104296 TTATTATTATATTATATGT-TTATTAATTA-TATATATTATTTTTTTATA-TATATACTTTTATA
1 TTATTATTAT-TTATAT-TATTATTATTTATTATATATTA--TTTTTA-ACT-TAT--TTTTATA
4104358 TTATATATTATAATTATTTTA
58 TTATATATTATAATTATTTTA
4104379 -TATTATTAT
1 TTATTATTAT
4104388 GTCATTTTTA
Statistics
Matches: 137, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
79 27 0.20
80 59 0.43
81 15 0.11
82 14 0.10
83 17 0.12
84 5 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (78 bp):
TTATTATTATTTATATTATTATTATTTATTATATATTATTTTTAACTTATTTTTATATTATATAT
TATAATTATTTTA
Found at i:4104760 original size:26 final size:26
Alignment explanation
Indices: 4104712--4104761 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
4104702 TTATAAATAT
* * * *
4104712 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
4104738 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
4104762 TTATTATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:4111017 original size:40 final size:40
Alignment explanation
Indices: 4110954--4111135 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
4110944 GAGGATTATA
*
4110954 TCCGGGTTAAGTCCCGAAAGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * *
4110994 TCCGGGTTAAGTCTCGAAGGCATTCGTGTTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * *
4111034 TCTGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * * * **
4111074 TTCGGATTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
4111114 TCCGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
4111136 ATTGGGTTGG
Statistics
Matches: 119, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:4112646 original size:15 final size:15
Alignment explanation
Indices: 4112626--4112656 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4112616 GCCAAATGTC
4112626 TCCCTCTACCTACCA
1 TCCCTCTACCTACCA
4112641 TCCCTCTACCTACCA
1 TCCCTCTACCTACCA
4112656 T
1 T
4112657 ATTTGGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.29
Consensus pattern (15 bp):
TCCCTCTACCTACCA
Found at i:4119324 original size:58 final size:58
Alignment explanation
Indices: 4119234--4119351 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
4119224 TAAGAAGCTT
*
4119234 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTTTATATACTGTTC
1 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
4119292 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
1 GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
4119350 GG
1 GG
4119352 TTTTAAATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (58 bp):
GGAGCTGTAATATATCTCCCTTTTGTTCAACACGAATCTAAATGTGTATATACTGTTC
Found at i:4126247 original size:19 final size:19
Alignment explanation
Indices: 4126225--4126262 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4126215 GGGTTTGTTT
4126225 TTTCTTGTTGGGAAATCTC
1 TTTCTTGTTGGGAAATCTC
*
4126244 TTTCTTGTTGGGACATCTC
1 TTTCTTGTTGGGAAATCTC
4126263 AAATTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTCTTGTTGGGAAATCTC
Found at i:4141898 original size:34 final size:34
Alignment explanation
Indices: 4141855--4141923 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4141845 TTGATCTATT
4141855 AATATAAAAATATAATAGTAGGGTTGGATAGATA
1 AATATAAAAATATAATAGTAGGGTTGGATAGATA
*
4141889 AATATAAAAATATAATAGTAGGTTTGGATAGATA
1 AATATAAAAATATAATAGTAGGGTTGGATAGATA
4141923 A
1 A
4141924 TGCGTTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (34 bp):
AATATAAAAATATAATAGTAGGGTTGGATAGATA
Found at i:4145319 original size:12 final size:12
Alignment explanation
Indices: 4145302--4145340 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
4145292 GTCAGTTCCC
4145302 TTTTTTTCTTTT
1 TTTTTTTCTTTT
4145314 TTTTTTTCTTTT
1 TTTTTTTCTTTT
*
4145326 TTTTTGTCTATTT
1 TTTTTTTCT-TTT
4145339 TT
1 TT
4145341 CCGGTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:4147963 original size:18 final size:21
Alignment explanation
Indices: 4147931--4147973 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
4147921 ATTAATTAAT
4147931 TTTTAAAAAATTAAA-A-ATA
1 TTTTAAAAAATTAAAGATATA
4147950 TTTTAAAAAA-TAAAGATATA
1 TTTTAAAAAATTAAAGATATA
4147970 TTTT
1 TTTT
4147974 TATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAAAAATTAAAGATATA
Found at i:4148001 original size:19 final size:18
Alignment explanation
Indices: 4147967--4148032 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
4147957 AAATAAAGAT
* *
4147967 ATATTTTTATATTTTTTA
1 ATATTTTAATAATTTTTA
*
4147985 GTAATTTTAATAATTTTTA
1 AT-ATTTTAATAATTTTTA
4148004 ATATTTTAAAATAATTTTTTA
1 ATATTTT--AATAA-TTTTTA
4148025 A-ATTTTAA
1 ATATTTTAA
4148033 AAAATTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.20
19 15 0.38
20 10 0.25
21 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATATTTTAATAATTTTTA
Found at i:4148033 original size:20 final size:21
Alignment explanation
Indices: 4147977--4148038 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
4147967 ATATTTTTAT
*
4147977 ATTTTTTAGTAATTTT--AATA
1 ATTTTTTAAT-ATTTTAAAATA
4147997 A-TTTTTAATATTTTAAAATA
1 ATTTTTTAATATTTTAAAATA
4148017 ATTTTTTAA-ATTTTAAAA-A
1 ATTTTTTAATATTTTAAAATA
4148036 ATT
1 ATT
4148039 AATTAATTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 5 0.13
19 11 0.29
20 15 0.39
21 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTTAATATTTTAAAATA
Found at i:4148044 original size:19 final size:21
Alignment explanation
Indices: 4147993--4148045 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
4147983 TAGTAATTTT
*
4147993 AATAATT-TTTAATATTTTAA
1 AATAATTAATTAATATTTTAA
**
4148013 AATAATTTTTTAA-ATTTTAA
1 AATAATTAATTAATATTTTAA
4148033 AA-AATTAATTAAT
1 AATAATTAATTAAT
4148046 TGCTGATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATTAATTAATATTTTAA
Found at i:4149059 original size:14 final size:15
Alignment explanation
Indices: 4149033--4149061 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4149023 TCGCTTTACT
4149033 TGTCTTCTATTTTCA
1 TGTCTTCTATTTTCA
4149048 TGTCTT-TATTTTCA
1 TGTCTTCTATTTTCA
4149062 AGGGAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.17, G:0.07, T:0.62
Consensus pattern (15 bp):
TGTCTTCTATTTTCA
Found at i:4151395 original size:14 final size:15
Alignment explanation
Indices: 4151373--4151401 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4151363 ATTTATCCAT
4151373 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
4151388 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
4151402 AATCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:4155279 original size:40 final size:40
Alignment explanation
Indices: 4155220--4156212 Score: 1891
Period size: 40 Copynumber: 24.9 Consensus size: 40
4155210 ACCCAAGTAT
* * * * *
4155220 CTTCGGGAT-TTAG-CCGGATATAACCATTAGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATAC
* *
4155259 CTTCGGGTCTTAACCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155299 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155339 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155379 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155419 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155459 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155499 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155539 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155579 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155619 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155659 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155699 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155739 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155779 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155819 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155859 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155899 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155939 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4155979 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4156019 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4156059 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4156099 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
*
4156139 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
4156179 CTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
4156213 CCGGATATAA
Statistics
Matches: 944, Mismatches: 8, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
38 1 0.00
39 10 0.01
40 933 0.99
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATAC
Found at i:4156217 original size:20 final size:20
Alignment explanation
Indices: 4156192--4156232 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4156182 CGGGTCTTAG
4156192 CCCGGATATAACAACTCGCA
1 CCCGGATATAACAACTCGCA
4156212 CCCGGATATAACAACTCGCA
1 CCCGGATATAACAACTCGCA
4156232 C
1 C
4156233 AAATGCCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (20 bp):
CCCGGATATAACAACTCGCA
Found at i:4156245 original size:60 final size:60
Alignment explanation
Indices: 4156152--4156272 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
4156142 CGGGTCTTAG
4156152 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
1 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
4156212 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
1 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
4156272 C
1 C
4156273 AAATACCTTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (60 bp):
CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
Found at i:4156267 original size:40 final size:40
Alignment explanation
Indices: 4156212--4156420 Score: 341
Period size: 40 Copynumber: 5.2 Consensus size: 40
4156202 ACAACTCGCA
4156212 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
*
4156252 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAG
1 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
4156292 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
*
4156332 CCCGGTTATAACAACTCGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
* * *
4156372 CCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAT-ATAG
1 CCCGGATATAA-CAACTCGCACAAATGCCTTCGGG-TCTTAG
4156412 CCCGGATAT
1 CCCGGATAT
4156421 CATTCAAATG
Statistics
Matches: 160, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
40 158 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAG
Found at i:4156285 original size:100 final size:100
Alignment explanation
Indices: 4156112--4156312 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
4156102 CGGGTCTTAG
4156112 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
*
4156177 GCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
*
4156212 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
4156277 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
4156312 C
1 C
4156313 AAATGCCTTC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (100 bp):
CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
Found at i:4156324 original size:140 final size:140
Alignment explanation
Indices: 4156072--4156352 Score: 544
Period size: 140 Copynumber: 2.0 Consensus size: 140
4156062 CGGGTCTTAG
4156072 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
4156137 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
4156202 ACAACTCGCA
131 ACAACTCGCA
*
4156212 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
*
4156277 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGTTATA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
4156342 ACAACTCGCA
131 ACAACTCGCA
4156352 C
1 C
4156353 AAATGCCTTC
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (140 bp):
CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
ACAACTCGCA
Found at i:4156334 original size:180 final size:180
Alignment explanation
Indices: 4156032--4156382 Score: 675
Period size: 180 Copynumber: 1.9 Consensus size: 180
4156022 CGGGTCTTAG
4156032 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
4156097 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
4156162 ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
131 ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
*
4156212 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
* *
4156277 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGTTATA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
4156342 ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
131 ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
4156383 TCACTAGCAT
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 168 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (180 bp):
CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
Found at i:4156374 original size:220 final size:220
Alignment explanation
Indices: 4155992--4156420 Score: 763
Period size: 220 Copynumber: 1.9 Consensus size: 220
4155982 CGGGTCTTAG
4155992 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
4156057 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
*
4156122 ACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGG
131 ACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGG
*
4156186 -TCTTAGCCCGGATATAACAACTCGCA
195 AT-ATAGCCCGGATATAACAACTCGCA
*
4156212 CCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
* *
4156277 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGTTATA
66 ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
* *
4156342 ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGA
131 ACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGA
4156407 TATAGCCCGGATAT
196 TATAGCCCGGATAT
4156421 CATTCAAATG
Statistics
Matches: 200, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
220 198 0.99
221 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (220 bp):
CCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
ACCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
ACAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGA
TATAGCCCGGATATAACAACTCGCA
Found at i:4165178 original size:46 final size:46
Alignment explanation
Indices: 4165125--4165435 Score: 559
Period size: 46 Copynumber: 6.7 Consensus size: 46
4165115 TAGTTGAGCA
4165125 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
4165171 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
4165217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
4165263 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
4165309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** *
4165355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTTTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATG
* * *
4165402 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4165436 GGGGCGGGTT
Statistics
Matches: 256, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 216 0.84
47 40 0.16
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4171933 original size:5 final size:5
Alignment explanation
Indices: 4171923--4171953 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4171913 GATAATGGCG
*
4171923 ATAGT ATAGT ATAGT ACAGT ATAGT ATAGT A
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT A
4171954 CAATGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (5 bp):
ATAGT
Found at i:4171945 original size:15 final size:15
Alignment explanation
Indices: 4171925--4171955 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4171915 TAATGGCGAT
4171925 AGTATAGTATAGTAC
1 AGTATAGTATAGTAC
4171940 AGTATAGTATAGTAC
1 AGTATAGTATAGTAC
4171955 A
1 A
4171956 ATGAATGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
AGTATAGTATAGTAC
Found at i:4173489 original size:22 final size:22
Alignment explanation
Indices: 4173464--4173506 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4173454 ATGTATAAGT
4173464 GTAAGGAATGGAAACGACATGA
1 GTAAGGAATGGAAACGACATGA
*
4173486 GTAATGAATGGAAACGACATG
1 GTAAGGAATGGAAACGACATG
4173507 GCGTTTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.30, T:0.16
Consensus pattern (22 bp):
GTAAGGAATGGAAACGACATGA
Found at i:4175004 original size:6 final size:6
Alignment explanation
Indices: 4174993--4175023 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4174983 TGATGGTTAA
4174993 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT T
1 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT T
4175024 CCCCTCAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
TGGTTT
Found at i:4176728 original size:66 final size:68
Alignment explanation
Indices: 4176620--4176747 Score: 197
Period size: 66 Copynumber: 1.9 Consensus size: 68
4176610 CATGTATAGT
* * *
4176620 TATATGCAATCCTAGGATGAAATTATTCAAAAGTTACATGATGATTGCTTTGGAATGACTTGGCT
1 TATATGCAATCCTAGGATGAAATTATTCAAAAGATACATGATGACTGCTTTAGAATGACTTGGCT
4176685 AGG
66 AGG
* *
4176688 TATATGCAA-CC-CGGATGAAATTTTTCAAAAGATACATGATGACTGCTTTAGAATGACTTG
1 TATATGCAATCCTAGGATGAAATTATTCAAAAGATACATGATGACTGCTTTAGAATGACTTG
4176748 ACCCCGCCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 44 0.80
67 2 0.04
68 9 0.16
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (68 bp):
TATATGCAATCCTAGGATGAAATTATTCAAAAGATACATGATGACTGCTTTAGAATGACTTGGCT
AGG
Found at i:4178596 original size:3 final size:3
Alignment explanation
Indices: 4178588--4178612 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4178578 TCGTCTTGTT
4178588 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4178613 GTTGAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4179858 original size:36 final size:36
Alignment explanation
Indices: 4179811--4179882 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4179801 GCTCATCGGG
4179811 CATGGATAACTTTACTAAATAGTGACAAATTTGAGC
1 CATGGATAACTTTACTAAATAGTGACAAATTTGAGC
4179847 CATGGATAACTTTACTAAATAGTGACAAATTTGAGC
1 CATGGATAACTTTACTAAATAGTGACAAATTTGAGC
4179883 TTGATTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (36 bp):
CATGGATAACTTTACTAAATAGTGACAAATTTGAGC
Found at i:4180425 original size:13 final size:13
Alignment explanation
Indices: 4180407--4180431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4180397 AGTTACATTA
4180407 AGACCCAAAACCG
1 AGACCCAAAACCG
4180420 AGACCCAAAACC
1 AGACCCAAAACC
4180432 AAGCCCAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.40, G:0.12, T:0.00
Consensus pattern (13 bp):
AGACCCAAAACCG
Found at i:4181835 original size:27 final size:25
Alignment explanation
Indices: 4181804--4181869 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
4181794 ACCTTGGTTA
* *
4181804 TTATTATTTTTAATATCTATTATTGTT
1 TTATTATTTTTAAT-TC-ATCATTCTT
*
4181831 TTATTATTTATTCATTCATCATTCTT
1 TTATTATTT-TTAATTCATCATTCTT
4181857 TTATTTATTTTTA
1 TTA-TTATTTTTA
4181870 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 12 0.36
27 17 0.52
28 4 0.12
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (25 bp):
TTATTATTTTTAATTCATCATTCTT
Found at i:4182188 original size:26 final size:25
Alignment explanation
Indices: 4182088--4182218 Score: 88
Period size: 26 Copynumber: 5.1 Consensus size: 25
4182078 TTTTTATTAT
* *
4182088 ATTT-TTACATATTATTTATTTTAA
1 ATTTCTTATATATTATTTACTTTAA
* * * *
4182112 ATCTTCGTGTATATTATCTATTTTAA
1 AT-TTCTTATATATTATTTACTTTAA
* *
4182138 AGTTT-TATATGTATTACTTGA-TTTAA
1 A-TTTCT-TATATATTA-TTTACTTTAA
* *
4182164 ATTATTTTATATGTTATTTACTTTAAA
1 ATT-TCTTATATATTATTTACTTT-AA
*
4182191 ATTTCTTATATATTATTTATTTTAA
1 ATTTCTTATATATTATTTACTTTAA
4182216 ATT
1 ATT
4182219 CCCTTTTACA
Statistics
Matches: 83, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
24 2 0.02
25 12 0.14
26 60 0.72
27 9 0.11
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
ATTTCTTATATATTATTTACTTTAA
Found at i:4186308 original size:13 final size:13
Alignment explanation
Indices: 4186290--4186339 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
4186280 AGTTGCTTTA
*
4186290 ATTAATAGATTTT
1 ATTAATTGATTTT
*
4186303 ATTAATTGATTTG
1 ATTAATTGATTTT
*
4186316 ATCAATTGATTTT
1 ATTAATTGATTTT
4186329 ATTAATT-ATTT
1 ATTAATTGATTT
4186340 ATTTAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 4 0.12
13 28 0.88
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTAATTGATTTT
Found at i:4190584 original size:10 final size:10
Alignment explanation
Indices: 4190567--4190625 Score: 73
Period size: 10 Copynumber: 5.9 Consensus size: 10
4190557 TTAAATTCTA
4190567 AAAGATAAAT
1 AAAGATAAAT
*
4190577 ATAGATAAAT
1 AAAGATAAAT
*
4190587 AAAGATAATT
1 AAAGATAAAT
*
4190597 AAAGATAATT
1 AAAGATAAAT
*
4190607 AAAAATAAAT
1 AAAGATAAAT
*
4190617 GAAGATAAA
1 AAAGATAAA
4190626 AGCTAAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:4192852 original size:18 final size:18
Alignment explanation
Indices: 4192829--4192872 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
4192819 AATATAATCA
*
4192829 TTCAGTAATCATCAGTTT
1 TTCAGTAATCATCAGTCT
*
4192847 TTCAGTAA-CATTAGTCT
1 TTCAGTAATCATCAGTCT
*
4192864 TTCAATAAT
1 TTCAGTAAT
4192873 TATTTAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (18 bp):
TTCAGTAATCATCAGTCT
Found at i:4193761 original size:3 final size:3
Alignment explanation
Indices: 4193753--4193888 Score: 272
Period size: 3 Copynumber: 45.3 Consensus size: 3
4193743 NNNNNNNNNN
4193753 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4193801 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4193849 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4193889 AACAAAATTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 133 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4200523 original size:22 final size:22
Alignment explanation
Indices: 4200498--4200539 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4200488 TAAGATAATT
4200498 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
4200520 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
4200540 GCATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:4200546 original size:22 final size:21
Alignment explanation
Indices: 4200507--4200549 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4200497 TTTAAAAAAC
* *
4200507 AAATAATAAAATCTTAAATAA
1 AAATAATAAAAGCATAAATAA
4200528 AAATGAATAAAAGCATAAATAA
1 AAAT-AATAAAAGCATAAATAA
4200550 GTAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAATAAAAGCATAAATAA
Found at i:4201613 original size:11 final size:11
Alignment explanation
Indices: 4201583--4201614 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
4201573 AATTTCATCA
4201583 CTGTC-ATTTG
1 CTGTCTATTTG
4201593 CTGT-TATTTG
1 CTGTCTATTTG
4201603 CTGTCTATTTG
1 CTGTCTATTTG
4201614 C
1 C
4201615 ACTGCTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (11 bp):
CTGTCTATTTG
Found at i:4201859 original size:17 final size:17
Alignment explanation
Indices: 4201839--4201877 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4201829 ATTATTTTGG
4201839 TTTTGTTATATTTTTT-A
1 TTTTGTT-TATTTTTTAA
*
4201856 TTTTGTTTTTTTTTTAA
1 TTTTGTTTATTTTTTAA
4201873 TTTTG
1 TTTTG
4201878 GTGTAAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTTGTTTATTTTTTAA
Found at i:4201876 original size:23 final size:23
Alignment explanation
Indices: 4201830--4201876 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4201820 TTGGACTTTA
*
4201830 TTATTTTGGTTTTGTTATATTTT
1 TTATTTTGGTTTTGTTATAATTT
* * *
4201853 TTATTTTGTTTTTTTTTTAATTT
1 TTATTTTGGTTTTGTTATAATTT
4201876 T
1 T
4201877 GGTGTAAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.79
Consensus pattern (23 bp):
TTATTTTGGTTTTGTTATAATTT
Found at i:4212728 original size:21 final size:20
Alignment explanation
Indices: 4212685--4212737 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
4212675 AGAGTTTTCA
*
4212685 TTTA-TTTGTTTTATTTAGC
1 TTTATTTTGTTTTACTTAGC
**
4212704 TTTAATTTTGTTTTACTTATT
1 TTT-ATTTTGTTTTACTTAGC
*
4212725 TTTATTTCGTTTT
1 TTTATTTTGTTTT
4212738 TATTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.36
21 15 0.54
ACGTcount: A:0.15, C:0.06, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTATTTTGTTTTACTTAGC
Found at i:4212736 original size:20 final size:20
Alignment explanation
Indices: 4212685--4212737 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
4212675 AGAGTTTTCA
*
4212685 TTTATTTGTTTTATTTAGCT
1 TTTATTTGTTTTACTTAGCT
* *
4212705 TTAATTTTGTTTTACTTA-TT
1 TTTA-TTTGTTTTACTTAGCT
4212725 TTTATTTCGTTTT
1 TTTATTT-GTTTT
4212738 TATTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 12 0.44
21 12 0.44
ACGTcount: A:0.15, C:0.06, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTATTTGTTTTACTTAGCT
Found at i:4219777 original size:4 final size:4
Alignment explanation
Indices: 4219768--4219798 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
4219758 TTTGAACTTC
4219768 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
4219799 CTAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:4224507 original size:29 final size:27
Alignment explanation
Indices: 4224489--4224558 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
4224479 ATATTAAGTC
4224489 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
4224516 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
4224544 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
4224559 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:4224552 original size:28 final size:28
Alignment explanation
Indices: 4224489--4224586 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
4224479 ATATTAAGTC
*
4224489 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
4224516 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
4224544 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
4224573 CGCACACTTAGTGC
1 CGCACACTTAGTGC
4224587 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:4225969 original size:79 final size:79
Alignment explanation
Indices: 4225884--4226041 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
4225874 TAGCATGGCC
4225884 GGCCACTAGCTCAAATTTTGGGTAATTTGACATGCAAACCCACCATTCTCACTACATGCTTTAAT
1 GGCCACTAGCTCAAATTTTGGGTAATTTGACATGCAAACCCACCATTCTCACTACATGCTTTAAT
4225949 AGGTCCTTATAAAT
66 AGGTCCTTATAAAT
*
4225963 GGCCACTAGCTCAAATTTTGGGTAATTTGACATGCAAACCCATCATTCTCACTACATGCTTTAAT
1 GGCCACTAGCTCAAATTTTGGGTAATTTGACATGCAAACCCACCATTCTCACTACATGCTTTAAT
4226028 AGGTCCTTATAAAT
66 AGGTCCTTATAAAT
4226042 TAACCTATCA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (79 bp):
GGCCACTAGCTCAAATTTTGGGTAATTTGACATGCAAACCCACCATTCTCACTACATGCTTTAAT
AGGTCCTTATAAAT
Found at i:4232917 original size:17 final size:17
Alignment explanation
Indices: 4232895--4232935 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
4232885 ATGGGCTAAA
4232895 TGGGCCCGATGGGCTGT
1 TGGGCCCGATGGGCTGT
4232912 TGGGCCCGATGGGCTGT
1 TGGGCCCGATGGGCTGT
4232929 TGGGCCC
1 TGGGCCC
4232936 ATAATAGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.05, C:0.27, G:0.46, T:0.22
Consensus pattern (17 bp):
TGGGCCCGATGGGCTGT
Found at i:4237571 original size:65 final size:65
Alignment explanation
Indices: 4237494--4237623 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 65
4237484 AAAGAGTAAA
* * *
4237494 CAAACGCTAGAAAGGAGAGAATGTACGTCAAAAATAAAGTTGGAGACGGCGCACGGGCGTGGCAG
1 CAAACACTAGAAAGGAGAGAATGGACGTAAAAAATAAAGTTGGAGACGGCGCACGGGCGTGGCAG
* * * * *
4237559 CAAACACTAGAAAGGGGAGAATGGATGTAAAAAATGAAGTTGGAGGCGGCGCACGGGTGTGGCAG
1 CAAACACTAGAAAGGAGAGAATGGACGTAAAAAATAAAGTTGGAGACGGCGCACGGGCGTGGCAG
4237624 AGAGGCCGTG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.36, C:0.15, G:0.36, T:0.13
Consensus pattern (65 bp):
CAAACACTAGAAAGGAGAGAATGGACGTAAAAAATAAAGTTGGAGACGGCGCACGGGCGTGGCAG
Found at i:4245185 original size:28 final size:28
Alignment explanation
Indices: 4245145--4245232 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 28
4245135 CATGACTGTA
*
4245145 AATGTGTTTTGGGCCTAATGGCCATATG
1 AATGTGATTTGGGCCTAATGGCCATATG
*
4245173 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAAT-GGCCATATG
*
4245202 AATGCT-ATTTGGGCCTCATGAGCCATATG
1 AATG-TGATTTGGGCCTAATG-GCCATATG
4245231 AA
1 AA
4245233 AGAGATTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
28 19 0.36
29 33 0.62
30 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (28 bp):
AATGTGATTTGGGCCTAATGGCCATATG
Found at i:4249245 original size:29 final size:29
Alignment explanation
Indices: 4249194--4249266 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
4249184 TAAATGTTTG
*
4249194 TGGGCCTAAT-GGCCATATGAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
4249222 TGGGTCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
4249251 TGGGCCTCATGGGCCA
1 TGGGCCTAATGGGCCA
4249267 CATGATAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 9 0.22
29 31 0.77
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:4258478 original size:40 final size:40
Alignment explanation
Indices: 4258402--4258642 Score: 340
Period size: 40 Copynumber: 6.0 Consensus size: 40
4258392 TGAATACACG
* * * * *
4258402 TCACTAGCATGATTGCTCTTCTGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
4258442 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
4258482 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
4258522 TCACTAGGACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
4258562 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
4258602 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
4258641 TC
1 TC
4258643 GTCGAGACCT
Statistics
Matches: 178, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
39 4 0.02
40 174 0.98
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:4258765 original size:38 final size:38
Alignment explanation
Indices: 4258696--4258770 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
4258686 GAATTTTAAT
*
4258696 CCGGACATAATCTCTGAACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGAACATAGCCAGCGGGTCTTTAC
** * *
4258734 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGAACATAGCCAGCGGGTCTTTA
4258771 AACTCGGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (38 bp):
CCGGACATAATCTCTGAACATAGCCAGCGGGTCTTTAC
Found at i:4259756 original size:43 final size:43
Alignment explanation
Indices: 4259693--4259778 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
4259683 TTCAATACTG
* * *
4259693 ATGCCGTTTGTTTTTGTAGAAACTAGACTCAGAGAGGAATCTA
1 ATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTA
4259736 ATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTA
1 ATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTA
4259779 TACATATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (43 bp):
ATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAATCTA
Found at i:4265188 original size:38 final size:38
Alignment explanation
Indices: 4265132--4265206 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
4265122 GATGTGTATT
* * *
4265132 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
4265170 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
4265207 TCGAGCCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:4265261 original size:43 final size:43
Alignment explanation
Indices: 4265183--4265367 Score: 248
Period size: 43 Copynumber: 4.3 Consensus size: 43
4265173 GATAAATCCC
* * * *
4265183 GCAGGCCTAGTGCTGGT-AT-TATATTCGAGCCTTCGTTCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
*
4265224 GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCTTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
* * * *
4265267 GCAGGCTTCGTGCTGGTGATGTGTATTAGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
*
4265310 GCAGGCTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
* *
4265353 GCAGGCGTAATGCCG
1 GCAGGCTTAGTGCCG
4265368 ATGAAATGAT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 109 0.87
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
Found at i:4268591 original size:30 final size:30
Alignment explanation
Indices: 4268555--4268614 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4268545 GTATCATATC
4268555 TTGGGTTTCTT-TATTCTAG-ATTTCTTTATT
1 TTGGGTTT-TTCTA-TCTAGAATTTCTTTATT
*
4268585 TTGGGTTTTTCTATCTTGAATTTCTTTATT
1 TTGGGTTTTTCTATCTAGAATTTCTTTATT
4268615 CAGTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (30 bp):
TTGGGTTTTTCTATCTAGAATTTCTTTATT
Found at i:4270930 original size:49 final size:49
Alignment explanation
Indices: 4270758--4270950 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 49
4270748 TCTATTGTGA
* * * *
4270758 GGTCGCATGTGTAGTACTAAGTGCAGGCTAATATGTGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTT
* * ** *
4270809 GATCACGT-TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-T
* *
4270858 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
* *
4270907 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
4270951 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
49 47 0.39
50 62 0.52
51 6 0.05
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
Found at i:4282681 original size:18 final size:18
Alignment explanation
Indices: 4282639--4282682 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
4282629 GCAATAACAG
* *
4282639 TAAACAGTACAGTAATAG
1 TAAACAGTGCAGTAATAA
*
4282657 T-AACAGTGCAGTAGTAA
1 TAAACAGTGCAGTAATAA
4282674 TAAACAGTG
1 TAAACAGTG
4282683 TAATAAACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (18 bp):
TAAACAGTGCAGTAATAA
Found at i:4282687 original size:12 final size:12
Alignment explanation
Indices: 4282665--4282694 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
4282655 AGTAACAGTG
4282665 CAGTAGTAATAAA
1 CAGT-GTAATAAA
4282678 CAGTGTAATAAA
1 CAGTGTAATAAA
4282690 CAGTG
1 CAGTG
4282695 CAGTAACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (12 bp):
CAGTGTAATAAA
Found at i:4282708 original size:30 final size:32
Alignment explanation
Indices: 4282628--4282709 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 32
4282618 CTTGGCCCAC
*
4282628 TGCAATAACAGTAAACAGTACAGTAATAGTAACAG
1 TGCAGTAACAGTAAACAGT--AGTAATAG-AACAG
** *
4282663 TGCAGTAGTAATAAACAGT-GTAATA-AACAG
1 TGCAGTAACAGTAAACAGTAGTAATAGAACAG
4282693 TGCAGTAACAGTAAACA
1 TGCAGTAACAGTAAACA
4282710 ATATGGAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
30 19 0.47
32 6 0.15
35 15 0.38
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (32 bp):
TGCAGTAACAGTAAACAGTAGTAATAGAACAG
Found at i:4283091 original size:27 final size:27
Alignment explanation
Indices: 4283055--4283394 Score: 408
Period size: 27 Copynumber: 12.8 Consensus size: 27
4283045 TTACCATAAA
** *
4283055 AAGGGCAAAACAACCATTTTACCACAA
1 AAGGGCAAAACAGTCATTTTACCACAT
* *
4283082 AAGGGCAAAATAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
* *
4283109 AAGGGCAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
*
4283136 AAGGGCAAAACAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
4283163 AAGGGCAAAACAGTCATTTTATCC-CAT
1 AAGGGCAAAACAGTCATTTTA-CCACAT
*
4283190 AAGGGCAAAACAATCATTTTATTCC-CAT
1 AAGGGCAAAACAGTCATTTTA--CCACAT
* *
4283218 AAGAGCAAAACAGTCATTTTATCACAT
1 AAGGGCAAAACAGTCATTTTACCACAT
* * *
4283245 AAGGGAAAAAGAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
* *
4283272 AA--G-AGAA-AGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
4283295 AAGGGCAAAACAGTCATTTTACCACAT
1 AAGGGCAAAACAGTCATTTTACCACAT
* *
4283322 AAGGGCAAAATAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
*
4283349 AAGGGC--AACAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCACAT
* *
4283374 AAGGGGAAAATAGTCATTTTA
1 AAGGGCAAAACAGTCATTTTA
4283395 TCGATTAAGG
Statistics
Matches: 278, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
23 18 0.06
24 3 0.01
25 25 0.09
26 4 0.01
27 201 0.72
28 27 0.10
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCACAT
Found at i:4284708 original size:18 final size:18
Alignment explanation
Indices: 4284685--4284720 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4284675 CAAATCACTC
4284685 CCGAAATCCCCTTAACAA
1 CCGAAATCCCCTTAACAA
*
4284703 CCGAAATTCCCTTAACAA
1 CCGAAATCCCCTTAACAA
4284721 TCTCCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (18 bp):
CCGAAATCCCCTTAACAA
Found at i:4290433 original size:37 final size:37
Alignment explanation
Indices: 4290377--4290455 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
4290367 CCGAGCTCTA
* * * *
4290377 AAGACCCGCTGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
4290414 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
4290451 AAGAC
1 AAGAC
4290456 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:4294387 original size:20 final size:18
Alignment explanation
Indices: 4294362--4294398 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4294352 ATTGCTAAGT
4294362 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
4294382 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
4294399 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:4327419 original size:48 final size:48
Alignment explanation
Indices: 4327365--4327645 Score: 229
Period size: 48 Copynumber: 5.9 Consensus size: 48
4327355 GTAAATTGCT
* *
4327365 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATGTCGAGCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCGAG-CC
* * *
4327413 GATGCCATATCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT-ATCG-AGCC
* * * * * * *
4327461 GTTGCCATGTCCTAGACATGGTCTTACACTAGCGC-ACTTAACAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCGA-GCC
* * *
4327509 GATGCCATGTCCCGGATATGGTCTTACACTA-CTCT-CATAAC-ATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCGA--GCC
* * * * * *
4327556 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCT-CATATTGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCG-AGCC
* *
4327604 GACGCCATGTCCCAGACATGGTCTTACACTAGCAC-ACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATC
4327646 ACCCAAATGT
Statistics
Matches: 183, Mismatches: 38, Indels: 24
0.75 0.16 0.10
Matches are distributed among these distances:
46 1 0.01
47 36 0.20
48 143 0.78
49 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCGAGCC
Found at i:4329288 original size:24 final size:25
Alignment explanation
Indices: 4329230--4329289 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
4329220 ACTTATGCAT
4329230 ATCTGTATCTGTAATTTGAATCTGG
1 ATCTGTATCTGTAATTTGAATCTGG
*
4329255 ATCTAG-ATCTG-ATTTTGAATCTGG
1 ATCT-GTATCTGTAATTTGAATCTGG
4329279 AAT-TGTATCTG
1 -ATCTGTATCTG
4329290 CTTCTGACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.03
24 18 0.58
25 11 0.35
26 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (25 bp):
ATCTGTATCTGTAATTTGAATCTGG
Found at i:4347087 original size:40 final size:40
Alignment explanation
Indices: 4346795--4347077 Score: 507
Period size: 40 Copynumber: 7.1 Consensus size: 40
4346785 AACCCAAGTA
* *
4346795 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
4346834 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
4346874 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
4346914 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
4346954 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
4346994 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
4347034 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
4347074 CCTT
1 CCTT
4347078 TGGATCTTAG
Statistics
Matches: 236, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
39 13 0.06
40 223 0.94
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:4352136 original size:46 final size:46
Alignment explanation
Indices: 4352086--4352258 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
4352076 TGGTTGAGCA
4352086 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
4352132 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
4352177 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
4352225 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4352259 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4352242 original size:93 final size:93
Alignment explanation
Indices: 4352083--4352253 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
4352073 GGATGGTTGA
* *
4352083 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4352148 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
4352176 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4352241 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4352254 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:4359724 original size:46 final size:46
Alignment explanation
Indices: 4359674--4359846 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 46
4359664 TGGTTGAGCA
4359674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
4359720 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
4359765 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
4359813 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4359847 GGGGCGGGTT
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.55
47 29 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4359830 original size:93 final size:93
Alignment explanation
Indices: 4359671--4359841 Score: 324
Period size: 93 Copynumber: 1.8 Consensus size: 93
4359661 GGATGGTTGA
*
4359671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
4359736 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
4359764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
4359829 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4359842 ACTTAGGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:4369468 original size:48 final size:48
Alignment explanation
Indices: 4369390--4369505 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
4369380 GTTGTTAAGC
* * *
4369390 TCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCAATATATGA
1 TCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATATATGA
* * ** *
4369438 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGTGA
1 TCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATATATGA
*
4369486 TCCTATATAAGACCATGTCT
1 TCCCATATAAGACCATGTCT
4369506 AGGATATTGC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
TCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCAATATATGA
Found at i:4369703 original size:250 final size:250
Alignment explanation
Indices: 4369262--4369724 Score: 730
Period size: 250 Copynumber: 1.9 Consensus size: 250
4369252 ACACTTAATG
* *
4369262 TTGCATGAATTGTACATTGTCTTTGTGAGTATTATTGATGTTGTCTGACGAAGATTTGAGGAGAT
1 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
** * * *
4369327 GAAAGCCGGTTGAACTTTAGGAATACTTAGGGCATACATATCATGATATTTGGGTTGTTAAGCTC
66 GAAAGCCAATTGAACGTTAGGAATACTTAGGGCATACATATCATGATATTCGGGTTGTTAAGATC
* * * *
4369392 CCGTATAAGACCATATCTGGGATATGGCATCGGCATCAATATATGATCCCATGTAAGACCATGTC
131 CCGTATAAGACAAAATCTGGGATATGGCATCGGCATCAATATATGATCCCATATAAGACCATATC
*
4369457 TGGGACATGGCATTGGCATCGTTATGTGATCCTATATAAGACCATGTCTAGGATA
196 CGGGACATGGCATTGGCATCGTTATGTGATCCTATATAAGACCATGTCTAGGATA
4369512 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
1 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
* *
4369577 GAAAGCCAATTGAACGTTAGGAATACTTAGGGCTTACATATCATGATATTCGGGTTGTTGAGATC
66 GAAAGCCAATTGAACGTTAGGAATACTTAGGGCATACATATCATGATATTCGGGTTGTTAAGATC
* * ** *
4369642 CCGTATAAGACAAAATTTGGGATATGGCATTGGCATTGATA-AGTGGTCCCATATAAGACCATAT
131 CCGTATAAGACAAAATCTGGGATATGGCATCGGCATCAATATA-TGATCCCATATAAGACCATAT
*
4369706 CCGGGATATGGCATTGGCA
195 CCGGGACATGGCATTGGCA
4369725 CCCTACCATG
Statistics
Matches: 192, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
249 1 0.01
250 191 0.99
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (250 bp):
TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
GAAAGCCAATTGAACGTTAGGAATACTTAGGGCATACATATCATGATATTCGGGTTGTTAAGATC
CCGTATAAGACAAAATCTGGGATATGGCATCGGCATCAATATATGATCCCATATAAGACCATATC
CGGGACATGGCATTGGCATCGTTATGTGATCCTATATAAGACCATGTCTAGGATA
Found at i:4376737 original size:34 final size:34
Alignment explanation
Indices: 4376672--4376737 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
4376662 AATGTTCAAT
* * *
4376672 TTGGTAAGTTTATGATATGTGCTTATTTGAAGAG
1 TTGGTAAGTTTATGATATGAGATTATATGAAGAG
*
4376706 TTGGTAAGTTTATGGTATGAGATTGA-ATGAAG
1 TTGGTAAGTTTATGATATGAGATT-ATATGAAG
4376738 TGTTTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (34 bp):
TTGGTAAGTTTATGATATGAGATTATATGAAGAG
Found at i:4377319 original size:85 final size:85
Alignment explanation
Indices: 4377176--4377354 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
4377166 GGCCGGCCAT
4377176 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
4377241 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
4377261 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
4377326 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
4377346 GAGCATGGG
1 GAGCATGGG
4377355 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:4378906 original size:40 final size:40
Alignment explanation
Indices: 4378805--4378989 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
4378795 TATTCGAATG
* *
4378805 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * * *
4378846 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
4378886 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
4378926 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
4378966 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
4378990 CTTGTGCAAG
Statistics
Matches: 123, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 95 0.77
41 28 0.23
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:4385132 original size:27 final size:27
Alignment explanation
Indices: 4385101--4385278 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4385091 TAAATTGTAC
4385101 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4385128 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4385154 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4385182 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4385210 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4385237 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4385264 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4385279 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4385215 original size:82 final size:81
Alignment explanation
Indices: 4385102--4385257 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4385092 AAATTGTACA
* *
4385102 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4385166 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
4385183 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
4385248 TGCGAGTTGA
65 TGCGAATTGA
4385258 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:4385269 original size:82 final size:81
Alignment explanation
Indices: 4385098--4385278 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
4385088 GATTAAATTG
* *
4385098 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4385163 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
4385179 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4385243 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4385261 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4385279 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:4391832 original size:40 final size:40
Alignment explanation
Indices: 4391770--4392016 Score: 272
Period size: 40 Copynumber: 6.2 Consensus size: 40
4391760 CGGATGATAA
* * *
4391770 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTGACTATA-T
*
4391810 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
** * *
4391850 CCCTGCTAAGTCCCGAAGGCGTTTGTGCGAGCT-ATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* *
4391890 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
4391929 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
4391969 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
4392009 CC-GGCTAA
1 CCGGGCTAA
4392017 ACTCCGAAGG
Statistics
Matches: 181, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 44 0.24
40 133 0.73
41 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:4391982 original size:119 final size:120
Alignment explanation
Indices: 4391770--4391993 Score: 308
Period size: 119 Copynumber: 1.9 Consensus size: 120
4391760 CGGATGATAA
* * * *
4391770 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTGGAGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTCG
* * * *
4391835 TGCGAGCTACTATATCCCTGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCCGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
* * *
4391890 CCGGGCTAAGTCCCGA-AGGCATTGGTGCGAGTTACT-ATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTGGAGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTC
* *
4391953 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACTATAACCCGGCTAAGTCCCGAAGGCATTTG
4391994 AGCTAGTGGC
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
119 61 0.68
120 29 0.32
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTGGAGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCCGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
Found at i:4392026 original size:79 final size:78
Alignment explanation
Indices: 4391810--4392016 Score: 263
Period size: 79 Copynumber: 2.6 Consensus size: 78
4391800 GTGGCTAATT
* *
4391810 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCCTGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATAT-CCGGCTAAGTCCCGAAGGCATTTG
* * *
4391875 TGCGAGCTATTATAT
64 TGCAAGCTACTATAA
*
4391890 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTG
*
4391954 TGCAAGTTACTATAA
64 TGCAAGCTACTATAA
* * * *
4391969 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT-ACTATATCCGGCTAA
4392017 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
78 3 0.03
79 70 0.62
80 39 0.35
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAA
Found at i:4392034 original size:119 final size:119
Alignment explanation
Indices: 4391810--4392026 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 119
4391800 GTGGCTAATT
* * * *
4391810 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCCTGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCCGGCTAAGTCCCGAAGGCATTTG
* * *
4391875 TGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA
66 AGCGAGCTACTATATCCGGGCTAACTCCCGAAGGCATTGGTGCGAGTTACTATA
* * *
4391929 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCCGGCTAAGTCCCGAAGGCATTTG
* *
4391994 AGCTAG-TGGCTATATCC-GGCTAAACT-CCGAAGG
66 AGCGAGCT-ACTATATCCGGGCT-AACTCCCGAAGG
4392027 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
118 12 0.14
119 72 0.86
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGCTACTATAACCCGGCTAAGTCCCGAAGGCATTTG
AGCGAGCTACTATATCCGGGCTAACTCCCGAAGGCATTGGTGCGAGTTACTATA
Found at i:4403257 original size:44 final size:42
Alignment explanation
Indices: 4403205--4403361 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
4403195 TGTGTTTTCG
*
4403205 TGTAAGACCATGTCTGGGACGTTGACATCGAT-TTATGATTTA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGATTTA
* * *
4403247 TGTATAAGACCATGTCTGGGGCATCGGCATC-ATATTTGATTTTA
1 TG--TAAGACCATGTCTGGGACGTTGGCATCGATATTTGA-TTTA
* *
4403291 TGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATT-TA
* *
4403334 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
4403362 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 27 0.28
43 37 0.39
44 31 0.33
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTA
Found at i:4407242 original size:28 final size:29
Alignment explanation
Indices: 4407198--4407312 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
4407188 TACTTGTATC
* * *
4407198 TGGCCCATTAAGACC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
4407226 AGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
4407255 TGGCTCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** * *
4407284 TGGCCTGTTAGGCCC-AGTCAGATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
4407312 T
1 T
4407313 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
28 24 0.34
29 45 0.64
30 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:4407393 original size:17 final size:18
Alignment explanation
Indices: 4407371--4407416 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4407361 TGCCTATTAT
4407371 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
* *
4407388 GGGCCCATTTAGCCCATT
1 GGGCCCATATAGCCCATC
4407406 GAGGCCCATAT
1 G-GGCCCATAT
4407417 GGCCAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.20
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:4407548 original size:16 final size:16
Alignment explanation
Indices: 4407527--4407567 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4407517 CCAAACTTTC
4407527 GGCTTTTCGACATTTT
1 GGCTTTTCGACATTTT
* *
4407543 GGCTTTTTGACTTTTT
1 GGCTTTTCGACATTTT
*
4407559 GGCATTTCG
1 GGCTTTTCG
4407568 GCTGTAACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (16 bp):
GGCTTTTCGACATTTT
Found at i:4424204 original size:28 final size:29
Alignment explanation
Indices: 4424162--4424276 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
4424152 TACTTGTATC
* *
4424162 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
4424190 TGGCCTATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
4424219 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
4424248 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
4424276 T
1 T
4424277 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:4428873 original size:76 final size:76
Alignment explanation
Indices: 4428787--4428938 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
4428777 CATTCATTTA
*
4428787 TGTTTCATTGGCACATAACCATATTTCATTTCCACATACATCACAATACATTCTTTGCACATATA
1 TGTTTCATTGGCACATAACCATATTTCATTTCCACATACATCACAATACATTCTTTGCAAATATA
4428852 CTTACCTTATT
66 CTTACCTTATT
4428863 TGTTTCATTGGCACATAACCATATTTCATTTCCACATACATCACAATACATTCTTTGCAAATATA
1 TGTTTCATTGGCACATAACCATATTTCATTTCCACATACATCACAATACATTCTTTGCAAATATA
4428928 CTTACCTTATT
66 CTTACCTTATT
4428939 CTCAAATAGG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.39
Consensus pattern (76 bp):
TGTTTCATTGGCACATAACCATATTTCATTTCCACATACATCACAATACATTCTTTGCAAATATA
CTTACCTTATT
Found at i:4429346 original size:28 final size:28
Alignment explanation
Indices: 4429315--4429384 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
4429305 GAATCATTCG
* * **
4429315 ATATTTTGCACACTAATTGTCATGCTCA
1 ATATTTCGCACACTAAGTCCCATGCTCA
* *
4429343 ATATCTCGCACACTAAGTCCCATTCTCA
1 ATATTTCGCACACTAAGTCCCATGCTCA
*
4429371 ATATTTCGTACACT
1 ATATTTCGCACACT
4429385 GATGCCATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTCCCATGCTCA
Found at i:4436092 original size:26 final size:26
Alignment explanation
Indices: 4436063--4436122 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
4436053 GCCCTTTGAA
* * *
4436063 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
4436089 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
4436117 TCATTC
1 TCATTC
4436123 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:4436108 original size:28 final size:28
Alignment explanation
Indices: 4436077--4436144 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
4436067 TCGATATTTT
4436077 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
4436105 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
* *
4436133 GTACACTGAGTG
1 GCACACTAAGTG
4436145 CCATATTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:4440541 original size:46 final size:46
Alignment explanation
Indices: 4440485--4440602 Score: 164
Period size: 46 Copynumber: 2.6 Consensus size: 46
4440475 GACAGGACAG
* *
4440485 GACAGAAATGAGCCATGTAAGTCCATATTAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTAGATATATGGCATTGGA
* *
4440531 GACAGGAATGAGCCATGTAAGTCCATATTATATATATGGCATTGGG
1 GACAGGAATGAGCCATGTAAGTCCATATTAGATATATGGCATTGGA
* * **
4440577 GACAGGTATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
4440603 GTCGAAGACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGTCCATATTAGATATATGGCATTGGA
Found at i:4468241 original size:18 final size:18
Alignment explanation
Indices: 4468200--4468241 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4468190 TGATTGAAGT
*
4468200 TGAATTGGAATGGTTTAG
1 TGAATTGGAATGGTATAG
*
4468218 TTAATT-GAATGGTATATG
1 TGAATTGGAATGGTATA-G
4468236 TGAATT
1 TGAATT
4468242 AGGTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (18 bp):
TGAATTGGAATGGTATAG
Found at i:4475377 original size:14 final size:13
Alignment explanation
Indices: 4475356--4475388 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
4475346 AAATATGTGG
4475356 CTTGTTCTTAATT
1 CTTGTTCTTAATT
4475369 CTGTGTTCTTAATT
1 CT-TGTTCTTAATT
4475383 CTTGTT
1 CTTGTT
4475389 TTGATATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:4478210 original size:16 final size:16
Alignment explanation
Indices: 4478189--4478221 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4478179 GATAAATTTA
4478189 TATTTCCCGTTGACTT
1 TATTTCCCGTTGACTT
4478205 TATTTCCCGTTGACTT
1 TATTTCCCGTTGACTT
4478221 T
1 T
4478222 GTTGTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (16 bp):
TATTTCCCGTTGACTT
Found at i:4478572 original size:17 final size:18
Alignment explanation
Indices: 4478547--4478580 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4478537 CTAGATGAAT
4478547 AGAAAACAC-ATAAACCG
1 AGAAAACACGATAAACCG
*
4478564 AGAACACACGATAAACC
1 AGAAAACACGATAAACC
4478581 AAAACTATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.26, G:0.12, T:0.06
Consensus pattern (18 bp):
AGAAAACACGATAAACCG
Found at i:4487289 original size:15 final size:14
Alignment explanation
Indices: 4487269--4487311 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
4487259 CCATACGGGT
4487269 TAATAAATAAAATAA
1 TAATAAA-AAAATAA
4487284 TAATAAAAATATATAA
1 TAATAAAAA-A-ATAA
4487300 T-ATAAAAAAATA
1 TAATAAAAAAATA
4487312 GGCAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 15 0.58
16 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TAATAAAAAAATAA
Found at i:4487301 original size:13 final size:13
Alignment explanation
Indices: 4487269--4487311 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
4487259 CCATACGGGT
4487269 TAATAA-ATAAAA
1 TAATAATATAAAA
4487281 TAATAATA-AAAA
1 TAATAATATAAAA
4487293 TATATAATATAAAA
1 TA-ATAATATAAAA
*
4487307 AAATA
1 TAATA
4487312 GGCAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 10 0.37
14 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAATAATATAAAA
Found at i:4490954 original size:19 final size:19
Alignment explanation
Indices: 4490930--4490968 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4490920 TTTGGTTCTG
4490930 TCCGATGATGGTTCAGTTT
1 TCCGATGATGGTTCAGTTT
*
4490949 TCCGATGATGGTTTAGTTT
1 TCCGATGATGGTTCAGTTT
4490968 T
1 T
4490969 AGCTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (19 bp):
TCCGATGATGGTTCAGTTT
Found at i:4493260 original size:39 final size:40
Alignment explanation
Indices: 4493165--4493387 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
4493155 TTGAATGATG
*
4493165 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
4493203 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
4493244 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
4493283 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
4493322 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
4493361 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
4493388 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:4493351 original size:79 final size:81
Alignment explanation
Indices: 4493165--4493387 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
4493155 TTGAATGATG
* * *
4493165 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
4493227 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
4493244 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
4493305 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
4493322 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
4493386 TG
66 TG
4493388 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:4493409 original size:79 final size:79
Alignment explanation
Indices: 4493165--4493420 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
4493155 TTGAATGATG
* * * *
4493165 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
4493226 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
4493244 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
4493308 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
4493322 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
4493385 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
4493402 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
4493421 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:4501207 original size:79 final size:81
Alignment explanation
Indices: 4501071--4501255 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
4501061 TTGAATGATG
*
4501071 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
4501135 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
4501150 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
4501212 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
4501230 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4501256 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:4501269 original size:40 final size:40
Alignment explanation
Indices: 4501072--4501255 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
4501062 TGAATGATGT
* * * *
4501072 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
4501112 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
4501152 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4501190 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4501231 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
4501256 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:4501277 original size:79 final size:79
Alignment explanation
Indices: 4501072--4501288 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
4501062 TGAATGATGT
** * * * **
4501072 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
4501135 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
4501152 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
4501217 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
4501231 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
4501289 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:4520769 original size:30 final size:30
Alignment explanation
Indices: 4520735--4520795 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4520725 TCCTTAACTC
4520735 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
4520765 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
4520795 A
1 A
4520796 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:4528143 original size:47 final size:47
Alignment explanation
Indices: 4528085--4528206 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
4528075 GCATTGGCAC
*
4528085 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
*
4528132 TAAGACAAGGATACCATGTAAGACCATGTTTGTAACATGGCATTTAG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
* * *
4528179 TAAGATAAGGATATCATGTACGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
4528207 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
Found at i:4528309 original size:55 final size:54
Alignment explanation
Indices: 4528185--4528643 Score: 415
Period size: 53 Copynumber: 8.6 Consensus size: 54
4528175 TTAGTAAGAT
* * * *
4528185 AAGGATATCATGTACGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * *
4528239 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * **
4528294 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAATAC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * *
4528347 AAGGATACCATTTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* *** * **
4528400 AATGATACCATGTAAGACCATG-TTTGGAACATGACATT--TG-G-----TAAGAT
1 AAGGATACCATGTAAGACCATGCCAAGG--CATGGCATTGATGAGTTCTATAAGGC
* * *
4528447 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * * *
4528501 AAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGTC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * *
4528556 AAAGG-TCCCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
4528609 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCA
4528644 ATGGTAAGTT
Statistics
Matches: 333, Mismatches: 55, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
46 8 0.02
47 25 0.08
48 3 0.01
49 1 0.00
51 1 0.00
52 12 0.04
53 99 0.30
54 93 0.28
55 83 0.25
56 8 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:4528369 original size:162 final size:159
Alignment explanation
Indices: 4528179--4528655 Score: 443
Period size: 162 Copynumber: 3.0 Consensus size: 159
4528169 TGGCATTTAG
* * * * *
4528179 TAAGATAAGGATATCATGTACGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGA
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGACAAGGA
* *
4528244 AATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAA
66 TACCATGTAAGACCATGTCAAGACATGGCATTG-TGAGTTAC-ATAAGGCAAAGGT-CCATGTAA
*
4528309 GACCATGCCAAGGCATGGCATTGGTGAGTTCA
128 GACCATGCCAAGGCATGGCATTGGTAAGTTCA
* * * * * * *
4528341 TAATACAAGGATACCATTTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGACAATGA
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGACAAGGA
*** * * * *
4528405 TACCATGTAAGACCATGTTTGGAACATGACATT-TG-GTAAGATAAGG-ATA--T-CATGTAAGA
66 TACCATGTAAGACCATGTCAAG-ACATGGCATTGTGAGTTACATAAGGCAAAGGTCCATGTAAGA
* *
4528464 CCATGCCAAGGCATGGCATTGATAAGTCCTA
130 CCATGCCAAGGCATGGCATTGGTAAGTTC-A
* * * * * *
4528495 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGTCAAAG
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAG-TACTATAAGAC-AAG
* * * * * *
4528560 G-TCCCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTT-CATAAAGC-AAGGATACCACGT
64 GATACCATGTAAGACCATGTCAAGACATGGCATT-GTGAGTTACATAAGGCAAAGG-T-CCATGT
* * *
4528622 AAGACCATGTCAAGACATGGCAATGGTAAGTTCA
126 AAGACCATGCCAAGGCATGGCATTGGTAAGTTCA
4528656 AAAAGGGAAA
Statistics
Matches: 247, Mismatches: 54, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
153 35 0.14
154 40 0.16
155 11 0.04
156 22 0.09
157 13 0.05
158 8 0.03
159 3 0.01
160 3 0.01
161 28 0.11
162 84 0.34
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (159 bp):
TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGACAAGGA
TACCATGTAAGACCATGTCAAGACATGGCATTGTGAGTTACATAAGGCAAAGGTCCATGTAAGAC
CATGCCAAGGCATGGCATTGGTAAGTTCA
Found at i:4528597 original size:262 final size:262
Alignment explanation
Indices: 4528132--4528655 Score: 897
Period size: 262 Copynumber: 2.0 Consensus size: 262
4528122 TGGCATTTGG
* *
4528132 TAAGACAAGGATACCATGTAAGACCATGTTTGTAACATGGCATTTAGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTAGTAAGATAAGGATATCATG
*
4528197 TACGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
*
4528262 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
** * * *
4528327 CATTGGTGAGTTCATAATA-CAAGGATACCATTTAAGACCATGCCAAGGCATGACATTGGTGAGT
196 CATTGGTGAGTTCATAA-AGCAAGGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGT
4528391 TCA
260 TCA
* *
4528394 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTAGTAAGATAAGGATATCATG
4528459 TAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
* *
4528524 CAAGACATGGAATTGATGAGTTACTATAAGTCAAAGGTCCCATGTAAGACTATGCCAAGGCATGG
131 CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
* *
4528589 CATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
196 CATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTT
4528654 CA
261 CA
4528656 AAAAGGGAAA
Statistics
Matches: 246, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
261 1 0.00
262 245 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (262 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTAGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTT
CA
Found at i:4556882 original size:28 final size:27
Alignment explanation
Indices: 4556824--4557031 Score: 326
Period size: 28 Copynumber: 7.6 Consensus size: 27
4556814 TAAATTGTGC
*
4556824 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4556851 AGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
4556879 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
4556907 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
4556935 AGCACTAAGTGTGCTAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
4556962 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
4556990 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
4557017 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4557032 GACTTAATAT
Statistics
Matches: 172, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 66 0.38
28 105 0.61
29 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:4556889 original size:55 final size:55
Alignment explanation
Indices: 4556824--4557031 Score: 344
Period size: 55 Copynumber: 3.8 Consensus size: 55
4556814 TAAATTGTGC
* *
4556824 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
4556879 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
4556935 AGCACTAAGTGTGCTAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
4556990 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
4557032 GACTTAATAT
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
55 91 0.63
56 53 0.37
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:4556966 original size:83 final size:83
Alignment explanation
Indices: 4556824--4557031 Score: 346
Period size: 83 Copynumber: 2.5 Consensus size: 83
4556814 TAAATTGTGC
*
4556824 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGT
4556889 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
*
4556907 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCTAGT-TGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAG
*
4556971 TGTGCGAGTTTGATTATGT
65 TGTGCGAGTTTGACTATGT
* * *
4556990 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
4557032 GACTTAATAT
Statistics
Matches: 117, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
82 21 0.18
83 69 0.59
84 27 0.23
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:4560365 original size:47 final size:47
Alignment explanation
Indices: 4560311--4560450 Score: 226
Period size: 47 Copynumber: 3.0 Consensus size: 47
4560301 GAATTTAAAT
* *
4560311 CTTGTTAAATTTGCTCTTAATATTTCCAGATAAGCTACTTAGTTAAG
1 CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTTAAG
* * *
4560358 CTTGTTAAATTTTCTCTTAATATTTCTGGATAAGTTACTCAGTTAAG
1 CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTTAAG
*
4560405 CTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTAA
1 CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTTAA
4560451 AGAAAATGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (47 bp):
CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTTAAG
Found at i:4561323 original size:45 final size:45
Alignment explanation
Indices: 4561255--4561468 Score: 214
Period size: 45 Copynumber: 4.9 Consensus size: 45
4561245 TCTTACAGTT
* *
4561255 CTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGAT-A
1 CTATTC-GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
* *
4561300 CTATTCAGGCCTTCAAGCCTAGCAGGCTATAATGCTGGTGAGAT-A
1 CTATTC-GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
* *
4561345 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 CTATTC-GGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
*
4561391 -TA-TCGGGCTTCGAGCCTAGCAGG-TGA-AATGCCGGTGA-ATGA
1 CTATTCGGCCTTCGAGCCTAGCAGGCT-ATAATGCCGGTGAGATGA
** ** *
4561432 --ATTCGGGTTTAAAACCTAGCAGGCTA-AATGCCGGTGA
1 CTATTCGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
4561469 TTTGATAAAA
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.01
41 33 0.22
42 13 0.09
43 18 0.12
44 2 0.01
45 81 0.54
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
CTATTCGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
Found at i:4561987 original size:16 final size:18
Alignment explanation
Indices: 4561956--4561988 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4561946 GACTCGTCAC
4561956 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
4561974 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
4561989 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Done.