Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 35 of 145
Found at i:12596087 original size:46 final size:46
Alignment explanation
Indices: 12596015--12596128 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 46
12596005 CAGATCAATG
** * *
12596015 AAGATAGCAGATCTTATCTTTTTGTATTTGGCAGCAGAGGAGATCA
1 AAGATAGCAGATCTTATCTTCCTGTATTTCGCAGCAGAGCAGATCA
* * *
12596061 AAGATAGCAGATCTTGTCTTCCTGTATTTCGCAGCGGAGCAGATCG
1 AAGATAGCAGATCTTATCTTCCTGTATTTCGCAGCAGAGCAGATCA
**
12596107 AAGAT-GGTGAATCTTATCTTCC
1 AAGATAGCAG-ATCTTATCTTCC
12596129 CAATACAGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 2 0.04
46 55 0.96
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (46 bp):
AAGATAGCAGATCTTATCTTCCTGTATTTCGCAGCAGAGCAGATCA
Found at i:12596234 original size:44 final size:45
Alignment explanation
Indices: 12596162--12596500 Score: 168
Period size: 44 Copynumber: 7.7 Consensus size: 45
12596152 AAGCCATTAG
* * *
12596162 TCATATCAGCCTAAGCAGTAGTAGAGCAGGTTGAAGATTGCAGAT
1 TCATATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGAT
* * * *
12596207 TC-TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GAA
1 TCATATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGAT
* * * * * * * * *
12596250 CCTTATCTTCCC-AATACAGTGGAGAATCAGATTTAAGCCATT--AG--
1 TCATATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGCAGAT
* * * *
12596294 TCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGAT
1 TCATATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGAT
* ** *
12596339 TC-TGTCACCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGGTGAA
1 TCATATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGAT
* * * * * * * *
12596382 TCTTATCTTCCC-AATACAGTGGAGAATCAGATTTAAGCCATT--AG--
1 TCATATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGCAGAT
* * * *
12596426 TCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGAT
1 TCATATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGAT
*
12596471 TC-TGTCACCCTAAGCAGTAGTGGAGCAGAT
1 TCATATCACCCTAAGCAGTAGTGGAGCAGAT
12596501 CGAATATGGT
Statistics
Matches: 207, Mismatches: 65, Indels: 45
0.65 0.21 0.14
Matches are distributed among these distances:
41 6 0.03
43 43 0.21
44 109 0.53
45 43 0.21
46 2 0.01
47 3 0.01
48 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
TCATATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGAT
Found at i:12596259 original size:132 final size:132
Alignment explanation
Indices: 12596096--12596633 Score: 932
Period size: 132 Copynumber: 4.1 Consensus size: 132
12596086 ATTTCGCAGC
12596096 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
*
12596161 GTCATATCAGCCTAAGCAGTAGTAGAGCAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
12596226 GT
131 GT
* *
12596228 GGAGCAGATCGAAGATGGCGAACCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
12596293 GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
12596358 GT
131 GT
*
12596360 GGAGCAGATTGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
12596425 GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
12596490 GT
131 GT
* * * *
12596492 GGAGCAGATCGAATATGGTAAATATTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
* * * * * * *
12596557 GTCCTATCACCCTAAGCAGTAGTGGAATAGGTCGAAGATCGTAGATTCTGTCACCCTAAGCAGTA
66 GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
12596622 GT
131 GT
*
12596624 AGAGCAGATC
1 GGAGCAGATC
12596634 AACAATAACG
Statistics
Matches: 387, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 387 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAATCAGATTTAAGCCATTA
GTCATATCAGCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
GT
Found at i:12596995 original size:17 final size:17
Alignment explanation
Indices: 12596973--12597012 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
12596963 AACAGTCTAA
12596973 CCCAAATA-CCAACCAAG
1 CCCAAATACCCAA-CAAG
12596990 CCCAAATACCCAACAAG
1 CCCAAATACCCAACAAG
12597007 CCCAAA
1 CCCAAA
12597013 AATAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.47, C:0.42, G:0.05, T:0.05
Consensus pattern (17 bp):
CCCAAATACCCAACAAG
Found at i:12598145 original size:25 final size:27
Alignment explanation
Indices: 12598107--12598165 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 27
12598097 CCTTTATTAT
*
12598107 TATTATTTAGTTCATTG-GTTTATTG-
1 TATTATTTAATTCATTGTGTTTATTGC
12598132 TATTATTTAATTCATTGTGTTTATTGC
1 TATTATTTAATTCATTGTGTTTATTGC
12598159 TATTATT
1 TATTATT
12598166 ATTAATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 16 0.52
26 8 0.26
27 7 0.23
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.61
Consensus pattern (27 bp):
TATTATTTAATTCATTGTGTTTATTGC
Found at i:12603392 original size:274 final size:275
Alignment explanation
Indices: 12602960--12603508 Score: 1091
Period size: 274 Copynumber: 2.0 Consensus size: 275
12602950 CATTGATTTG
12602960 GTATCAAGAATTAACCGGGCACTTATGCTAAGTTATAACCCTTTTTTAATACAAAAATTAGGTTA
1 GTATCAAGAATTAACCGGGCACTTATGCTAAGTTATAACCCTTTTTTAATACAAAAATTAGGTTA
12603025 AAAATATTCTAAAATTTATAATATGTAACATTTATAATAAGAAAATGTTTATAAAGTATTCAATA
66 AAAATATTCTAAAATTTATAATATGTAACATTTATAATAAGAAAATGTTTATAAAGTATTCAATA
12603090 GTTTATATAACATTTCTTATAAATAATATAATTTTTGTTGTAACTTTAGAAAATTTATTTCTTAT
131 GTTTATATAACATTTCTTATAAATAATATAATTTTTGTTGTAACTTTAGAAAATTTATTTCTTAT
12603155 AAATAAATTATAGCACTTTTTATAAATAAATATATTATTTTTATAATATATTGGCTTAAGGGTGT
196 AAATAAATTATAGCACTTTTTATAAATAAATATATTATTTTTATAATATATTGGCTTAAGGGTGT
12603220 -AAAAGCCCTCAAAC
261 AAAAAGCCCTCAAAC
12603234 GTATCAAGAATTAACCGGGCACTTATGCTAAGTTATAACCCTTTTTTAATACAAAAATTAGGTTA
1 GTATCAAGAATTAACCGGGCACTTATGCTAAGTTATAACCCTTTTTTAATACAAAAATTAGGTTA
12603299 AAAATATTCTAAAATTTATAATATGTAACATTTATAATAAGAAAATGTTTATAAAGTATTCAATA
66 AAAATATTCTAAAATTTATAATATGTAACATTTATAATAAGAAAATGTTTATAAAGTATTCAATA
12603364 GTTTATATAACATTTCTTATAAATAATATAATTTTTGTTGTAACTTTAGAAAATTTATTTCTTAT
131 GTTTATATAACATTTCTTATAAATAATATAATTTTTGTTGTAACTTTAGAAAATTTATTTCTTAT
12603429 AAATAAATTATAGCACTTTTTATAAATAAATATATTATTTTTATAATATATTGGCTTAAGGGTGT
196 AAATAAATTATAGCACTTTTTATAAATAAATATATTATTTTTATAATATATTGGCTTAAGGGTGT
12603494 AAAAAGCCCTCAAAC
261 AAAAAGCCCTCAAAC
12603509 TTTTTCAAAA
Statistics
Matches: 274, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
274 260 0.95
275 14 0.05
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (275 bp):
GTATCAAGAATTAACCGGGCACTTATGCTAAGTTATAACCCTTTTTTAATACAAAAATTAGGTTA
AAAATATTCTAAAATTTATAATATGTAACATTTATAATAAGAAAATGTTTATAAAGTATTCAATA
GTTTATATAACATTTCTTATAAATAATATAATTTTTGTTGTAACTTTAGAAAATTTATTTCTTAT
AAATAAATTATAGCACTTTTTATAAATAAATATATTATTTTTATAATATATTGGCTTAAGGGTGT
AAAAAGCCCTCAAAC
Found at i:12603661 original size:88 final size:88
Alignment explanation
Indices: 12603494--12603762 Score: 303
Period size: 87 Copynumber: 3.1 Consensus size: 88
12603484 TTAAGGGTGT
* * * **
12603494 AAAAAGCCCTCAAACTTTTTC-AAAAAAGTAATTAAGCTCCTACTTTTTTTTTTCTGTTCAATTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTAC-TTTTTTTTAC-ACTCAATTG
* *
12603558 GATACTTGAACTTTCAAAATGCATT
64 GGTACTTGAACTTTCAAAATGCATA
* *
12603583 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTATGCCCCTAC-TTTTTTTGCACTCAATTGG
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTGG
*
12603647 GTACTTGAAATTTCAAAATGCATA
65 GTACTTGAACTTTCAAAATGCATA
* *** * * * *
12603671 AAAAAGGCCCTCTAA--TTAAAAAAAAAAGCAATTAAGTCCCTGCATTTTTTTACACTCAATTGA
1 AAAAA-GCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTGG
*
12603734 GTACTTGAACTGTCAAAATGCATA
65 GTACTTGAACTTTCAAAATGCATA
12603758 AAAAA
1 AAAAA
12603763 AGCTTTTTGA
Statistics
Matches: 156, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
86 22 0.14
87 44 0.28
88 41 0.26
89 15 0.10
90 15 0.10
91 19 0.12
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (88 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTACACTCAATTGGG
TACTTGAACTTTCAAAATGCATA
Found at i:12603904 original size:10 final size:10
Alignment explanation
Indices: 12603881--12603928 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
12603871 TTTCAAAAAA
* *
12603881 TAAAAATCAA
1 TAAAAATTAT
12603891 TAAAAATTAT
1 TAAAAATTAT
12603901 T-AAAATTAT
1 TAAAAATTAT
*
12603910 TAAAATTTAT
1 TAAAAATTAT
12603920 TAAAAATTA
1 TAAAAATTA
12603929 GAAAAAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 9 0.27
10 24 0.73
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:12603905 original size:9 final size:9
Alignment explanation
Indices: 12603893--12603924 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
12603883 AAAATCAATA
12603893 AAAATTATT
1 AAAATTATT
12603902 AAAATTATT
1 AAAATTATT
12603911 AAAATTTATT
1 AAAA-TTATT
12603921 AAAA
1 AAAA
12603925 ATTAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTATT
Found at i:12603905 original size:19 final size:19
Alignment explanation
Indices: 12603883--12603924 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12603873 TCAAAAAATA
12603883 AAAATCAATAAAAATTATT
1 AAAATCAATAAAAATTATT
* * *
12603902 AAAATTATTAAAATTTATT
1 AAAATCAATAAAAATTATT
12603921 AAAA
1 AAAA
12603925 ATTAGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATCAATAAAAATTATT
Found at i:12603933 original size:19 final size:19
Alignment explanation
Indices: 12603892--12603934 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12603882 AAAAATCAAT
*
12603892 AAAAATTATTAAAATTATT
1 AAAAATTATTAAAATTATG
*
12603911 AAAATTTATTAAAAATTA-G
1 AAAAATTATT-AAAATTATG
12603930 AAAAA
1 AAAAA
12603935 AAAGTAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTATTAAAATTATG
Found at i:12604268 original size:18 final size:18
Alignment explanation
Indices: 12604176--12604284 Score: 73
Period size: 18 Copynumber: 5.9 Consensus size: 18
12604166 TTGGTACGAT
* *
12604176 AATTCTTATAATTTTTAGG
1 AATTTTTATAATTTTTA-C
*
12604195 AA-TTTTATATTTCTTTAC
1 AATTTTTATAATT-TTTAC
*
12604213 -ATTTTTAATAATATTT-C
1 AATTTTT-ATAATTTTTAC
*
12604230 ATGATTTTTATAAAATTTTAC
1 A--ATTTTTAT-AATTTTTAC
12604251 AATTGTTTAT-ATTTTTAC
1 AATT-TTTATAATTTTTAC
*
12604269 GATTTTTATAATTTTT
1 AATTTTTATAATTTTT
12604285 TTTCTAATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
17 7 0.10
18 31 0.44
19 15 0.21
20 16 0.23
21 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (18 bp):
AATTTTTATAATTTTTAC
Found at i:12604282 original size:9 final size:9
Alignment explanation
Indices: 12604174--12604284 Score: 59
Period size: 9 Copynumber: 12.0 Consensus size: 9
12604164 TATTGGTACG
*
12604174 ATAATTCTT
1 ATAATTTTT
12604183 ATAATTTTT
1 ATAATTTTT
*
12604192 AGGAA-TTTT
1 A-TAATTTTT
12604201 AT-ATTTCTT
1 ATAATTT-TT
12604210 -TACATTTTT
1 ATA-ATTTTT
*
12604219 AATAATATTTC
1 -ATAAT-TTTT
*
12604230 ATGATTTTT
1 ATAATTTTT
*
12604239 ATAAAATTTT
1 AT-AATTTTT
*
12604249 ACAATTGTTT
1 ATAATT-TTT
12604259 AT-ATTTTT
1 ATAATTTTT
**
12604267 ACGATTTTT
1 ATAATTTTT
12604276 ATAATTTTT
1 ATAATTTTT
12604285 TTTCTAATTT
Statistics
Matches: 77, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 7 0.09
9 42 0.55
10 22 0.29
11 5 0.06
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (9 bp):
ATAATTTTT
Found at i:12604646 original size:87 final size:86
Alignment explanation
Indices: 12604467--12604647 Score: 197
Period size: 87 Copynumber: 2.1 Consensus size: 86
12604457 TCAAAGGGCA
* *
12604467 TTTTTGATGCATTTTGGCATATCAAGTACCCAATTGAGGGAAAAAAAGCAGGGGCTTAATTGTTT
1 TTTTT-ATGCATTTTGGCATATCAAGTACCCAATTGAGGAAAAAAAAGCAGCGGCTTAATTGTTT
**** * **
12604532 TTTTTTTTAAGTTTGAGAGCATT
65 TTTTGAAAAAGTTGGAGAG-AGG
*
12604555 TTTTTATGCATTTTGGCAGT-TCAAGTACCCAATTGAGTTAAAAAAAGAGCAGCGGCTTAATTGG
1 TTTTTATGCATTTTGGCA-TATCAAGTACCCAATTGAG-GAAAAAAA-AGCAGCGGCTTAATT-G
12604619 TTTTTTTGAAAAAGTTGGA-AG-GG
62 TTTTTTTGAAAAAGTTGGAGAGAGG
12604642 TTTTTA
1 TTTTTA
12604648 CACCATTAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
87 36 0.46
88 12 0.15
89 16 0.20
90 15 0.19
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (86 bp):
TTTTTATGCATTTTGGCATATCAAGTACCCAATTGAGGAAAAAAAAGCAGCGGCTTAATTGTTTT
TTTGAAAAAGTTGGAGAGAGG
Found at i:12604993 original size:20 final size:20
Alignment explanation
Indices: 12604960--12604997 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12604950 ACGGTATAGT
12604960 TAATGGTTGATTAATTAAAC
1 TAATGGTTGATTAATTAAAC
12604980 TAAT-GTTGATTTAATTAA
1 TAATGGTTGA-TTAATTAA
12604998 CAAAAACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TAATGGTTGATTAATTAAAC
Found at i:12616286 original size:17 final size:19
Alignment explanation
Indices: 12616247--12616289 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
12616237 TATCTTAAAA
12616247 ATTTAAAAATTCAAAAACT
1 ATTTAAAAATTCAAAAACT
*
12616266 -TTTAAAAA-T-AAAAATT
1 ATTTAAAAATTCAAAAACT
12616282 ATTTAAAA
1 ATTTAAAA
12616290 GTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTTAAAAATTCAAAAACT
Found at i:12617000 original size:14 final size:14
Alignment explanation
Indices: 12616981--12617028 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
12616971 TCATTATCTT
12616981 AAAACTAAAATATA
1 AAAACTAAAATATA
12616995 AAAACT-AAAT-TA
1 AAAACTAAAATATA
12617007 AAAA--AAATATATA
1 AAAACTAAA-ATATA
*
12617020 AAGACTAAA
1 AAAACTAAA
12617029 TCTTAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
11 2 0.07
12 8 0.29
13 9 0.32
14 6 0.21
15 3 0.11
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAACTAAAATATA
Found at i:12617004 original size:13 final size:13
Alignment explanation
Indices: 12616981--12617029 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
12616971 TCATTATCTT
12616981 AAAACTAAAATATA
1 AAAACT-AAATATA
12616995 AAAACTAAAT-TA
1 AAAACTAAATATA
12617007 AAAA--AAATATA
1 AAAACTAAATATA
12617018 TAAAGACTAAAT
1 -AAA-ACTAAAT
12617030 CTTAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.13
11 2 0.07
12 9 0.30
13 5 0.17
14 6 0.20
15 4 0.13
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAACTAAATATA
Found at i:12624676 original size:6 final size:6
Alignment explanation
Indices: 12624665--12624782 Score: 173
Period size: 6 Copynumber: 19.7 Consensus size: 6
12624655 CGTGCAAAGC
12624665 AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG
1 AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG
* * * *
12624713 AAAACG AAAACG AAAACG AAAACG AAAATG AAAATG AAAATG AAAATG
1 AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG
* * *
12624761 AAAATG AAAATG AAAATG AAAA
1 AAAACG AAAACG AAAACG AAAA
12624783 TGACAATGAC
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 111 1.00
ACGTcount: A:0.68, C:0.10, G:0.16, T:0.06
Consensus pattern (6 bp):
AAAACG
Found at i:12624783 original size:6 final size:6
Alignment explanation
Indices: 12624665--12624827 Score: 164
Period size: 6 Copynumber: 27.2 Consensus size: 6
12624655 CGTGCAAAGC
* * * * * * * *
12624665 AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* * * *
12624713 AAAACG AAAACG AAAACG AAAACG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* * * *
12624761 AAAATG AAAATG AAAATG AAAATG ACAATG ACAATG ACAATG ACAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* *
12624809 ACAATG ACAATG AAAATG A
1 AAAATG AAAATG AAAATG A
12624828 CGTGGAAATG
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 154 1.00
ACGTcount: A:0.63, C:0.11, G:0.17, T:0.09
Consensus pattern (6 bp):
AAAATG
Found at i:12628655 original size:27 final size:27
Alignment explanation
Indices: 12628614--12628667 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
12628604 AATGAAGGTG
*
12628614 TTAGAATATAGACATCTACATTTATAT
1 TTAGAATATAAACATCTACATTTATAT
12628641 TTAGAATATAAACATCTACATTTATAT
1 TTAGAATATAAACATCTACATTTATAT
12628668 ATTTGTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAGAATATAAACATCTACATTTATAT
Found at i:12629581 original size:13 final size:11
Alignment explanation
Indices: 12629553--12629595 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
12629543 AGTTAAATAT
12629553 TATTTTATTAA
1 TATTTTATTAA
12629564 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
12629577 TA-TTTATTAT
1 TATTTTATTAA
12629587 TATTTTATT
1 TATTTTATT
12629596 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:12629582 original size:23 final size:23
Alignment explanation
Indices: 12629556--12629599 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12629546 TAAATATTAT
12629556 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
12629579 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
12629600 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:12634621 original size:17 final size:18
Alignment explanation
Indices: 12634588--12634623 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12634578 AACTTGATGA
12634588 AAAACATATAGTCTTTCC
1 AAAACATATAGTCTTTCC
*
12634606 AAAACATAT-TTCTTTCC
1 AAAACATATAGTCTTTCC
12634623 A
1 A
12634624 CATTCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAACATATAGTCTTTCC
Found at i:12647882 original size:27 final size:26
Alignment explanation
Indices: 12647852--12647902 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
12647842 ATGCCATTCT
12647852 TACAAA-CAATATAATTGAATAGCAATA
1 TACAAAGCAA-ATAA-TGAATAGCAATA
*
12647879 TACAAAGCAAATGATGAATAGCAA
1 TACAAAGCAAATAATGAATAGCAA
12647903 ACTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 9 0.41
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATAATGAATAGCAATA
Found at i:12649541 original size:4 final size:4
Alignment explanation
Indices: 12649532--12649574 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
12649522 GAGAAGGGGT
*
12649532 TTTA TTTA TTTA TTTA TAT- TTTA TTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
12649575 GTAACTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 29 0.83
5 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:12649762 original size:216 final size:216
Alignment explanation
Indices: 12649388--12649819 Score: 848
Period size: 216 Copynumber: 2.0 Consensus size: 216
12649378 CATGTAGTGC
12649388 GCGCGTTCGGAAGGATCCCTTTTATTTTATTTGCGAATTTGCCCCCCGAATTTCATTCTGATTTC
1 GCGCGTTCGGAAGGATCCCTTTTATTTTATTTGCGAATTTGCCCCCCGAATTTCATTCTGATTTC
12649453 AACTTAATCCTTGGCCTGTTTAACTTTTATTGTTTGTTATGTTTTTTTTCTTTTTTTCTTTTAAA
66 AACTTAATCCTTGGCCTGTTTAACTTTTATTGTTTGTTATGTTTTTTTTCTTTTTTTCTTTTAAA
12649518 AAAAGAGAAGGGGTTTTATTTATTTATTT-ATATTTTATTTTATTTATTTATTTATTTGTAACTT
131 AAAAGAGAAGGGGTTTTATTTATTTATTTAATATTTTA-TTTATTTATTTATTTATTTGTAACTT
12649582 CTAATCTAGTTTATATTATTTT
195 CTAATCTAGTTTATATTATTTT
12649604 GCGCGTTCGGAAGGATCCCTTTTATTTTATTTGCGAATTTGCCCCCCGAATTTCATTCTGATTTC
1 GCGCGTTCGGAAGGATCCCTTTTATTTTATTTGCGAATTTGCCCCCCGAATTTCATTCTGATTTC
12649669 AACTTAATCCTTGGCCTGTTTAACTTTTATTGTTTGTTATGTTTTTTTTCTTTTTTTCTTTTAAA
66 AACTTAATCCTTGGCCTGTTTAACTTTTATTGTTTGTTATGTTTTTTTTCTTTTTTTCTTTTAAA
12649734 AAAAGAGAAGGGGTTTTATTTATTTATTTAATATTTTATTTATTTATTTATTTATTTGTAACTTC
131 AAAAGAGAAGGGGTTTTATTTATTTATTTAATATTTTATTTATTTATTTATTTATTTGTAACTTC
12649799 TAATCTAGTTTATATTATTTT
196 TAATCTAGTTTATATTATTTT
12649820 TTTATGTTAT
Statistics
Matches: 215, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
216 207 0.96
217 8 0.04
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (216 bp):
GCGCGTTCGGAAGGATCCCTTTTATTTTATTTGCGAATTTGCCCCCCGAATTTCATTCTGATTTC
AACTTAATCCTTGGCCTGTTTAACTTTTATTGTTTGTTATGTTTTTTTTCTTTTTTTCTTTTAAA
AAAAGAGAAGGGGTTTTATTTATTTATTTAATATTTTATTTATTTATTTATTTATTTGTAACTTC
TAATCTAGTTTATATTATTTT
Found at i:12649859 original size:4 final size:4
Alignment explanation
Indices: 12649748--12649790 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
12649738 GAGAAGGGGT
*
12649748 TTTA TTTA TTTA TTTA -ATA TTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTT
12649791 GTAACTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 31 0.89
5 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:12651018 original size:17 final size:17
Alignment explanation
Indices: 12650996--12651028 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12650986 TAGAATGAGG
*
12650996 TTGAGAAAATGATTTAA
1 TTGAGAAAATAATTTAA
12651013 TTGAGAAAATAATTTA
1 TTGAGAAAATAATTTA
12651029 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:12655935 original size:33 final size:33
Alignment explanation
Indices: 12655897--12655971 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
12655887 CTCCTGTTAA
12655897 CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
1 CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
* * * * *
12655930 TCCTCCATCAGCATTGGTGCCGCCTATCGTCAG
1 CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
12655963 CCCTCCACC
1 CCCTCCACC
12655972 CCGCCTGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.16, C:0.47, G:0.19, T:0.19
Consensus pattern (33 bp):
CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
Found at i:12657932 original size:34 final size:34
Alignment explanation
Indices: 12657879--12657944 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
12657869 AAATACTAAT
* *
12657879 ATGTTTAAAATTTTCATCTTAATCTTTTACTTAA
1 ATGTTTAAAATTTTCATCTTAATATTCTACTTAA
* *
12657913 ATGTTTAAATTTTTTATCTTAATATTCTACTT
1 ATGTTTAAAATTTTCATCTTAATATTCTACTT
12657945 CAATCCATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (34 bp):
ATGTTTAAAATTTTCATCTTAATATTCTACTTAA
Found at i:12665484 original size:23 final size:23
Alignment explanation
Indices: 12665453--12665509 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
12665443 TTTATCTACA
*
12665453 TATGTATATATATT-TATATTTTT
1 TATGAATAT-TATTCTATATTTTT
*
12665476 TATGAATATTTTTCTATATTTTT
1 TATGAATATTATTCTATATTTTT
*
12665499 TAATAAATATT
1 T-ATGAATATT
12665510 TTTGTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.10
23 18 0.62
24 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TATGAATATTATTCTATATTTTT
Found at i:12665511 original size:23 final size:23
Alignment explanation
Indices: 12665467--12665512 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
12665457 TATATATATT
*
12665467 TATATTTTTTATGAATATTTTTC
1 TATATTTTTTATAAATATTTTTC
12665490 TATATTTTTTAATAAATATTTTT
1 TATATTTTTT-ATAAATATTTTT
12665513 GTATTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TATATTTTTTATAAATATTTTTC
Found at i:12665909 original size:15 final size:15
Alignment explanation
Indices: 12665886--12665918 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
12665876 TTTTTATGCC
12665886 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
12665901 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
12665916 ATT
1 ATT
12665919 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:12677742 original size:131 final size:131
Alignment explanation
Indices: 12677455--12678084 Score: 958
Period size: 131 Copynumber: 4.8 Consensus size: 131
12677445 GCTAAAAAAT
* * *
12677455 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * *
12677520 TTGGTAGGAAATGCATTGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCAAAG
66 TTGGTAGGAAGTGGATCGAAGAT-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
12677585 AA
130 AA
* *
12677587 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTTTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
12677652 TTGGTAGGAAGTGGATCGAAGA-CTAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGATC-AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
12677716 AA
130 AA
12677718 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * *
12677783 TTGGTAGGAAGCGGATCGAAG-GCTAGGTCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGATC-AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
12677847 AA
130 AA
* * * *
12677849 AGCAAATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
12677914 TTGGTAGGAAATGGATGGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGAT-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
12677979 AA
130 AA
* *
12677981 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
12678046 TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGCCTTCC
66 TTGGTAGGAAGTGGATCGAAG-ATCAGATCTTGTCTTCC
12678085 TGCACCGACA
Statistics
Matches: 454, Mismatches: 39, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
130 1 0.00
131 241 0.53
132 210 0.46
133 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (131 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
A
Found at i:12677964 original size:263 final size:262
Alignment explanation
Indices: 12677455--12678084 Score: 985
Period size: 263 Copynumber: 2.4 Consensus size: 262
12677445 GCTAAAAAAT
* * *
12677455 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * *
12677520 TTGGTAGGAAATGCATTGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCAAAG
66 TTGGTAGGAAGTGGATCGAAGA-GCAGATCTTGTCTTCCCATACTAGTAGCGAAGTAGATCAAAG
* * * *
12677585 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTTTCTTCCTA
130 AAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTA
* * *
12677650 TATTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCGAA
195 TATTGGTAGGAAATGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
12677715 GAA
260 GAA
12677718 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * *
12677783 TTGGTAGGAAGCGGATCGAAG-GCTAGGTCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGAGC-AGATCTTGTCTTCCCATACTAGTAGCGAAGTAGATCAAAG
*
12677847 AAAGCAAATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTA
130 AAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTA
*
12677912 TATTGGTAGGAAATGGATGGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
195 TATTGGTAGGAAATGGATCGAAGACT--AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
12677976 AAGAA
258 AAGAA
* *
12677981 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
12678046 TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGCCTTCC
66 TTGGTAGGAAGTGGATCGAAG-AGCAGATCTTGTCTTCC
12678085 TGCACCGACA
Statistics
Matches: 336, Mismatches: 26, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
261 3 0.01
262 117 0.35
263 202 0.60
264 12 0.04
265 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (262 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGAGCAGATCTTGTCTTCCCATACTAGTAGCGAAGTAGATCAAAGA
AAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTAT
ATTGGTAGGAAATGGATCGAAGACTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
AA
Found at i:12678099 original size:132 final size:131
Alignment explanation
Indices: 12677455--12678111 Score: 899
Period size: 132 Copynumber: 5.0 Consensus size: 131
12677445 GCTAAAAAAT
* * *
12677455 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * * * *
12677520 TTGGTAGGAAATGCATTGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCAAAG
66 TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCCC-CACTGGTGGCGAAGTAGATCGAAG
12677585 AA
130 AA
* *
12677587 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTTTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
** *
12677652 TTGGTAGGAAGTGGATCGAAG-A-CTAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCGAA
66 TTGGTAGGAAGTGGATCGAAGAAGC-AGATCTTGTC-TTCCCCACTGGTGGCGAAGTAGATCGAA
12677715 GAA
129 GAA
12677718 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * *
12677783 TTGGTAGGAAGCGGATCGAAG--GCTAGGTCTTGTCTTCCCATATTAGTGGCGAAGTAGATCGAA
66 TTGGTAGGAAGTGGATCGAAGAAGC-AGATCTTGTCTTCCC-CACTGGTGGCGAAGTAGATCGAA
12677846 GAA
129 GAA
* * * *
12677849 AGCAAATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * *
12677914 TTGGTAGGAAATGGATGGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCCC-CACTGGTGGCGAAGTAGATCGAAG
12677979 AA
130 AA
* *
12677981 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * ***
12678046 TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCC-CCACTGGTGGCGAAGTAGATCGAAG
12678111 A
130 A
12678112 CATCAGTCTT
Statistics
Matches: 473, Mismatches: 45, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
130 5 0.01
131 231 0.49
132 235 0.50
133 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (131 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCCCCACTGGTGGCGAAGTAGATCGAAGA
A
Found at i:12678437 original size:44 final size:44
Alignment explanation
Indices: 12678389--12678972 Score: 257
Period size: 44 Copynumber: 13.5 Consensus size: 44
12678379 TCCTATATCC
* *
12678389 CTGAAGTTGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
* * *** * *
12678433 CTGAAGTTGCAG-AGAGCATA-TCGCATC-TAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
* * *
12678473 CTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATC-CT
1 CTGAAGTTGCAGTGGAGCAGATTAA--AATCACAGATCTTATCTCT
* * **
12678516 CCTGAAGTTGCAAT-GAGCCAGATTGAAGATGGC-GAATCTTATCTCT
1 -CTGAAGTTGCAGTGGAG-CAGATT-AAAATCACAG-ATCTTATCTCT
* ** * * *
12678562 CTGACGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCA
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACA-GATCTTATCTCT
** * *
12678606 CTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTTT
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
* * ** * * * *
12678650 CTGAAGGTGCAGTAGAATAGA-TCATAT--CGGGTCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
*** * *
12678691 CTGAA-TTGCAGTGGAAG-AGCATATCGCATC-TAG-TCTTATCTCC
1 CTGAAGTTGCAGTGG-AGCAG-AT-TAAAATCACAGATCTTATCTCT
* * *
12678734 CTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATC-CT
1 CTGAAGTTGCAGTGGAGCAGATTAA--AATCACAGATCTTATCTCT
* * **
12678777 CCTGAAGTTGCAAT-GAGCCAGATTGAAGATGGC-GAATCTTATCTCT
1 -CTGAAGTTGCAGTGGAG-CAGATT-AAAATCACAG-ATCTTATCTCT
* ** * * *
12678823 CTGACGTTGCAGTGGAGCAGATTAAAGCCA-ATAATCCTATCTCA
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACA-GATCTTATCTCT
** * *
12678867 CTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTTT
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
* * ** * * * *
12678911 CTGAAGGTGCAGTAGAATAGA-TCATAT--CGGGTCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
12678952 CTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTGGAGCAGA
12678973 CTCAAGAAAG
Statistics
Matches: 397, Mismatches: 106, Indels: 77
0.68 0.18 0.13
Matches are distributed among these distances:
40 29 0.07
41 54 0.14
42 6 0.02
43 44 0.11
44 200 0.50
45 54 0.14
46 10 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCT
Found at i:12678511 original size:84 final size:85
Alignment explanation
Indices: 12678386--12678788 Score: 235
Period size: 84 Copynumber: 4.7 Consensus size: 85
12678376 TAATCCTATA
* * *
12678386 TCCCTGAAGTTGTAGTGGAGCGGATTAA--AATCACAGATCTTATCTCTCTGAAGTTGCA-GAGA
1 TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATCTCTCTGAAGTTGCAGGAGA
12678448 GCATATCGCATCTAGTCTTATC
64 GCATATCGCATCTAGTCTTATC
12678470 TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCA--ATGA
1 TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCT-CTGAAGTTGCAGGA-GA
* * * * *
12678532 GCCAGATTGAAGATGGCGAATCTTATC
64 G-CATATCG--CAT--CTAGTCTTATC
* * * * * * * *
12678559 TCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATCTCACTGAAGTTGCAGTGGA
1 TCCCTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATCTCTCTGAAGTTGCA--GGA
* * *
12678622 GTGGATTAAAAC-CA-C-AGATCTTATC
62 GAGCA-T--ATCGCATCTAG-TCTTATC
** * * * ** * * **
12678647 TTTCTGAAGGTGCAGTAGAATAGA-TCA-T-ATCGGGTCTTATCTCTCTGAA-TTGCAGTGGAAG
1 TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCTCTGAAGTTGCA--GG-AG
12678708 AGCATATCGCATCTAGTCTTATC
63 AGCATATCGCATCTAGTCTTATC
12678731 TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCA
1 TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCT-CTGAAGTTGCA
12678789 ATGAGCCAGA
Statistics
Matches: 238, Mismatches: 50, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
82 2 0.01
83 6 0.03
84 82 0.34
85 28 0.12
86 8 0.03
87 19 0.08
88 31 0.13
89 48 0.20
90 6 0.03
91 4 0.02
92 2 0.01
93 1 0.00
94 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (85 bp):
TCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCTCTGAAGTTGCAGGAGAGC
ATATCGCATCTAGTCTTATC
Found at i:12678580 original size:89 final size:88
Alignment explanation
Indices: 12678463--12678877 Score: 259
Period size: 89 Copynumber: 4.7 Consensus size: 88
12678453 TCGCATCTAG
* *
12678463 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTC-CTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTAT-CTCACTGAAGTTGC
*
12678527 AATGAGCCAGATTGAAGATGGCGA-A
65 AATGAG-CAGATTGAAGATCGC-ATA
* * * * *
12678552 TCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATCTCACTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATCTCACTGAAGTTG
* ** * * * *
12678615 CAGTGGAGTGGATT-AAAACCACAGA
64 CAAT-GAGCAGATTGAAGATCGCATA
* * * ** * * ** *
12678640 TCTTATCTTTCTGAAGGTGCAGTAGAATAGA-TCA-T-ATCGGGTCTTATCTCTCTGAA-TTGCA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCACTGAAGTTGCA
* * * *
12678701 GTG-GAAGA--GCATATCGCATCTA
66 ATGAGCAGATTGAAGATCGCA--TA
* *
12678723 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTC-CTGAAGTTG
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTAT-CTCACTGAAGTTG
*
12678787 CAATGAGCCAGATTGAAGATGGCGA-A
64 CAATGAG-CAGATTGAAGATCGC-ATA
* * * * *
12678813 TCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATCTCACTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATCTCACTGAAGTTG
12678876 CA
64 CA
12678878 GTGGAGTGGA
Statistics
Matches: 245, Mismatches: 57, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
81 5 0.02
82 3 0.01
83 3 0.01
84 31 0.13
85 15 0.06
86 2 0.01
87 16 0.07
88 46 0.19
89 96 0.39
90 17 0.07
91 4 0.02
92 6 0.02
93 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (88 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCTCACTGAAGTTGCA
ATGAGCAGATTGAAGATCGCATA
Found at i:12678734 original size:261 final size:262
Alignment explanation
Indices: 12678423--12678967 Score: 1055
Period size: 261 Copynumber: 2.1 Consensus size: 262
12678413 AAATCACAGA
12678423 TCTTATCTCTCTGAAGTTGCA---G-AGAGCATATCGCATCTAGTCTTATCTCCCTGAAGTTGTA
1 TCTTATCTCTCTGAAGTTGCAGTGGAAGAGCATATCGCATCTAGTCTTATCTCCCTGAAGTTGTA
12678484 GTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGCCAGATTGAAGATGGC
66 GTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGCCAGATTGAAGATGGC
12678549 GAATCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTT
131 GAATCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTT
12678614 GCAGTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCG
196 GCAGTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCG
12678679 GG
261 GG
12678681 TCTTATCTCTCTGAA-TTGCAGTGGAAGAGCATATCGCATCTAGTCTTATCTCCCTGAAGTTGTA
1 TCTTATCTCTCTGAAGTTGCAGTGGAAGAGCATATCGCATCTAGTCTTATCTCCCTGAAGTTGTA
12678745 GTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGCCAGATTGAAGATGGC
66 GTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGCCAGATTGAAGATGGC
12678810 GAATCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTT
131 GAATCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTT
12678875 GCAGTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCG
196 GCAGTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCG
12678940 GG
261 GG
12678942 TCTTATCTCTCTGAAGTTGCAGTGGA
1 TCTTATCTCTCTGAAGTTGCAGTGGA
12678968 GCAGACTCAA
Statistics
Matches: 282, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
257 5 0.02
258 15 0.05
260 1 0.00
261 251 0.89
262 10 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (262 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAAGAGCATATCGCATCTAGTCTTATCTCCCTGAAGTTGTA
GTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGCCAGATTGAAGATGGC
GAATCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTT
GCAGTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCG
GG
Found at i:12678983 original size:133 final size:129
Alignment explanation
Indices: 12678552--12678972 Score: 503
Period size: 128 Copynumber: 3.2 Consensus size: 129
12678542 AGATGGCGAA
*
12678552 TCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTTGCA
12678617 GTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCGGG
66 GTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCGGG
** * * * *
12678681 TCTTATCTCTCTGAA-TTGCAGTGGAAG-AGCA-TATCG-CATCTAGTCTTATCTCCCTGAAGTT
1 TCTTATCTCTCTGAAGTTGCAGTGG-AGCAG-ATTAAAGCCA-ATAATCCTATCTCACTGAAGTT
* ** * * * * * * * **
12678742 GTAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATCCTCCTGAAGTTGCAATGAGCCAGATTGAAG
63 GCAGTGGAGTGGATTAA--AACCACAGATCTTATCTTTCTGAAGGTGCAGT-AG--A-ATAGATC
** **
12678805 ATGGCGAA
122 ATATCGGG
*
12678813 TCTTATCTCTCTGACGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTTGCA
12678878 GTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCGGG
66 GTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCGGG
12678942 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA
12678973 CTCAAGAAAG
Statistics
Matches: 230, Mismatches: 47, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
127 2 0.01
128 64 0.28
129 59 0.26
130 5 0.02
131 5 0.02
132 29 0.13
133 64 0.28
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (129 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCACTGAAGTTGCA
GTGGAGTGGATTAAAACCACAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGATCATATCGGG
Found at i:12679018 original size:45 final size:45
Alignment explanation
Indices: 12678941--12679058 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
12678931 ATCATATCGG
* * * *
12678941 GTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
1 GTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGCAA
* *
12678986 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGACCCAAGAAATCAA
1 GTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGCAA
* * * *
12679031 ATCCTA-CCTCCCTGACATTACAGTGGAG
1 GTCTTATCC-CCCTGAAATTGCAGTGGAG
12679059 TAGATTGAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 2 0.03
45 59 0.97
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (45 bp):
GTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAAGCAA
Found at i:12681633 original size:8 final size:8
Alignment explanation
Indices: 12681619--12681648 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12681609 TGTCCTACTT
12681619 ATATCAGA
1 ATATCAGA
*
12681627 CTATCAGA
1 ATATCAGA
12681635 ATATCAGA
1 ATATCAGA
12681643 ATATCA
1 ATATCA
12681649 TATCACACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (8 bp):
ATATCAGA
Found at i:12681776 original size:18 final size:18
Alignment explanation
Indices: 12681753--12681787 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12681743 AAATCTTGGA
*
12681753 CCCACATGCTCGTGTGGT
1 CCCACACGCTCGTGTGGT
12681771 CCCACACGCTCGTGTGG
1 CCCACACGCTCGTGTGG
12681788 CCTACACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (18 bp):
CCCACACGCTCGTGTGGT
Found at i:12688316 original size:11 final size:11
Alignment explanation
Indices: 12688300--12688337 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
12688290 TATTTCATTT
12688300 GAAAAAAAAAA
1 GAAAAAAAAAA
12688311 GAAAAAAAAAA
1 GAAAAAAAAAA
12688322 GAAAAGAAAAGAA
1 GAAAA-AAAA-AA
12688335 GAA
1 GAA
12688338 CTAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.64
12 4 0.16
13 5 0.20
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:12688326 original size:16 final size:15
Alignment explanation
Indices: 12688301--12688331 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
12688291 ATTTCATTTG
12688301 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
12688316 AAAAAAGAAAAGAAAA
1 AAAAAA-AAAAGAAAA
12688332 GAAGAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:12688331 original size:22 final size:22
Alignment explanation
Indices: 12688302--12688349 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
12688292 TTTCATTTGA
12688302 AAAAAAAAAGAA-AAAAAAAAG
1 AAAAAAAAAGAAGAAAAAAAAG
* **
12688323 AAAAGAAAAGAAGAACTAAAAG
1 AAAAAAAAAGAAGAAAAAAAAG
12688345 AAAAA
1 AAAAA
12688350 GGAGAGGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAGAAGAAAAAAAAG
Found at i:12688733 original size:22 final size:22
Alignment explanation
Indices: 12688708--12688753 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
12688698 TTTCCTTCCA
12688708 AAATTCTCTCAAATCCATATTT
1 AAATTCTCTCAAATCCATATTT
*
12688730 AAATTCTCTTAAATCCATATTT
1 AAATTCTCTCAAATCCATATTT
12688752 AA
1 AA
12688754 TTTCAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTCTCTCAAATCCATATTT
Found at i:12690593 original size:18 final size:18
Alignment explanation
Indices: 12690567--12690601 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12690557 AGGTGTGTTT
*
12690567 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
12690585 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
12690602 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:12691174 original size:29 final size:29
Alignment explanation
Indices: 12691135--12691483 Score: 220
Period size: 29 Copynumber: 13.3 Consensus size: 29
12691125 AACCTAATTT
*
12691135 AACCCTAAACCCTAACCTAAATTAATTATA
1 AACCCT-AACCCTAACCTAAATTAATTAAA
**
12691165 AACCCTAACCCCTAACCTAAATTAATTGCA
1 AACCCTAA-CCCTAACCTAAATTAATTAAA
*
12691195 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
12691224 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
12691253 AACCCT-A----AACC---CTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
* * * *
12691274 AACCCAAACCTTAAACTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
* *
12691303 AA---T---CCGAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
12691326 AACCCTAA-CCTAA--T---TTAATAAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
12691349 AACCCTAA-CCTAA--T---TTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
* *
12691372 AACCCTAACCCTAACCTAATTTAACTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
12691401 AACCCT-A----AACC---CTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
* * *
12691422 AACCCTAACCTTAAACTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
*
12691451 AACCCGAA-CCTAA--T---TTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTAAA
12691474 AACCCTAACC
1 AACCCTAACC
12691484 TAATTTAATC
Statistics
Matches: 266, Mismatches: 24, Indels: 64
0.75 0.07 0.18
Matches are distributed among these distances:
21 28 0.11
22 2 0.01
23 73 0.27
24 14 0.05
26 10 0.04
28 10 0.04
29 96 0.36
30 33 0.12
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAAATTAATTAAA
Found at i:12691211 original size:59 final size:59
Alignment explanation
Indices: 12691135--12691413 Score: 213
Period size: 50 Copynumber: 5.2 Consensus size: 59
12691125 AACCTAATTT
* **
12691135 AACCCTAAACCCTAACCTAAATTAATTATAAACCCTAACCCCTAACCTAAATTAATTGCA
1 AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAA-CCCTAACCTAAATTAATTAAA
* *
12691195 AACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
* * * *
12691253 AACCCTAAA--C---CC----TTAATTAAAAACCCAAACCTTAAACTAATTTAATTAAA
1 AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
* * *
12691303 AA---T----CCGAACCTAATTTAATTAAAAACCCTAA-CCTAA--T---TTAATAAAA
1 AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
* *
12691349 AACCCT-AA-CCTAA--T---TTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAA
1 AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
12691401 AACCCTAAACCCT
1 AACCCTAAACCCT
12691414 TAATTAAAAA
Statistics
Matches: 183, Mismatches: 14, Indels: 50
0.74 0.06 0.20
Matches are distributed among these distances:
45 1 0.01
46 27 0.15
47 6 0.03
48 2 0.01
49 4 0.02
50 37 0.20
51 8 0.04
52 29 0.16
53 2 0.01
54 5 0.03
57 1 0.01
58 24 0.13
59 31 0.17
60 6 0.03
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (59 bp):
AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
Found at i:12691231 original size:23 final size:23
Alignment explanation
Indices: 12691201--12691778 Score: 452
Period size: 23 Copynumber: 23.8 Consensus size: 23
12691191 TGCAAACCCT
12691201 AACCCTAACCTAATTTAATTAAAAA
1 AACCCTAACCTAATTTAATT--AAA
12691226 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
12691253 AACCCTAAACCCTTAA-TTAA-AAACCCA
1 AACCCT-AA-CC-TAATTTAATTAA---A
* *
12691280 AACCTTAAACTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
12691303 AATCCGAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
12691326 AACCCTAACCTAATTTAATAAAA
1 AACCCTAACCTAATTTAATTAAA
12691349 AACCCTAACCTAATTTAATTAAAAA
1 AACCCTAACCTAATTTAATT--AAA
*
12691374 CCCTAACCCTAACCTAATTTAACTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
12691401 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
12691422 AACCCTAACCTTAAACTAATTTAATTAAA
1 AACCCTAA-C-----CTAATTTAATTAAA
*
12691451 AACCCGAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
12691474 AACCCTAACCTAATTTAATCAAA
1 AACCCTAACCTAATTTAATTAAA
12691497 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
12691520 AATCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
*
12691541 AACCCTAACCTAATTTAATTTAA
1 AACCCTAACCTAATTTAATTAAA
*
12691564 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
12691585 AACCCTAACCTTAAACTAATTTAATTAAA
1 AACCCTAA-C-----CTAATTTAATTAAA
*
12691614 AACCCTAACCTAATTTAACTAAA
1 AACCCTAACCTAATTTAATTAAA
*
12691637 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
12691658 AACCCTAACCTAATTTAATTAAAAA
1 AACCCTAACCTAATTTAATT--AAA
*
12691683 CCCTAACCCTAACCTAATTTAACTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
12691710 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
12691731 AACCCTAACCTTAAACTAATTTAATTAAA
1 AACCCTAA-C-----CTAATTTAATTAAA
12691760 AACCCTAACCTAATTTAAT
1 AACCCTAACCTAATTTAAT
12691779 NNNNNNNNNN
Statistics
Matches: 455, Mismatches: 36, Indels: 122
0.74 0.06 0.20
Matches are distributed among these distances:
20 14 0.03
21 73 0.16
23 188 0.41
24 27 0.06
25 17 0.04
26 10 0.02
27 15 0.03
28 3 0.01
29 108 0.24
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:12691270 original size:21 final size:19
Alignment explanation
Indices: 12691244--12691287 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 19
12691234 CTAACCTAAT
12691244 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCC-AAA-CC
12691265 TTAATTAAAAACCCAAACC
1 TTAATTAAAAACCCAAACC
12691284 TTAA
1 TTAA
12691288 ACTAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 14 0.61
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (19 bp):
TTAATTAAAAACCCAAACC
Found at i:12691383 original size:148 final size:148
Alignment explanation
Indices: 12691201--12691532 Score: 610
Period size: 148 Copynumber: 2.2 Consensus size: 148
12691191 TGCAAACCCT
*
12691201 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAAACCCT
*
12691266 TAATTAAAAACCCAAACCTTAAACTAATTTAATTAAAAATCCGAACCTAATTTAATTAAAAACCC
66 TAATTAAAAACCCAAACCTTAAACTAATTTAATTAAAAACCCGAACCTAATTTAATTAAAAACCC
12691331 TAACCTAATTTAATAAAA
131 TAACCTAATTTAATAAAA
12691349 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAAACCCT
*
12691414 TAATTAAAAACCCTAACCTTAAACTAATTTAATTAAAAACCCGAACCTAATTTAATTAAAAACCC
66 TAATTAAAAACCCAAACCTTAAACTAATTTAATTAAAAACCCGAACCTAATTTAATTAAAAACCC
*
12691479 TAACCTAATTTAATCAAA
131 TAACCTAATTTAATAAAA
*
12691497 AACCCTAACCTAATTTAATTAAAAATCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCCT
12691533 TAATTAAAAA
Statistics
Matches: 178, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
148 172 0.97
149 6 0.03
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (148 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAAACCCT
TAATTAAAAACCCAAACCTTAAACTAATTTAATTAAAAACCCGAACCTAATTTAATTAAAAACCC
TAACCTAATTTAATAAAA
Found at i:12691626 original size:73 final size:71
Alignment explanation
Indices: 12691312--12691778 Score: 440
Period size: 73 Copynumber: 6.5 Consensus size: 71
12691302 AAATCCGAAC
* *
12691312 CTAATTTAATTAAAAACCCTAACCTAATTTAATAAAAAACCCTAACCTAATTTAATTAAAAACCC
1 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC---CTTAATTAAAAACCC
*
12691377 TAACCCTAAC
63 TAA-CCTAAA
* * * **
12691387 CTAATTTAACTAAAAACCCTAAACC---CTTAATTAAAAACCCTAA-CCTTAAACTAATTTAATT
1 CTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAACCCTT-AATTAA---AAAC
*** * *
12691448 AAAAACCCGAAC
61 CCTAA-CCTAAA
* *
12691460 CTAATTTAATTAAAAACCCTAACCTAATTTAATCAAAAACCCTAACCTAATTTAATTAAAAA---
1 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACC---CTTAATTAAAAACCC
12691522 T--CCTAAA
63 TAACCTAAA
** *
12691529 C--CCTTAATTAAAAACCCTAACCTAATTTAATTTAAAACCCTAAACCCTTAATTAAAAACCCTA
1 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTAATTAAAAACCCTA
12691592 ACCTTAAA
65 ACC-TAAA
*
12691600 CTAATTTAATTAAAAACCCTAACCTAATTTAACTAAAAACCCTAAACCCTTAATTAAAAACCCTA
1 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTAATTAAAAACCCTA
*
12691665 ACCTAAT
65 ACCTAAA
* *
12691672 TTAA-TTAA--AAACCCTAACCCTAACCTAATTTAACTAAAAACCCTAAACCCTTAATTAAAAAC
1 CTAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTAATTAAAAAC
12691734 CCTAACCTTAAA
61 CCTAACC-TAAA
12691746 CTAATTTAATTAAAAACCCTAACCTAATTTAAT
1 CTAATTTAATTAAAAACCCTAACCTAATTTAAT
12691779 NNNNNNNNNN
Statistics
Matches: 329, Mismatches: 34, Indels: 60
0.78 0.08 0.14
Matches are distributed among these distances:
65 11 0.03
67 36 0.11
68 5 0.02
69 10 0.03
70 7 0.02
71 9 0.03
72 11 0.03
73 178 0.54
74 6 0.02
75 41 0.12
76 5 0.02
77 3 0.01
78 5 0.02
79 2 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (71 bp):
CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAATTAAAAACCCTAA
CCTAAA
Found at i:12691665 original size:21 final size:21
Alignment explanation
Indices: 12691511--12691592 Score: 103
Period size: 21 Copynumber: 3.8 Consensus size: 21
12691501 CTAACCTAAT
*
12691511 TTAATTAAAAATCCTAAACCC
1 TTAATTAAAAACCCTAAACCC
*
12691532 TTAATTAAAAACCCT-AACCTAAT
1 TTAATTAAAAACCCTAAACC---C
*
12691555 TTAATTTAAAACCCTAAACCC
1 TTAATTAAAAACCCTAAACCC
12691576 TTAATTAAAAACCCTAA
1 TTAATTAAAAACCCTAA
12691593 CCTTAAACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 4 0.08
21 30 0.58
23 14 0.27
24 4 0.08
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAATTAAAAACCCTAAACCC
Found at i:12691694 original size:29 final size:29
Alignment explanation
Indices: 12691658--12691769 Score: 132
Period size: 29 Copynumber: 4.1 Consensus size: 29
12691648 CTTAATTAAA
12691658 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
12691687 AACCCTAACCTAATTTAACTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
12691716 -A----AACC---CTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
12691737 AACCTTAAACTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
12691766 AACC
1 AACC
12691770 TAATTTAATN
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
21 14 0.20
22 1 0.01
24 4 0.06
26 3 0.04
28 1 0.01
29 47 0.67
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:12692091 original size:17 final size:18
Alignment explanation
Indices: 12692050--12692091 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
12692040 TTTACTAACC
* *
12692050 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
12692068 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
12692085 ATTAATA
1 ATTAATA
12692092 ATTTCACTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:12695249 original size:124 final size:126
Alignment explanation
Indices: 12695092--12695443 Score: 527
Period size: 124 Copynumber: 2.8 Consensus size: 126
12695082 CCCAAACATG
*
12695092 CTACTGTAGCAAAAGCGCG-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGAGCGCTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *
12695156 CTAGAAGCGATTTTATATTATTTGCTCAGAAACATCAAAAAAAT-TTATTTCTTAC-ATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTATTTCTT-CTATGAC
* * *
12695216 CTACTGTAGCAAAAGAGCGCT-GACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTA
1 CTACTGTAGCAAAAGAGCGCTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
*
12695280 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCTGTGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAT-ATTATTTCTTCTATGAC
* * *
12695342 CTACTGTAGCAAAA-A-CGCTTCTACGAGGGCGCGATTTCACAAATTCTTCACAAATACCATCCT
1 CTACTGTAGCAAAAGAGCGC-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCT
**
12695405 GCTAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
65 GCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
12695444 CTCGAAATTA
Statistics
Matches: 208, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
124 103 0.50
125 4 0.02
126 101 0.49
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGAGCGCTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATATTATTTCTTCTATGAC
Found at i:12695403 original size:126 final size:123
Alignment explanation
Indices: 12695092--12695443 Score: 519
Period size: 126 Copynumber: 2.8 Consensus size: 123
12695082 CCCAAACATG
*
12695092 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAACGC-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
12695157 TAGAAGCGATTTTATATTATTTGCTCAGAAACATCAAAAAAATTTATTTCTTACATGAC
65 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGAC
* * *
12695216 CTACTGTAGCAAAAGAGCGCT-GACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTA
1 CTACTGTAGCAAAA-A-CGCTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
*
12695280 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTT-CTGTGAC
64 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAT--TTATTTCTTAC-ATGAC
* * *
12695342 CTACTGTAGCAAAAACGCTTCTACGAGGGCGCGATTTCACAAATTCTTCACAAATACCATCCTGC
1 CTACTGTAGCAAAAACGC-TCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
12695407 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
65 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
12695444 CTCGAAATTA
Statistics
Matches: 207, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
124 99 0.48
125 4 0.02
126 104 0.50
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAAACGCTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGAC
Found at i:12701242 original size:1 final size:1
Alignment explanation
Indices: 12701236--12701271 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
12701226 TAAGCAAGGA
*
12701236 TTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12701272 GTNNNNNNNN
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:12701455 original size:1 final size:1
Alignment explanation
Indices: 12701449--12701480 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
12701439 NNNAAGAAGG
12701449 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12701481 GCTTGGCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12710532 original size:21 final size:21
Alignment explanation
Indices: 12710491--12710533 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
12710481 AATAAAGTAG
*
12710491 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
*
12710512 ATTATATTTTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
12710533 A
1 A
12710534 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:12710775 original size:44 final size:46
Alignment explanation
Indices: 12710726--12710817 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 46
12710716 TACAACATCG
*
12710726 TTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGTTCTATTCCA
1 TTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCCA
*
12710770 TTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCA
1 TTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCCA
12710816 TT
1 TT
12710818 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 4 0.09
46 18 0.42
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (46 bp):
TTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCCA
Found at i:12710820 original size:16 final size:16
Alignment explanation
Indices: 12710799--12710869 Score: 99
Period size: 16 Copynumber: 4.4 Consensus size: 16
12710789 TGAATTACTG
* *
12710799 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCA
*
12710815 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCA
12710831 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCA
12710847 ATTACAGCCCTATTTC-
1 ATTACAGCCCTA-TTCA
12710863 ATTACAG
1 ATTACAG
12710870 TGAACCAAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 49 0.94
17 3 0.06
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:12712027 original size:27 final size:27
Alignment explanation
Indices: 12711992--12712060 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
12711982 AATAATAAAA
12711992 ATCCTCCCAAACACACCAGTATATTAT
1 ATCCTCCCAAACACACCAGTATATTAT
12712019 ATCCTCCCAAACACACCAGTATATTAT
1 ATCCTCCCAAACACACCAGTATATTAT
12712046 ATCCTCCCAAACACA
1 ATCCTCCCAAACACA
12712061 TCAATAAGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.38, C:0.36, G:0.03, T:0.23
Consensus pattern (27 bp):
ATCCTCCCAAACACACCAGTATATTAT
Found at i:12715504 original size:13 final size:13
Alignment explanation
Indices: 12715486--12715511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12715476 ATAAAATAAG
12715486 AAAGTGATTTGAA
1 AAAGTGATTTGAA
12715499 AAAGTGATTTGAA
1 AAAGTGATTTGAA
12715512 TTTTGTAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAGTGATTTGAA
Found at i:12719300 original size:6 final size:6
Alignment explanation
Indices: 12719289--12719322 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
12719279 AGTATCCATC
12719289 TTCCCA TTCCCA TTCCCA TTCCCA TTCCCA TTCC
1 TTCCCA TTCCCA TTCCCA TTCCCA TTCCCA TTCC
12719323 TATTGTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (6 bp):
TTCCCA
Found at i:12720095 original size:15 final size:15
Alignment explanation
Indices: 12720077--12720112 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
12720067 CGGGTCGGGT
12720077 GGCGCCTGTCAAGTA
1 GGCGCCTGTCAAGTA
12720092 GGCGCCTGTCAAGTA
1 GGCGCCTGTCAAGTA
12720107 GGCGCC
1 GGCGCC
12720113 AATGAAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.31, G:0.36, T:0.17
Consensus pattern (15 bp):
GGCGCCTGTCAAGTA
Found at i:12720533 original size:19 final size:19
Alignment explanation
Indices: 12720486--12720542 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
12720476 TTTAAATTTT
* *
12720486 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
12720506 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
12720525 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
12720543 ATTATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:12720555 original size:27 final size:27
Alignment explanation
Indices: 12720513--12720565 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
12720503 TTTTTTTATG
*
12720513 AATATTGTAATGTTGTATGAATATTGT
1 AATATTATAATGTTGTATGAATATTGT
*
12720540 AATATTATAATTTTGTATGAATATTG
1 AATATTATAATGTTGTATGAATATTG
12720566 AATGTCGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (27 bp):
AATATTATAATGTTGTATGAATATTGT
Found at i:12720600 original size:46 final size:47
Alignment explanation
Indices: 12720493--12720615 Score: 175
Period size: 46 Copynumber: 2.7 Consensus size: 47
12720483 TTTTTGTATG
*
12720493 AATATTATAATTTTTT-TATGAATATTGTAATGTTGTATGAATATTGT
1 AATATTATAATTTTTTGTATGAATATTGTAATGTGGTAT-AATATTGT
12720540 AATATTATAA--TTTTGTATGAATATTG-AATGTCGGTAT-ATATTGT
1 AATATTATAATTTTTTGTATGAATATTGTAATGT-GGTATAATATTGT
*
12720584 AATATTGTAATTTTTTGTATGAATATTGTAAT
1 AATATTATAATTTTTTGTATGAATATTGTAAT
12720616 TATTTTATAA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
44 16 0.23
45 9 0.13
46 31 0.45
47 13 0.19
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (47 bp):
AATATTATAATTTTTTGTATGAATATTGTAATGTGGTATAATATTGT
Found at i:12720715 original size:22 final size:21
Alignment explanation
Indices: 12720462--12720542 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 21
12720452 TAGATTAGAA
*
12720462 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTAT-AATT
12720484 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTATAATT
*
12720505 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
* *
12720523 TGTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
12720543 ATTATAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.06
19 14 0.26
20 13 0.24
21 8 0.15
22 16 0.30
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTATAATT
Found at i:12720725 original size:52 final size:52
Alignment explanation
Indices: 12720669--12720773 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
12720659 TTTTTGTATG
* *
12720669 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAAT
1 AATATTATAATTTTGTATGAATATTACAAATTTTTTGTATGAATATTGTAAT
* * *
12720721 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
1 AATATTATAATTTTGTATGAATATTACAAATTTTTTGTATGAATATTGTAAT
12720773 A
1 A
12720774 TTNNNNNNNN
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (52 bp):
AATATTATAATTTTGTATGAATATTACAAATTTTTTGTATGAATATTGTAAT
Found at i:12722952 original size:6 final size:6
Alignment explanation
Indices: 12722941--12722984 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
12722931 TCATGCACCG
* * *
12722941 GAGCCA GAGCCA GAGCCA GAGCCG GAGCCA GACCCA GACCCA GA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GA
12722985 ACTACATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (6 bp):
GAGCCA
Found at i:12722970 original size:24 final size:24
Alignment explanation
Indices: 12722938--12722984 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
12722928 GCATCATGCA
* *
12722938 CCGGAGCCAGAGCCAGAGCCAGAG
1 CCGGAGCCAGACCCAGACCCAGAG
12722962 CCGGAGCCAGACCCAGACCCAGA
1 CCGGAGCCAGACCCAGACCCAGA
12722985 ACTACATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.38, G:0.32, T:0.00
Consensus pattern (24 bp):
CCGGAGCCAGACCCAGACCCAGAG
Found at i:12726275 original size:22 final size:21
Alignment explanation
Indices: 12726236--12726280 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
12726226 TACCTAATTT
* *
12726236 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCATTCCTTC
12726257 TTTTCTTCTGCTTCATTCCTTC
1 TTTTCTTCT-CTTCATTCCTTC
12726279 TT
1 TT
12726281 ATTTCTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCATTCCTTC
Found at i:12726384 original size:27 final size:28
Alignment explanation
Indices: 12726346--12726421 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
12726336 AAAATAACAG
* *
12726346 CATTGACGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
12726373 CATTGGCGCCTCCCA-AGTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
12726400 CATTGGCACCTCCCAG-ATAGGC
1 CATTGGCGCCTCCCAGAATAGGC
12726422 CCCAATACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:12727169 original size:5 final size:5
Alignment explanation
Indices: 12727159--12727190 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
12727149 GATTCATTTG
12727159 TTTAT TTTAT TTTAT TTTAT TTTAT TATTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T
12727191 GTTTTTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:12738443 original size:26 final size:27
Alignment explanation
Indices: 12738413--12738463 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
12738403 GTGAAGAAAC
12738413 AAACTCAG-AAGC-AAAAACAGAAAATG
1 AAACT-AGCAAGCGAAAAACAGAAAATG
*
12738439 AAACTAGCAAGCGAATAACAGAAAA
1 AAACTAGCAAGCGAAAAACAGAAAA
12738464 GAGAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 2 0.09
26 9 0.41
27 11 0.50
ACGTcount: A:0.61, C:0.16, G:0.16, T:0.08
Consensus pattern (27 bp):
AAACTAGCAAGCGAAAAACAGAAAATG
Found at i:12747617 original size:1 final size:1
Alignment explanation
Indices: 12747611--12747648 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
12747601 AAGCAAGGAG
* *
12747611 TTTTTTTTTTCTTCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12747649 GCTTGGCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:12751886 original size:2 final size:2
Alignment explanation
Indices: 12751879--12751923 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
12751869 AAAAATACTA
*
12751879 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12751921 AT A
1 AT A
12751924 CGAGAATAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12752047 original size:12 final size:12
Alignment explanation
Indices: 12752030--12752054 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12752020 AAAACAAATT
12752030 AATATATAAAAA
1 AATATATAAAAA
12752042 AATATATAAAAA
1 AATATATAAAAA
12752054 A
1 A
12752055 CTAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:12753892 original size:130 final size:131
Alignment explanation
Indices: 12753520--12754439 Score: 1407
Period size: 130 Copynumber: 7.0 Consensus size: 131
12753510 TAGGATTGTC
*
12753520 GGCTTTAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACTGTCTTCGATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-CTGTCTTCGATCTGCTCCACTAC
* *
12753585 TGCTTTAGGGAGATAAGATCTAT-AATCTTCAACCTTCTCCGCTACTGCTTAGGGAGACAAGGCT
65 TGC-TTAGGGAGATAAGATCT-TCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCT
*
12753649 TAGT
128 TGGT
* * *
12753653 GGCTTAAATCTACTTCTCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-CTGTCTTCGATCTGCTCCACTAC
* * * * * * * *
12753718 TGCTTAGGGAGATAATATCTACATTCTTCAACATTTTCCACTGCTGCTCAGGGAGACAAGGCTTG
65 TGCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTG
12753783 GT
130 GT
* * **
12753785 AGCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGATT-CTGTCTTCGATCTATTCCACTACT
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCCTGTCTTCGATCTGCTCCACTACT
* * *
12753849 GCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTTCTCAGGGAGACAAGGCTTGG
66 GCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTGG
12753914 T
131 T
**
12753915 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT-CTGTCTTCGATCTATTCCACTACT
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCCTGTCTTCGATCTGCTCCACTACT
* * * * *
12753979 GCTTAGGGAGATAAGATCTTCAATCTTCAAACTTTTCCACTGCTGCTCAGGGAGACAAGGCTTGG
66 GCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTGG
12754044 T
131 T
12754045 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT-CTGTCTTCGATCTGCTCCACTACT
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCCTGTCTTCGATCTGCTCCACTACT
* *
12754109 GCTTAGGGAGACAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGGGACAAGGCTTGG
66 GCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTGG
12754174 T
131 T
* *
12754175 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAT
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-CTGTCTTCGATCTGCTCCACTAC
* *
12754240 TGCTTAGGGAGACAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAGGGCTTG
65 TGCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTG
12754305 GT
130 GT
* *
12754307 GGCCTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-CTGTCTTCGATCTGCTCCACTAC
* *
12754372 TGCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCACTACTACTCAGAGAGACAAGGCTTG
65 TGCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTG
12754437 GT
130 GT
12754439 G
1 G
12754440 TTTCACTGGT
Statistics
Matches: 731, Mismatches: 53, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
130 365 0.50
132 303 0.41
133 63 0.09
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (131 bp):
GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCCTGTCTTCGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTTCAATCTTCAACCTTCTCCGCTACTACTCAGGGAGACAAGGCTTGG
T
Found at i:12768598 original size:12 final size:12
Alignment explanation
Indices: 12768581--12768605 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12768571 AACGAGCAAC
12768581 ATAATATAAATG
1 ATAATATAAATG
12768593 ATAATATAAATG
1 ATAATATAAATG
12768605 A
1 A
12768606 AAGCACAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATATAAATG
Found at i:12768857 original size:2 final size:2
Alignment explanation
Indices: 12768850--12768894 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
12768840 AAAAATACTA
*
12768850 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12768892 AT A
1 AT A
12768895 CGAGAATAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12777283 original size:13 final size:13
Alignment explanation
Indices: 12777265--12777290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12777255 TATTATACTT
12777265 TAGAAATTAATTC
1 TAGAAATTAATTC
12777278 TAGAAATTAATTC
1 TAGAAATTAATTC
12777291 AAGTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TAGAAATTAATTC
Found at i:12778995 original size:41 final size:41
Alignment explanation
Indices: 12778910--12778995 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
12778900 TAGAAAATCC
*
12778910 TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTCG
1 TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTAG
* * *
12778951 TTTTCCTAATTATATAAGGAGTGGATTATAAATTATATTAG
1 TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTAG
12778992 TTTT
1 TTTT
12778996 TAGTTTTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (41 bp):
TTTTCCTAATTATATAAGGAGTAGATTATAAATTAAACTAG
Found at i:12780581 original size:25 final size:26
Alignment explanation
Indices: 12780530--12780583 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
12780520 AACACACCAA
12780530 TATCGCAGCAAAACTGCCAGTAATAG
1 TATCGCAGCAAAACTGCCAGTAATAG
* *
12780556 TATCGCAGCAAAGCTG-CAGTAGTAG
1 TATCGCAGCAAAACTGCCAGTAATAG
12780581 TAT
1 TAT
12780584 ACTTCCTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAACTGCCAGTAATAG
Found at i:12784902 original size:23 final size:24
Alignment explanation
Indices: 12784862--12784907 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12784852 CTCGATTCTC
12784862 AAATACACCAAGATATCG-TCTAT
1 AAATACACCAAGATATCGATCTAT
*
12784885 AAATACCACCACGA-ATCGATCTA
1 AAATA-CACCAAGATATCGATCTA
12784908 GGTAGGGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (24 bp):
AAATACACCAAGATATCGATCTAT
Found at i:12793862 original size:18 final size:18
Alignment explanation
Indices: 12793835--12793870 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12793825 CTCATTGTTG
12793835 CCATCCTGAACGAATCAA
1 CCATCCTGAACGAATCAA
*
12793853 CCATCTTGAACGAATCAA
1 CCATCCTGAACGAATCAA
12793871 TCTGCGGAAG
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:0.31, G:0.11, T:0.19
Consensus pattern (18 bp):
CCATCCTGAACGAATCAA
Found at i:12795848 original size:25 final size:23
Alignment explanation
Indices: 12795820--12795875 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
12795810 ANNNNNNNNA
* *
12795820 TAAAATAAATATTTATTTATATATG
1 TAAAATAAA-ATTTAATCATA-ATG
*
12795845 TAAAATTTAAATTTAATCATAATG
1 TAAAA-TAAAATTTAATCATAATG
12795869 TAAAATA
1 TAAAATA
12795876 TATAATAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 8 0.31
25 14 0.54
26 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAAATAAAATTTAATCATAATG
Found at i:12796080 original size:22 final size:22
Alignment explanation
Indices: 12796045--12796087 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12796035 TTACTTTTAG
* *
12796045 TTTTTTTTATTAATTTTTAATA
1 TTTTTATTAATAATTTTTAATA
12796067 TTTTTATTAATAATTTTTAAT
1 TTTTTATTAATAATTTTTAAT
12796088 TAAATGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTAATAATTTTTAATA
Found at i:12796626 original size:42 final size:42
Alignment explanation
Indices: 12796579--12796669 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
12796569 CTAACTTTAG
* * * *
12796579 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCA-A
1 ACCTTTAGCGACGCTTCTCCCAAAAACGCCGCTAAAAAT-ATA
*
12796621 ACCTTTAGCGACGCTTCTCGCAAAAACGCCGCTAAAAATATA
1 ACCTTTAGCGACGCTTCTCCCAAAAACGCCGCTAAAAATATA
12796663 ACCTTTA
1 ACCTTTA
12796670 AAAAAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (42 bp):
ACCTTTAGCGACGCTTCTCCCAAAAACGCCGCTAAAAATATA
Found at i:12797516 original size:24 final size:24
Alignment explanation
Indices: 12797487--12797540 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
12797477 TTGATGAAAG
* *
12797487 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAACACATACAGAA
* *
12797511 ATGAACCGTTCAACACATACAGAA
1 ATGAACTGTTAAACACATACAGAA
12797535 A-GAACT
1 ATGAACT
12797541 TACTTTTCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
ATGAACTGTTAAACACATACAGAA
Found at i:12801545 original size:41 final size:41
Alignment explanation
Indices: 12801483--12802320 Score: 1191
Period size: 41 Copynumber: 20.8 Consensus size: 41
12801473 AGATTTTATT
**
12801483 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* * * * ** * *
12801524 ATTAGCGGCGCTTTTCTAAAAATGCTGCTAAAGGCCCAAGA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* * **
12801565 ATTAGCAGTGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801606 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801647 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801688 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801729 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801770 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801811 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801852 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801893 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801934 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12801975 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* * * * ** * *
12802016 ATTAGCGGCGCTTTTCTAAAAATGCTGCTAAAGGCCCAAGA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* * **
12802057 ATTAGCAGTGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
12802098 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* * ** **
12802139 ATTAGCGGCGATTTTCCAAAAACGCCATTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* **
12802180 ATTGGCGGCGCTTT---TTAAA----G-----G-TACGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* **
12802208 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
* *
12802249 ATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGG-ATCGAGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTA-CGAGC
**
12802290 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAA
12802321 TGCTTAATTT
Statistics
Matches: 717, Mismatches: 66, Indels: 28
0.88 0.08 0.03
Matches are distributed among these distances:
28 18 0.03
29 1 0.00
31 3 0.00
35 1 0.00
38 3 0.00
40 1 0.00
41 690 0.96
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGC
Found at i:12802206 original size:28 final size:28
Alignment explanation
Indices: 12802166--12802222 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
12802156 AAAAACGCCA
* *
12802166 TTAAAGGCCCGAGCATTGGCGGCGCTTT
1 TTAAAGGCACGAGCATTAGCGGCGCTTT
*
12802194 TTAAAGGTACGAGCATTAGCGGCGCTTT
1 TTAAAGGCACGAGCATTAGCGGCGCTTT
12802222 T
1 T
12802223 CCAAAAACGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (28 bp):
TTAAAGGCACGAGCATTAGCGGCGCTTT
Found at i:12802240 original size:69 final size:69
Alignment explanation
Indices: 12802126--12802263 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
12802116 AAAACGCCGC
* * *
12802126 TAAAGGTACGAGCATTAGCGGCGATTTTCCAAAAACGCCATTAAAGGCCCGAGCATTGGCGGCGC
1 TAAAGGTACGAGCATTAGCGGCGATTTTCCAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCAC
12802191 TTTT
66 TTTT
* *
12802195 TAAAGGTACGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCAC
1 TAAAGGTACGAGCATTAGCGGCGATTTTCCAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCAC
12802260 TTTT
66 TTTT
12802264 CCAAAAACGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (69 bp):
TAAAGGTACGAGCATTAGCGGCGATTTTCCAAAAACGCCACTAAAGGCCCGAGCATTAGCGGCAC
TTTT
Found at i:12802281 original size:110 final size:110
Alignment explanation
Indices: 12802085--12802305 Score: 354
Period size: 110 Copynumber: 2.0 Consensus size: 110
12802075 AAAACGCCGC
*
12802085 TAAAGGTACGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGA
1 TAAAGGTACGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCACGAGCATTAGCGGCGA
* * *
12802150 TTTTCCAAAAACGCCATTAAAGGCCCGAGCATTGGCGGCGCTTTT
66 TTTTCCAAAAACGCCACTAAAGGACCGAGCATTAGCGGCGCTTTT
* *
12802195 TAAAGGTACGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGC-A
1 TAAAGGTACGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCACGAGCATTAGCGGCGA
* *
12802259 CTTTTCCAAAAACGCCGCTAAAGGATCGAGCATTAGCGGCGCTTTT
66 -TTTTCCAAAAACGCCACTAAAGGACCGAGCATTAGCGGCGCTTTT
12802305 T
1 T
12802306 CAAAAACGCC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 1 0.01
110 101 0.99
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (110 bp):
TAAAGGTACGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCACGAGCATTAGCGGCGA
TTTTCCAAAAACGCCACTAAAGGACCGAGCATTAGCGGCGCTTTT
Found at i:12802422 original size:40 final size:39
Alignment explanation
Indices: 12802291--12802422 Score: 115
Period size: 40 Copynumber: 3.4 Consensus size: 39
12802281 GGATCGAGCA
* * *
12802291 TTAGCGGCGCTTTTTCAAAAACGCCGCTAATGCTT-AATT
1 TTAGCGGCG-TTTTTCCAAAATGCCGCTAATGCTTGATTT
* * *
12802330 TTAGCGGCG-TTTTCCAAAATGCGCTCTAATGCTCGATCT
1 TTAGCGGCGTTTTTCCAAAATGC-CGCTAATGCTTGATTT
* * * **
12802369 GTAGCGACATTTTTGTAAAAGTGCCGCTAATGCTTGATTT
1 TTAGCGGCGTTTTTCCAAAA-TGCCGCTAATGCTTGATTT
*
12802409 TTAGTGGCGTTTTT
1 TTAGCGGCGTTTTT
12802423 TTATCCAAAC
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 11 0.15
38 9 0.13
39 17 0.24
40 31 0.44
41 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (39 bp):
TTAGCGGCGTTTTTCCAAAATGCCGCTAATGCTTGATTT
Found at i:12803313 original size:19 final size:19
Alignment explanation
Indices: 12803286--12803322 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12803276 TAGTAATACA
*
12803286 TTAACATATTATTAAAATT
1 TTAACATATTAATAAAATT
*
12803305 TTAATATATTAATAAAAT
1 TTAACATATTAATAAAAT
12803323 ATTATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAACATATTAATAAAATT
Found at i:12806275 original size:4 final size:4
Alignment explanation
Indices: 12806258--12806288 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
12806248 TTAATTGGTT
*
12806258 TAAA TAAT TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
12806289 TTTCTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:12808376 original size:38 final size:38
Alignment explanation
Indices: 12808325--12808404 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
12808315 TGTAACATGT
12808325 TGTACTAAAAAGATTGATGTTAGATATGCCACAATCTA
1 TGTACTAAAAAGATTGATGTTAGATATGCCACAATCTA
12808363 TGTACTAAAAAGATTGATGTTAGATATGCCACAATCTA
1 TGTACTAAAAAGATTGATGTTAGATATGCCACAATCTA
12808401 TGTA
1 TGTA
12808405 GTGGGATATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (38 bp):
TGTACTAAAAAGATTGATGTTAGATATGCCACAATCTA
Found at i:12812001 original size:40 final size:39
Alignment explanation
Indices: 12811957--12812095 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 39
12811947 ACACAACAGT
12811957 TTGGCACCCAATGCCTCATCGGATAATTCGAAGTAATAAA
1 TTGGCACCCAATGCCTCATCGGATAATTCGAAGT-ATAAA
* * * *
12811997 TTGGCACCCAGTGTCTCATCGGCTAAATCGAAG--TAAA
1 TTGGCACCCAATGCCTCATCGGATAATTCGAAGTATAAA
* * * *
12812034 TTGGCACCTAGTGCCTCATCGAATTAATTCGAAATAGTAAA
1 TTGGCACCCAATGCCTCATCGGA-TAATTCGAAGTA-TAAA
* *
12812075 TTGACACCCAATGTCTCATCG
1 TTGGCACCCAATGCCTCATCG
12812096 ACTCGAAGTC
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 23 0.28
38 8 0.10
40 29 0.36
41 21 0.26
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
TTGGCACCCAATGCCTCATCGGATAATTCGAAGTATAAA
Found at i:12812299 original size:24 final size:24
Alignment explanation
Indices: 12812254--12812300 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12812244 TATATATACC
12812254 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
12812278 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
12812301 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:12815278 original size:110 final size:112
Alignment explanation
Indices: 12815158--12815359 Score: 390
Period size: 110 Copynumber: 1.8 Consensus size: 112
12815148 TTTTTTTTTA
12815158 TAACATATTTCTAATTTAAAAAAAAAATAGATTTATACATATTTTATATTTACTATTTTTTATAT
1 TAACATATTTCTAATTTAAAAAAAAAATAGATTTATACATATTTTATATTTACTATTTTTTATAT
12815223 TTTTAATGA-TTTTTT-GGTTTTTTTGTACAAATTTTAAAAAAAATC
66 TTTTAATGATTTTTTTAGGTTTTTTTGTACAAATTTTAAAAAAAATC
12815268 TAACATATTTCTAATTTAAAAAAAAAATAGATTTATACATATTTTATATTTACTATTTTTTATAT
1 TAACATATTTCTAATTTAAAAAAAAAATAGATTTATACATATTTTATATTTACTATTTTTTATAT
12815333 TTTTAATGATTTTTTTAGGTTTTTTTG
66 TTTTAATGATTTTTTTAGGTTTTTTTG
12815360 CTGATGAAAT
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 74 0.82
111 6 0.07
112 10 0.11
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (112 bp):
TAACATATTTCTAATTTAAAAAAAAAATAGATTTATACATATTTTATATTTACTATTTTTTATAT
TTTTAATGATTTTTTTAGGTTTTTTTGTACAAATTTTAAAAAAAATC
Found at i:12836407 original size:4 final size:4
Alignment explanation
Indices: 12836398--12838419 Score: 4026
Period size: 4 Copynumber: 505.5 Consensus size: 4
12836388 ACTAAAATCT
12836398 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836446 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836494 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836542 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836590 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836638 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836686 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836734 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836782 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836830 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836878 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836926 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12836974 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837022 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837070 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837118 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837166 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837214 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837262 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837310 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837358 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837406 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837454 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837502 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837550 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837598 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837646 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837694 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837742 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837790 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837838 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837886 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837934 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12837982 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838030 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838078 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838126 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838174 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838222 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838270 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
12838318 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
12838366 AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12838414 ATAC AT
1 ATAC AT
12838420 CCATCCATCC
Statistics
Matches: 2016, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 2016 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:12838424 original size:4 final size:4
Alignment explanation
Indices: 12838417--12838476 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
12838407 TACATACATA
12838417 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
12838465 CATC CATC CATC
1 CATC CATC CATC
12838477 TTATGCATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:12838642 original size:128 final size:128
Alignment explanation
Indices: 12838504--12838764 Score: 459
Period size: 128 Copynumber: 2.0 Consensus size: 128
12838494 CATTCATATT
* *
12838504 CATACTTAATAAAGTTAGTTACATATCATGCATATATATTGAAGTCTGTTACATGCATATCATGA
1 CATACTTAATAAAGTTAGTTACATATCATGCATATATATTAAAGTCTATTACATGCATATCATGA
*
12838569 CATACATACATATATAAAATATTGACATATCATACATACATTACATGCATATTACATATCATA
66 CATACATACATATATAAAATATTGACATATCATACATACATTACATGCATATCACATATCATA
*
12838632 CATACTTAATAAAGTTAGTTACATATCATGTATATATATTAAAGTCTATTACATGCATATCATGA
1 CATACTTAATAAAGTTAGTTACATATCATGCATATATATTAAAGTCTATTACATGCATATCATGA
* * *
12838697 CATACATACATATATAAAATGTTGACATATCTTACATACATTAGATGCATATCACATATCATA
66 CATACATACATATATAAAATATTGACATATCATACATACATTACATGCATATCACATATCATA
12838760 CATAC
1 CATAC
12838765 ACATAATCAA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (128 bp):
CATACTTAATAAAGTTAGTTACATATCATGCATATATATTAAAGTCTATTACATGCATATCATGA
CATACATACATATATAAAATATTGACATATCATACATACATTACATGCATATCACATATCATA
Found at i:12842292 original size:26 final size:26
Alignment explanation
Indices: 12842262--12842314 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
12842252 TATAGCAAGG
*
12842262 TTTTTATT-TAAA-AAAAACTATATA
1 TTTTTTTTATAAATAAAAACTATATA
*
12842286 TTTTTTTTATAAATAAAAATTATATA
1 TTTTTTTTATAAATAAAAACTATATA
12842312 TTT
1 TTT
12842315 ACTTTGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
26 14 0.56
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTTTTTATAAATAAAAACTATATA
Found at i:12845335 original size:42 final size:42
Alignment explanation
Indices: 12845281--12845420 Score: 192
Period size: 42 Copynumber: 3.3 Consensus size: 42
12845271 TAGATAAAAC
12845281 ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
1 ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
* * * *
12845323 ATTTGTAGATAAAATTGCAACTAGGTGGTGGATGCACAACAT
1 ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
* * * *
12845365 ATTTGCAAATAAAACTG-TCATTGGGTTATGGATGCACAACAT
1 ATTTGCAGATAAAATTGCT-ACTGGGTTGTGGATGCACAACAT
12845407 ATTTGCAGATAAAA
1 ATTTGCAGATAAAA
12845421 CGGCCACTCT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (42 bp):
ATTTGCAGATAAAATTGCTACTGGGTTGTGGATGCACAACAT
Found at i:12847372 original size:91 final size:88
Alignment explanation
Indices: 12847198--12847417 Score: 225
Period size: 91 Copynumber: 2.5 Consensus size: 88
12847188 CACTCCATTT
* * * *** *
12847198 TGTGGATGAACCACTAGTGTTGCAGGTTAATACGCTGTTAGTAGTTATGAATACACAACTGGTTT
1 TGTGGATAAACCACTAGTGTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGTTT
* *
12847263 GCAGATAATAATTGCCAGT-ATAAAA
66 GCAGATAATAACTACCAGTGAT---A
* *
12847288 TGTGGATAAACCACTAGTGCTTGCAAGTTAATACACTACCAGTAGTTGTGAATTCACAACAGGTT
1 TGTGGATAAACCACTAGTG-TTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGTT
*
12847353 TGCAGATAA-AAGCTACCAGTGATT
65 TGCAGATAATAA-CTACCAGTGATA
* *
12847377 TATGGATAAACCACCAGTGTTTGC-AGTTAA-A-ACTACCAGTA
1 TGTGGATAAACCACTAGTG-TTGCAAGTTAATACACTACCAGTA
12847418 CTTCCTCCTT
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
86 10 0.09
87 1 0.01
88 6 0.05
89 21 0.19
90 20 0.18
91 52 0.46
92 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (88 bp):
TGTGGATAAACCACTAGTGTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGTTT
GCAGATAATAACTACCAGTGATA
Found at i:12859156 original size:29 final size:30
Alignment explanation
Indices: 12859121--12859178 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
12859111 GTATTAAAAA
12859121 ATTAAATAAATAAAATAATAT-ATA-AAATT
1 ATTAAAT-AATAAAATAATATCATATAAATT
*
12859150 ATTAAATATTAAAATAATATCATATAAAT
1 ATTAAATAATAAAATAATATCATATAAAT
12859179 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 10 0.38
30 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
ATTAAATAATAAAATAATATCATATAAATT
Found at i:12866215 original size:114 final size:114
Alignment explanation
Indices: 12866015--12866242 Score: 438
Period size: 114 Copynumber: 2.0 Consensus size: 114
12866005 TGGATGGAAG
12866015 TGCAAATAGCTCTATCATAGATAGTATCTGAACAGTTAGGGAATTCCCAAACATATTTCCCGAAG
1 TGCAAATAGCTCTATCATAGATAGTATCTGAACAGTTAGGGAATTCCCAAACATATTTCCCGAAG
*
12866080 AGCTACTAGGGTTACCTCCAGATCGTAAGGTAGAATTCAGAACTAAACT
66 AGCTACCAGGGTTACCTCCAGATCGTAAGGTAGAATTCAGAACTAAACT
12866129 TGCAAATAGCTCTATCATAGATAGTATCTGAACAGTTAGGGAATTCCCAAACATATTTCCCGAAG
1 TGCAAATAGCTCTATCATAGATAGTATCTGAACAGTTAGGGAATTCCCAAACATATTTCCCGAAG
*
12866194 AGCTACCAGGGTTACCTCCAGATCGTGAGGTAGAATTCAGAACTAAACT
66 AGCTACCAGGGTTACCTCCAGATCGTAAGGTAGAATTCAGAACTAAACT
12866243 ATCGCTATGA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (114 bp):
TGCAAATAGCTCTATCATAGATAGTATCTGAACAGTTAGGGAATTCCCAAACATATTTCCCGAAG
AGCTACCAGGGTTACCTCCAGATCGTAAGGTAGAATTCAGAACTAAACT
Found at i:12867086 original size:170 final size:170
Alignment explanation
Indices: 12866804--12867148 Score: 636
Period size: 170 Copynumber: 2.0 Consensus size: 170
12866794 AAAGAGTTTG
* *
12866804 TGGTGTACAATAATGCATCTTACATTAAAATTGGATGTGTGTATGCAAGGCGAAAAAGTAGTTGT
1 TGGTGTACAATAATGCATCTTACACTAAAATTGGATGTGTGTATGCAAGGCGAAAAAGTAATTGT
*
12866869 TTACGCATTGAGGCAGTTGAAATAGCATGAATGCAACTATCTAACACATGACTTGGAGTTGGCAT
66 TTACGCATTGAGGCAGTTGAAATAGCATGAATACAACTATCTAACACATGACTTGGAGTTGGCAT
12866934 TAGTGGTATTCGCAATAAAAATCTAGATACACTACTTATA
131 TAGTGGTATTCGCAATAAAAATCTAGATACACTACTTATA
*
12866974 TGGTGTACAATAATGCATCTTACACTAACATTGGATGTGTGTATGCAAGGCGAAAAAGTAATTGT
1 TGGTGTACAATAATGCATCTTACACTAAAATTGGATGTGTGTATGCAAGGCGAAAAAGTAATTGT
*
12867039 TTACGCGTTGAGGCAGTTGAAATAGCATGAATACAACTATCTAACACATGACTTGGAGTTGGCAT
66 TTACGCATTGAGGCAGTTGAAATAGCATGAATACAACTATCTAACACATGACTTGGAGTTGGCAT
*
12867104 TAGTGGTATTCGCAATAAAAATCTAGATACGCTACTTATA
131 TAGTGGTATTCGCAATAAAAATCTAGATACACTACTTATA
12867144 TGGTG
1 TGGTG
12867149 AGAGGTGCTA
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 169 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (170 bp):
TGGTGTACAATAATGCATCTTACACTAAAATTGGATGTGTGTATGCAAGGCGAAAAAGTAATTGT
TTACGCATTGAGGCAGTTGAAATAGCATGAATACAACTATCTAACACATGACTTGGAGTTGGCAT
TAGTGGTATTCGCAATAAAAATCTAGATACACTACTTATA
Found at i:12869720 original size:23 final size:23
Alignment explanation
Indices: 12869686--12869738 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
12869676 AGTGTTATTG
12869686 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
*
12869709 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
12869732 ATCAGTG
1 ATCAGTG
12869739 TGGCACTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGATAGCTTCGGCTACAT
Found at i:12878637 original size:17 final size:17
Alignment explanation
Indices: 12878615--12878661 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
12878605 TAATTAGAAT
12878615 TTTCTTTCCTCTCCCTA
1 TTTCTTTCCTCTCCCTA
* * *
12878632 TTTCTTCCCTCT-CTTT
1 TTTCTTTCCTCTCCCTA
12878648 TTTCTTTCCTCTCC
1 TTTCTTTCCTCTCC
12878662 TTTACATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCTTTCCTCTCCCTA
Found at i:12878664 original size:17 final size:17
Alignment explanation
Indices: 12878614--12878664 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
12878604 CTAATTAGAA
*
12878614 TTTTCTTTCCTCTCCCT
1 TTTTCTTTCCTCTCCTT
* *
12878631 ATTTCTTCCCTCT-CTT
1 TTTTCTTTCCTCTCCTT
12878647 TTTTCTTTCCTCTCCTT
1 TTTTCTTTCCTCTCCTT
12878664 T
1 T
12878665 ACATCATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCTTTCCTCTCCTT
Found at i:12885764 original size:5 final size:5
Alignment explanation
Indices: 12885754--12885778 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12885744 GATATTTGAA
12885754 ATTGC ATTGC ATTGC ATTGC ATTGC
1 ATTGC ATTGC ATTGC ATTGC ATTGC
12885779 CTTCATAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
ATTGC
Done.