Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 305 of 310
Found at i:100555376 original size:34 final size:34
Alignment explanation
Indices: 100555333--100555400 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
100555323 ATAGGCAAAT
*
100555333 TACAAGAGTAATTGAA-TCCTAATAAAACTCTTTA
1 TACAAGAGTAATTGAACT-CTAACAAAACTCTTTA
100555367 TACAAGAGTAATTGAACTCTAACAAAACTCTTTA
1 TACAAGAGTAATTGAACTCTAACAAAACTCTTTA
100555401 AAATTATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (34 bp):
TACAAGAGTAATTGAACTCTAACAAAACTCTTTA
Found at i:100569847 original size:19 final size:19
Alignment explanation
Indices: 100569823--100569859 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
100569813 TAAATGAACA
*
100569823 AATAATTACAATAATAATT
1 AATAATAACAATAATAATT
*
100569842 AATAATAACAGTAATAAT
1 AATAATAACAATAATAAT
100569860 ATCAAATTAT
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:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AATAATAACAATAATAATT
Found at i:100570978 original size:23 final size:22
Alignment explanation
Indices: 100570930--100570980 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
100570920 CCTCTTTCCT
* ***
100570930 TTTTTATATTTTGGGCTTGTTG
1 TTTTTGTATTTTGGGCTTGAAA
100570952 TTTTTGTATTATTGGGCTTGAAA
1 TTTTTGTATT-TTGGGCTTGAAA
100570975 TTTTTG
1 TTTTTG
100570981 GGTTTGGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.14, C:0.04, G:0.22, T:0.61
Consensus pattern (22 bp):
TTTTTGTATTTTGGGCTTGAAA
Found at i:100573632 original size:72 final size:70
Alignment explanation
Indices: 100573550--100573716 Score: 196
Period size: 72 Copynumber: 2.4 Consensus size: 70
100573540 ATTGAAGTAT
* * * *
100573550 TTAAAA-AATAAATAAATAAATAAATTGATAAAACCAATATGAATAATATCAAATTTAA-AATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAA--T
*
100573613 CTTTAAAA
64 -TTGAAAA
* * * *
100573621 TTAAAAGAATAAATAAGTGAATAAATAGATAAAACAAATATAAACAATATTAAATTTAAGCATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAATTT
100573686 GAAAA
66 GAAAA
*
100573691 GTAAAAGAAT-AATAAATAAATAAATA
1 TTAAAAGAATAAATAAATAAATAAATA
100573717 AAGTAAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
69 14 0.17
70 15 0.18
71 7 0.09
72 45 0.55
73 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (70 bp):
TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAATTT
GAAAA
Found at i:100573711 original size:65 final size:65
Alignment explanation
Indices: 100573640--100573776 Score: 184
Period size: 65 Copynumber: 2.1 Consensus size: 65
100573630 TAAATAAGTG
* *
100573640 AATAAATAGATAAAACAAATATAAACAATATTAAATTTAAGCATTTGAAAAGTAAAAGAATAATA
1 AATAAATAAATAAAACAAATATAAACAATATTAAATTTAAACATTTGAAAAGTAAAAGAATAATA
** ** * * * *
100573705 AATAAATAAATAAAGTAAATATTCATAATATTAAATTTAAATATTTTAAAAGTAAAAGAATGATA
1 AATAAATAAATAAAACAAATATAAACAATATTAAATTTAAACATTTGAAAAGTAAAAGAATAATA
100573770 AATAAAT
1 AATAAAT
100573777 GAGTAAATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (65 bp):
AATAAATAAATAAAACAAATATAAACAATATTAAATTTAAACATTTGAAAAGTAAAAGAATAATA
Found at i:100574701 original size:20 final size:20
Alignment explanation
Indices: 100574676--100574715 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100574666 ATTTCTATTC
100574676 TGTTTTT-TTATTGATATTTG
1 TGTTTTTCTTATTG-TATTTG
*
100574696 TGTTTTTCTTTTTGTATTTG
1 TGTTTTTCTTATTGTATTTG
100574716 ATTGTCTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TGTTTTTCTTATTGTATTTG
Found at i:100577480 original size:28 final size:28
Alignment explanation
Indices: 100577449--100577523 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
100577439 TGATTGAATT
*
100577449 TATATTTTAAAAATATAAAAATATTCAA
1 TATATTTTAAAAATATAAAAATATTAAA
* *
100577477 TATATATTTAAAAAT-TAAGAATTTTAAA
1 TATAT-TTTAAAAATATAAAAATATTAAA
* *
100577505 AATAATTTAAAAATA-AAAA
1 TATATTTTAAAAATATAAAA
100577524 TAATTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 12 0.31
28 18 0.46
29 9 0.23
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (28 bp):
TATATTTTAAAAATATAAAAATATTAAA
Found at i:100577517 original size:27 final size:29
Alignment explanation
Indices: 100577449--100577523 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 29
100577439 TGATTGAATT
* *
100577449 TATATTTTAAAAATATAAAAATATTCAATA
1 TATA-TTTAAAAATATAAAAATATTAAAAA
* *
100577479 TATATTTAAAAAT-TAAGAATTTTAAAAA
1 TATATTTAAAAATATAAAAATATTAAAAA
100577507 TA-ATTTAAAAATA-AAAA
1 TATATTTAAAAATATAAAA
100577524 TAATTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 13 0.33
28 13 0.33
29 9 0.23
30 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (29 bp):
TATATTTAAAAATATAAAAATATTAAAAA
Found at i:100588578 original size:5 final size:5
Alignment explanation
Indices: 100588568--100588595 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
100588558 ATTGTAATAT
100588568 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
100588596 CATACATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:100590943 original size:17 final size:17
Alignment explanation
Indices: 100590921--100590954 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100590911 ATCCACTAAT
*
100590921 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100590938 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100590955 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100595582 original size:17 final size:17
Alignment explanation
Indices: 100595560--100595593 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100595550 ATCCACTAAT
*
100595560 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100595577 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100595594 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100599954 original size:22 final size:22
Alignment explanation
Indices: 100599911--100599951 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
100599901 AAATGTTATA
* *
100599911 TATATATATATTAACTTTAATG
1 TATATATATAATAACTTAAATG
100599933 TATATATATAATAA-TTAAA
1 TATATATATAATAACTTAAA
100599952 ATGAATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TATATATATAATAACTTAAATG
Found at i:100599958 original size:26 final size:28
Alignment explanation
Indices: 100599902--100599962 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 28
100599892 AATAAATATA
** *
100599902 AATGT-TATATATATATATATTAACTTT
1 AATGTATATATATATATATATTAAAATG
100599929 AATGTATATATATA-ATA-ATTAAAATG
1 AATGTATATATATATATATATTAAAATG
100599955 AATGTATA
1 AATGTATA
100599963 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 14 0.47
27 8 0.27
28 8 0.27
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (28 bp):
AATGTATATATATATATATATTAAAATG
Found at i:100600477 original size:18 final size:19
Alignment explanation
Indices: 100600441--100600481 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
100600431 AGAATAAGCA
100600441 AAATATAATGTGAAAATTG
1 AAATATAATGTGAAAATTG
*
100600460 AAATTTAATGTG-AAATTG
1 AAATATAATGTGAAAATTG
100600478 AAAT
1 AAAT
100600482 GTGTAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (19 bp):
AAATATAATGTGAAAATTG
Found at i:100608345 original size:387 final size:387
Alignment explanation
Indices: 100607631--100608408 Score: 1556
Period size: 387 Copynumber: 2.0 Consensus size: 387
100607621 CTTTTCAAGT
100607631 AAATTTCGGGGACGAAATTTAGTTAGTTGGGGAGAATTGTAACGACCCGATAGTTAGGAGTGCCA
1 AAATTTCGGGGACGAAATTTAGTTAGTTGGGGAGAATTGTAACGACCCGATAGTTAGGAGTGCCA
100607696 GAAAACATATTTTTGAGACTCTATTTTTGTAAATAGACTCGTAAATATTTAATTAAATATTTACA
66 GAAAACATATTTTTGAGACTCTATTTTTGTAAATAGACTCGTAAATATTTAATTAAATATTTACA
100607761 AAGTTAGTTGGGTAGCTAATTAATTTTTGGACTAGTGAATTTTGTGAAATTAGGAGTTATTAAGG
131 AAGTTAGTTGGGTAGCTAATTAATTTTTGGACTAGTGAATTTTGTGAAATTAGGAGTTATTAAGG
100607826 TACAGGAACTAAATCGCATAAGGGTTAAAAGTTGAGTTATAAATTGAAATAAACTAAAGGGGATA
196 TACAGGAACTAAATCGCATAAGGGTTAAAAGTTGAGTTATAAATTGAAATAAACTAAAGGGGATA
100607891 AAGTAGCAACTGTGCCACTTAATTGACAATGGTGTATAGGTGGCCGGCCATGGGATAAATGAAAT
261 AAGTAGCAACTGTGCCACTTAATTGACAATGGTGTATAGGTGGCCGGCCATGGGATAAATGAAAT
100607956 GCATGTGCTTAAAATAAATATATATTATATATATTAACTTTAATGTATATATATAATAATTA
326 GCATGTGCTTAAAATAAATATATATTATATATATTAACTTTAATGTATATATATAATAATTA
100608018 AAATTTCGGGGACGAAATTTAGTTAGTTGGGGAGAATTGTAACGACCCGATAGTTAGGAGTGCCA
1 AAATTTCGGGGACGAAATTTAGTTAGTTGGGGAGAATTGTAACGACCCGATAGTTAGGAGTGCCA
100608083 GAAAACATATTTTTGAGACTCTATTTTTGTAAATAGACTCGTAAATATTTAATTAAATATTTACA
66 GAAAACATATTTTTGAGACTCTATTTTTGTAAATAGACTCGTAAATATTTAATTAAATATTTACA
100608148 AAGTTAGTTGGGTAGCTAATTAATTTTTGGACTAGTGAATTTTGTGAAATTAGGAGTTATTAAGG
131 AAGTTAGTTGGGTAGCTAATTAATTTTTGGACTAGTGAATTTTGTGAAATTAGGAGTTATTAAGG
100608213 TACAGGAACTAAATCGCATAAGGGTTAAAAGTTGAGTTATAAATTGAAATAAACTAAAGGGGATA
196 TACAGGAACTAAATCGCATAAGGGTTAAAAGTTGAGTTATAAATTGAAATAAACTAAAGGGGATA
100608278 AAGTAGCAACTGTGCCACTTAATTGACAATGGTGTATAGGTGGCCGGCCATGGGATAAATGAAAT
261 AAGTAGCAACTGTGCCACTTAATTGACAATGGTGTATAGGTGGCCGGCCATGGGATAAATGAAAT
100608343 GCATGTGCTTAAAATAAATATATATTATATATATTAACTTTAATGTATATATATAATAATTA
326 GCATGTGCTTAAAATAAATATATATTATATATATTAACTTTAATGTATATATATAATAATTA
100608405 AAAT
1 AAAT
100608409 GAATGTAAAA
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
387 391 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (387 bp):
AAATTTCGGGGACGAAATTTAGTTAGTTGGGGAGAATTGTAACGACCCGATAGTTAGGAGTGCCA
GAAAACATATTTTTGAGACTCTATTTTTGTAAATAGACTCGTAAATATTTAATTAAATATTTACA
AAGTTAGTTGGGTAGCTAATTAATTTTTGGACTAGTGAATTTTGTGAAATTAGGAGTTATTAAGG
TACAGGAACTAAATCGCATAAGGGTTAAAAGTTGAGTTATAAATTGAAATAAACTAAAGGGGATA
AAGTAGCAACTGTGCCACTTAATTGACAATGGTGTATAGGTGGCCGGCCATGGGATAAATGAAAT
GCATGTGCTTAAAATAAATATATATTATATATATTAACTTTAATGTATATATATAATAATTA
Found at i:100612295 original size:35 final size:36
Alignment explanation
Indices: 100612240--100612315 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
100612230 AGGTAAGTTC
* *
100612240 ATATAGTGTAATTATGTTTAAGTCCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
*
100612276 ATATTGTG-AATTATGTTTAAATGCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
100612311 ATATT
1 ATATT
100612316 TTTCCAGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 30 0.81
36 7 0.19
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (36 bp):
ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
Found at i:100614426 original size:21 final size:21
Alignment explanation
Indices: 100614402--100614450 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
100614392 TGGGTGGATT
*
100614402 AACTCTTATGAGCTTCTGTTC
1 AACTCTTACGAGCTTCTGTTC
*
100614423 AACTCTTACGAGCTTTTGTTC
1 AACTCTTACGAGCTTCTGTTC
*
100614444 AGCTCTT
1 AACTCTT
100614451 TCAAGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
AACTCTTACGAGCTTCTGTTC
Found at i:100614460 original size:21 final size:21
Alignment explanation
Indices: 100614402--100614463 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
100614392 TGGGTGGATT
** *
100614402 AACTCTTATGAGCTTCTGTTC
1 AACTCTTACAAGCTTTTGTTC
*
100614423 AACTCTTACGAGCTTTTGTTC
1 AACTCTTACAAGCTTTTGTTC
* * *
100614444 AGCTCTTTCAAGTTTTTGTT
1 AACTCTTACAAGCTTTTGTT
100614464 GGCATTTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (21 bp):
AACTCTTACAAGCTTTTGTTC
Found at i:100618913 original size:39 final size:38
Alignment explanation
Indices: 100618824--100618915 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
100618814 TTTAAGTCTA
* * *
100618824 TAATTATGTCATAATTTGAACATCATTAATATGAGTTT
1 TAATTATGTCATAGTCTGAACATCATTAATAAGAGTTT
* * *
100618862 TAATCATGTCATAGTCTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAGTCTGAACATCATTAATAAGAG-TTT
100618901 TAATTATGTCATAGT
1 TAATTATGTCATAGT
100618916 TTAGGACATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 29 0.63
39 17 0.37
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (38 bp):
TAATTATGTCATAGTCTGAACATCATTAATAAGAGTTT
Found at i:100618929 original size:39 final size:38
Alignment explanation
Indices: 100618824--100618968 Score: 134
Period size: 39 Copynumber: 3.8 Consensus size: 38
100618814 TTTAAGTCTA
* * *
100618824 TAATTATGTCATAATTTGAACATCATTAATATGAGTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
* * *
100618862 TAATCATGTCATAGTCTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAG-TTT
* *
100618901 TAATTATGTCATAGTTTAGGACAT-TTTAAATATA-TGTTT
1 TAATTATGTCATAGTTT-GAACATCTTT-AATA-AGAGTTT
* *
100618940 TAAATATGTCCTAGTTT-AGACATCTTTAA
1 TAATTATGTCATAGTTTGA-ACATCTTTAA
100618969 CACAAGTCTT
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
38 35 0.40
39 42 0.48
40 10 0.11
41 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (38 bp):
TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
Found at i:100618949 original size:78 final size:77
Alignment explanation
Indices: 100618824--100618968 Score: 172
Period size: 78 Copynumber: 1.9 Consensus size: 77
100618814 TTTAAGTCTA
100618824 TAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATCATGTCATAGTCTGA-ACATCTT
1 TAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATCATGTCATAGT-TGAGACATCTT
100618888 TAATAAGGGTTTT
65 TAATAAGGGTTTT
* * * * *
100618901 TAATTATGTCATAGTTTAGGACAT-TTTAAATAT-ATGTTTTAAAT-ATGTCCTAGTTTAGACAT
1 TAATTATGTCATAATTT-GAACATCATT-AATATGA-GTTTT-AATCATGTCATAGTTGAGACAT
100618963 CTTTAA
62 CTTTAA
100618969 CACAAGTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
77 21 0.36
78 34 0.59
79 3 0.05
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (77 bp):
TAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATCATGTCATAGTTGAGACATCTTT
AATAAGGGTTTT
Found at i:100624704 original size:79 final size:82
Alignment explanation
Indices: 100624593--100624777 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
100624583 GCTACTCGTT
* *
100624593 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
100624656 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
100624673 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
100624736 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
100624753 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
100624778 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:100624777 original size:40 final size:40
Alignment explanation
Indices: 100624574--100624777 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
100624564 CGGAATTTAA
** *
100624574 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
100624614 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
100624654 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
100624693 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
100624733 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
100624773 CCGGA
1 CCGGA
100624778 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:100632678 original size:79 final size:82
Alignment explanation
Indices: 100632567--100632751 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
100632557 GCTACTCGTT
* *
100632567 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
100632630 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
100632647 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
100632710 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
100632727 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
100632752 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:100632751 original size:40 final size:40
Alignment explanation
Indices: 100632548--100632751 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
100632538 CGGAATTTAA
** *
100632548 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
100632588 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
100632628 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
100632667 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
100632707 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
100632747 CCGGA
1 CCGGA
100632752 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:100635460 original size:584 final size:584
Alignment explanation
Indices: 100634352--100635520 Score: 2338
Period size: 584 Copynumber: 2.0 Consensus size: 584
100634342 CTGTCACATG
100634352 ACAGCTTCAACTTTTCCTTACTAAAAATTATTTATCTCTTAGTACGAAATTTGGATGATGTTTCC
1 ACAGCTTCAACTTTTCCTTACTAAAAATTATTTATCTCTTAGTACGAAATTTGGATGATGTTTCC
100634417 GTTTATTTCTATTGAAAATAAACTAATTAAAAATTTAAACGTATAAATTTAAGCCCCTAATTATT
66 GTTTATTTCTATTGAAAATAAACTAATTAAAAATTTAAACGTATAAATTTAAGCCCCTAATTATT
100634482 TTTTTTTACAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCTGAAACCATTCTGACGTT
131 TTTTTTTACAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCTGAAACCATTCTGACGTT
100634547 GTCTCACAAAATTCATTATATCTCATAACTTACAATTTCATTGCTTACACTGTTTCTTCCATGAA
196 GTCTCACAAAATTCATTATATCTCATAACTTACAATTTCATTGCTTACACTGTTTCTTCCATGAA
100634612 AAACTAGACTCAATAAACTTTAATTTCATATTTTATTCAACCTCTAAATCAATTTACAGTGTTTT
261 AAACTAGACTCAATAAACTTTAATTTCATATTTTATTCAACCTCTAAATCAATTTACAGTGTTTT
100634677 TGATGATTTTTCAAAGTTAGACTATTGCTAATGTCCAAAACTATTTTAGTGCAGAACGTTGATTT
326 TGATGATTTTTCAAAGTTAGACTATTGCTAATGTCCAAAACTATTTTAGTGCAGAACGTTGATTT
100634742 CCAAGTTTATAACACCCTTATTTCCTTTCTCTACAGTTTTTTGCATCATTTTCTCTTATTTCTCG
391 CCAAGTTTATAACACCCTTATTTCCTTTCTCTACAGTTTTTTGCATCATTTTCTCTTATTTCTCG
100634807 ACAGCAAGCAATTTCAACTTTTCTCCAAATCCTATTTTCTACATTTCGGGTACACACTTGGTATC
456 ACAGCAAGCAATTTCAACTTTTCTCCAAATCCTATTTTCTACATTTCGGGTACACACTTGGTATC
100634872 GATTCATTGTGCAAAGTAACCCGAGCCTTCAAAAACCTATATTTGACCAATATATCCCTTAATT
521 GATTCATTGTGCAAAGTAACCCGAGCCTTCAAAAACCTATATTTGACCAATATATCCCTTAATT
100634936 ACAGCTTCAACTTTTCCTTACTAAAAATTATTTATCTCTTAGTACGAAATTTGGATGATGTTTCC
1 ACAGCTTCAACTTTTCCTTACTAAAAATTATTTATCTCTTAGTACGAAATTTGGATGATGTTTCC
100635001 GTTTATTTCTATTGAAAATAAACTAATTAAAAATTTAAACGTATAAATTTAAGCCCCTAATTATT
66 GTTTATTTCTATTGAAAATAAACTAATTAAAAATTTAAACGTATAAATTTAAGCCCCTAATTATT
100635066 TTTTTTTACAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCTGAAACCATTCTGACGTT
131 TTTTTTTACAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCTGAAACCATTCTGACGTT
100635131 GTCTCACAAAATTCATTATATCTCATAACTTACAATTTCATTGCTTACACTGTTTCTTCCATGAA
196 GTCTCACAAAATTCATTATATCTCATAACTTACAATTTCATTGCTTACACTGTTTCTTCCATGAA
100635196 AAACTAGACTCAATAAACTTTAATTTCATATTTTATTCAACCTCTAAATCAATTTACAGTGTTTT
261 AAACTAGACTCAATAAACTTTAATTTCATATTTTATTCAACCTCTAAATCAATTTACAGTGTTTT
100635261 TGATGATTTTTCAAAGTTAGACTATTGCTAATGTCCAAAACTATTTTAGTGCAGAACGTTGATTT
326 TGATGATTTTTCAAAGTTAGACTATTGCTAATGTCCAAAACTATTTTAGTGCAGAACGTTGATTT
100635326 CCAAGTTTATAACACCCTTATTTCCTTTCTCTACAGTTTTTTGCATCATTTTCTCTTATTTCTCG
391 CCAAGTTTATAACACCCTTATTTCCTTTCTCTACAGTTTTTTGCATCATTTTCTCTTATTTCTCG
100635391 ACAGCAAGCAATTTCAACTTTTCTCCAAATCCTATTTTCTACATTTCGGGTACACACTTGGTATC
456 ACAGCAAGCAATTTCAACTTTTCTCCAAATCCTATTTTCTACATTTCGGGTACACACTTGGTATC
100635456 GATTCATTGTGCAAAGTAACCCGAGCCTTCAAAAACCTATATTTGACCAATATATCCCTTAATT
521 GATTCATTGTGCAAAGTAACCCGAGCCTTCAAAAACCTATATTTGACCAATATATCCCTTAATT
100635520 A
1 A
100635521 ATCACTTGAT
Statistics
Matches: 585, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
584 585 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (584 bp):
ACAGCTTCAACTTTTCCTTACTAAAAATTATTTATCTCTTAGTACGAAATTTGGATGATGTTTCC
GTTTATTTCTATTGAAAATAAACTAATTAAAAATTTAAACGTATAAATTTAAGCCCCTAATTATT
TTTTTTTACAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCTGAAACCATTCTGACGTT
GTCTCACAAAATTCATTATATCTCATAACTTACAATTTCATTGCTTACACTGTTTCTTCCATGAA
AAACTAGACTCAATAAACTTTAATTTCATATTTTATTCAACCTCTAAATCAATTTACAGTGTTTT
TGATGATTTTTCAAAGTTAGACTATTGCTAATGTCCAAAACTATTTTAGTGCAGAACGTTGATTT
CCAAGTTTATAACACCCTTATTTCCTTTCTCTACAGTTTTTTGCATCATTTTCTCTTATTTCTCG
ACAGCAAGCAATTTCAACTTTTCTCCAAATCCTATTTTCTACATTTCGGGTACACACTTGGTATC
GATTCATTGTGCAAAGTAACCCGAGCCTTCAAAAACCTATATTTGACCAATATATCCCTTAATT
Found at i:100639921 original size:38 final size:39
Alignment explanation
Indices: 100639863--100639952 Score: 128
Period size: 38 Copynumber: 2.3 Consensus size: 39
100639853 TTTAAGTCTA
* *
100639863 TAATTATGTCATAATTTGAACATCATTAATATGAG-TTT
1 TAATTATGTCATAATCTGAACATCATTAATAAGAGTTTT
* * *
100639901 TAATCATGTCATAATCTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAATCTGAACATCATTAATAAGAGTTTT
100639940 TAATTATGTCATA
1 TAATTATGTCATA
100639953 GTTCAGGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
38 30 0.67
39 15 0.33
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (39 bp):
TAATTATGTCATAATCTGAACATCATTAATAAGAGTTTT
Found at i:100642998 original size:18 final size:18
Alignment explanation
Indices: 100642962--100643000 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100642952 TTTTTTACAA
* * *
100642962 AATAATAAATAATATTAT
1 AATAATAAAAAACAATAT
100642980 AATAATAAAAAACAATAT
1 AATAATAAAAAACAATAT
100642998 AAT
1 AAT
100643001 CTCATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATAAAAAACAATAT
Found at i:100646840 original size:31 final size:31
Alignment explanation
Indices: 100646800--100646872 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
100646790 ACTAACGAGA
* * **
100646800 GAGTAACTAAACTATTCAATTTTGAAAAGGT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
* * *
100646831 GAGTGACTAAAATGTTTAATTTCAAAAAGTT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
100646862 GAGTGACTAAA
1 GAGTGACTAAA
100646873 TGAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
GAGTGACTAAAATATTCAATTTCAAAAAGGT
Found at i:100647881 original size:27 final size:27
Alignment explanation
Indices: 100647821--100647923 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 27
100647811 TTCCTTCAAC
*
100647821 GTTCGCCATATTTACCATTATTCCTTCA-A
1 GTTCGCCATATTTACCATTCTT--TT-AGA
* * *
100647850 GGTTCGTCATATTTATCATTCTTTTGGA
1 -GTTCGCCATATTTACCATTCTTTTAGA
100647878 GTTCGCCATATTTACCATTCTTTTAGA
1 GTTCGCCATATTTACCATTCTTTTAGA
*
100647905 GTTTGCCATATTTACCATT
1 GTTCGCCATATTTACCATT
100647924 ATGCCCTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
27 42 0.66
28 3 0.05
30 19 0.30
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (27 bp):
GTTCGCCATATTTACCATTCTTTTAGA
Found at i:100648009 original size:25 final size:25
Alignment explanation
Indices: 100647981--100648061 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
100647971 CTCAAAAACT
*
100647981 TTCCTTTAGAATGCACCACGAAGGC
1 TTCCTTTAGAATGCACCACAAAGGC
* ** *
100648006 TTCCATTTCATATAT-TTCCATAAAGTG-
1 TTCC-TTT-AGA-ATGCACCACAAAG-GC
100648033 TTCCTTTAGAATGCACCACAAAGGC
1 TTCCTTTAGAATGCACCACAAAGGC
100648058 TTCC
1 TTCC
100648062 ATTTCATAGA
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 3 0.07
25 17 0.41
26 6 0.15
27 12 0.29
28 3 0.07
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (25 bp):
TTCCTTTAGAATGCACCACAAAGGC
Found at i:100650825 original size:23 final size:23
Alignment explanation
Indices: 100650810--100650853 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
100650800 ATTGACTATG
*
100650810 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
*
100650833 TAATACCCCGAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
100650854 AGTAAGAAAG
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:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:100652015 original size:135 final size:136
Alignment explanation
Indices: 100651852--100652126 Score: 543
Period size: 135 Copynumber: 2.0 Consensus size: 136
100651842 ACTAAAACAG
100651852 TTTTGGACAACAACAATAGGTTAACTTTGAAAACTCACCATAAATAGTGGAAATCAAATTAAAGG
1 TTTTGGACAACAACAATAGGTTAACTTTGAAAACTCACCATAAATAGTGGAAATCAAATTAAAGG
100651917 ATGAAAAAAAATATGAAATTAAAGCTTATTCAGTCTAGTTTCTCATAGAAGAAATAGTGTAAGTA
66 ATGAAAAAAAATATGAAATTAAAGCTTATTCAGTCTAGTTTCTCATAGAAGAAATAGTGTAAGTA
100651982 ATGGAA
131 ATGGAA
100651988 TTTT-GACAACAACAATAGGTTAACTTTGAAAACTCACCATAAATAGTGGAAATCAAATTAAAGG
1 TTTTGGACAACAACAATAGGTTAACTTTGAAAACTCACCATAAATAGTGGAAATCAAATTAAAGG
100652052 ATGAAAAAAAATATGAAATTAAAGCTTATTCAGTCTAGTTTCTCATAGAAGAAATAGTGTAAGTA
66 ATGAAAAAAAATATGAAATTAAAGCTTATTCAGTCTAGTTTCTCATAGAAGAAATAGTGTAAGTA
100652117 ATGGAA
131 ATGGAA
100652123 TTTT
1 TTTT
100652127 AAATCATGAG
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 135 0.97
136 4 0.03
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (136 bp):
TTTTGGACAACAACAATAGGTTAACTTTGAAAACTCACCATAAATAGTGGAAATCAAATTAAAGG
ATGAAAAAAAATATGAAATTAAAGCTTATTCAGTCTAGTTTCTCATAGAAGAAATAGTGTAAGTA
ATGGAA
Found at i:100653499 original size:23 final size:22
Alignment explanation
Indices: 100653454--100653500 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
100653444 CCAAAATATA
*
100653454 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
100653476 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
100653498 TTA
1 TTA
100653501 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:100662253 original size:51 final size:51
Alignment explanation
Indices: 100662177--100662279 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
100662167 CCGGGCTAAG
100662177 TCCGAAGGCATTGTTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
1 TCCGAAGGCATTGTTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
*
100662228 TCCGAAGGCATTGTTTCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
1 TCCGAAGGCATTGTTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
100662279 T
1 T
100662280 TGTGCGAACT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (51 bp):
TCCGAAGGCATTGTTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCAT
Found at i:100675403 original size:25 final size:25
Alignment explanation
Indices: 100675374--100675425 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
100675364 AAGAATAATT
**
100675374 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
100675399 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
100675424 TG
1 TG
100675426 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:100681517 original size:15 final size:15
Alignment explanation
Indices: 100681497--100681527 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100681487 CATAACATAT
100681497 AACCAAAACAACCAC
1 AACCAAAACAACCAC
*
100681512 AACCAAAACATCCAC
1 AACCAAAACAACCAC
100681527 A
1 A
100681528 CATGGATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.39, G:0.00, T:0.03
Consensus pattern (15 bp):
AACCAAAACAACCAC
Found at i:100682266 original size:50 final size:50
Alignment explanation
Indices: 100682182--100682618 Score: 503
Period size: 50 Copynumber: 8.9 Consensus size: 50
100682172 GGTAAAATGT
*
100682182 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * *
100682232 TGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATATTGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* *
100682282 TGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * *
100682332 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGGGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * *
100682382 CGATGCCATATCCCAGACATGGTATTACACTGGCTCTCATATATTGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* **
100682432 CGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TACATA-A-CAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATATCGGTGC
* * * *
100682480 CGATGCCATGTTCCAAACATGGTCTTAAACTGGCTCACATAT-T-GAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
* ** ** * ** *
100682528 CGATGTCATGTCCCAGATGTGGTCTTACACTAACCCTCATA-A-CAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * * * *
100682576 CAATGCCATGTTCCAAACATGGTCTTACACTAGCTCGCATATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA
100682619 ACCCTAGTAT
Statistics
Matches: 327, Mismatches: 51, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
48 106 0.32
49 3 0.01
50 218 0.67
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
Found at i:100683948 original size:28 final size:29
Alignment explanation
Indices: 100683906--100683961 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
100683896 TGCAAAAAAA
* *
100683906 AAAAGAAAGCCTTTGTGGTGATTTATGAT
1 AAAAGAAAGCCTTTGTGGCGATCTATGAT
*
100683935 AAAAG-AAGCGTTTGTGGCGATCTATGA
1 AAAAGAAAGCCTTTGTGGCGATCTATGA
100683962 AGGGAATGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (29 bp):
AAAAGAAAGCCTTTGTGGCGATCTATGAT
Found at i:100685942 original size:2 final size:2
Alignment explanation
Indices: 100685935--100686739 Score: 1610
Period size: 2 Copynumber: 402.5 Consensus size: 2
100685925 ACATCGTCAG
100685935 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100685977 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686019 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686061 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686103 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686145 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686187 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686229 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686271 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686313 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686355 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686397 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686439 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686481 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686523 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686565 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686607 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686649 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686691 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
100686733 AC AC AC A
1 AC AC AC A
100686740 TATATATACC
Statistics
Matches: 803, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 803 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:100689555 original size:16 final size:18
Alignment explanation
Indices: 100689536--100689568 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
100689526 AATAATATGT
100689536 ATAATAT-T-TAAAATAA
1 ATAATATATGTAAAATAA
100689552 ATAATATATGTAAAATA
1 ATAATATATGTAAAATA
100689569 TTTAAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAATATATGTAAAATAA
Found at i:100689568 original size:27 final size:27
Alignment explanation
Indices: 100689456--100689594 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 27
100689446 AACATATAAG
* *
100689456 AAAT-TTTAAATTAAATAATATACACGTA
1 AAATATTTAAAATAAATAATAT--ATGTA
* *
100689484 TAATAGTTTAAAATAAA-AGATATAT-AA
1 AAATA-TTTAAAATAAATA-ATATATGTA
*
100689511 AAAAATTTCAAAATAAAT-A-ATATGTA
1 AAATATTT-AAAATAAATAATATATGTA
*
100689537 TAATATTTAAAATAAATAATATATGTA
1 AAATATTTAAAATAAATAATATATGTA
** *
100689564 AAATATTTAAAATCTATAATA-ATTTA
1 AAATATTTAAAATAAATAATATATGTA
100689590 AAATA
1 AAATA
100689595 CATAAGACGT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
25 13 0.14
26 21 0.23
27 37 0.41
28 4 0.04
29 1 0.01
30 14 0.16
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.36
Consensus pattern (27 bp):
AAATATTTAAAATAAATAATATATGTA
Found at i:100690405 original size:20 final size:21
Alignment explanation
Indices: 100690371--100690414 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
100690361 TTAAAAAAAG
*
100690371 AAAATCCATGAATAAACATAAA
1 AAAATCCAT-AATAAACAGAAA
100690393 AAAATCCAT-ATAAACAGAAA
1 AAAATCCATAATAAACAGAAA
100690413 AA
1 AA
100690415 TGAAAGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.66, C:0.14, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAATCCATAATAAACAGAAA
Found at i:100691212 original size:45 final size:45
Alignment explanation
Indices: 100691157--100691319 Score: 168
Period size: 45 Copynumber: 3.6 Consensus size: 45
100691147 TCAATCTGCC
* *
100691157 CCACTGCAACTTCATGGAGATAAGATTTGCTACCTTCAGCTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCTTGCT
* * * * * * *
100691202 CTATTGCAACTTTAGGGAGATAAGATTCGCCATCTTCAG-TCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCT-TGCT
* * * *
100691247 CCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCTTGCT
* *
100691291 CCACTGCAACTTCAGGAAGATAAGGTTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
100691320 TGATTTGTAG
Statistics
Matches: 94, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
44 35 0.37
45 59 0.63
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCTAACTTCAGCTTGCT
Found at i:100691507 original size:44 final size:43
Alignment explanation
Indices: 100691381--100691597 Score: 111
Period size: 44 Copynumber: 5.0 Consensus size: 43
100691371 TGTCTTCAAT
* *
100691381 TGCTCTAATGCCATTTCAAGGAGAAGAGATTTGTAGCTTCGATA-
1 TGCTCCAATGCCATTTCAGGGAGAAGAGA-TTGTAGCTTCGA-AC
* *** * * * *
100691425 TACTCTGTTG-AACTTCAAGGAGATA-AGAATTGTGGCTTCGAAC
1 TGCTCCAATGCCATTTCAGGGAGA-AGAG-ATTGTAGCTTCGAAC
*
100691468 TGCTCCAATGTCATTTCAGGGAGAAGAGATCTGTAGCTTC-AATC
1 TGCTCCAATGCCATTTCAGGGAGAAGAGAT-TGTAGCTTCGAA-C
* *** ** * * *
100691512 TACTCTGCTGGAACTTCAAGGAGATA-AGAATTGTGGCTTCGAAC
1 TGCTCCAATGCCATTTCAGGGAGA-AGAG-ATTGTAGCTTCGAAC
* * *
100691556 CGCTCCAATGCCATTTCAGAGAGAAGAGATTTGTAACTTCGA
1 TGCTCCAATGCCATTTCAGGGAGAAGAGA-TTGTAGCTTCGA
100691598 TCTACTCCGC
Statistics
Matches: 126, Mismatches: 35, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 37 0.29
44 83 0.66
45 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
TGCTCCAATGCCATTTCAGGGAGAAGAGATTGTAGCTTCGAAC
Found at i:100691561 original size:88 final size:88
Alignment explanation
Indices: 100691321--100691641 Score: 416
Period size: 88 Copynumber: 3.7 Consensus size: 88
100691311 TAAGGTTTGT
* * * * * * *
100691321 GATTTGTAGCTTCAATCTGC-CTCACTGCAATTTCAGGGAGATAA-AATTGGTGTCTTC-AATTG
1 GATTTGTAGCTTCAATCTACTCT-GCTGGAACTTCAAGGAGATAAGAATT-GTGGCTTCGAACTG
* *
100691383 CTCTAATGCCATTTCAAGGAGAAGA
64 CTCCAATGCCATTTCAGGGAGAAGA
* * *
100691408 GATTTGTAGCTTCGATATACTCTG-TTGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
1 GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
*
100691472 CCAATGTCATTTCAGGGAGAAGA
66 CCAATGCCATTTCAGGGAGAAGA
* *
100691495 GATCTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACCGCT
1 GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
*
100691560 CCAATGCCATTTCAGAGAGAAGA
66 CCAATGCCATTTCAGGGAGAAGA
* * * *
100691583 GATTTGTAACTTCGATCTACTCCGCTGGAACTTTAAGGAGATAAGAATTGTGGCTTCGA
1 GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGA
100691642 GTCGCTCCCA
Statistics
Matches: 205, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
86 22 0.11
87 68 0.33
88 115 0.56
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (88 bp):
GATTTGTAGCTTCAATCTACTCTGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAACTGCT
CCAATGCCATTTCAGGGAGAAGA
Found at i:100691688 original size:88 final size:88
Alignment explanation
Indices: 100691352--100691676 Score: 329
Period size: 88 Copynumber: 3.7 Consensus size: 88
100691342 TCACTGCAAT
* * ** * *
100691352 TTCAGGGAGATAA-AATTGGTGTCTTC-AATTGCTCTAATGCCATTTCA-AGGAGAAGAGATTTG
1 TTCAAGGAGATAAGAATT-GTGGCTTCGAACCGCTCCAATGCCACTTCAGA-GAGAAGAGATTTG
* * * * *
100691414 TAGCTTCGATATACTCTG-TTGAAC
64 CAACTTCGATCTACTCCGCTGGAAC
* * * * * *
100691438 TTCAAGGAGATAAGAATTGTGGCTTCGAACTGCTCCAATGTCATTTCAGGGAGAAGAGATCTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGAAGAGATTTGCA
* * *
100691503 GCTTCAATCTACTCTGCTGGAAC
66 ACTTCGATCTACTCCGCTGGAAC
* *
100691526 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCATTTCAGAGAGAAGAGATTTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGAAGAGATTTGCA
100691591 ACTTCGATCTACTCCGCTGGAAC
66 ACTTCGATCTACTCCGCTGGAAC
* ** * **
100691614 TTTAAGGAGATAAGAATTGTGGCTTCGAGTCGCTCCCATGCTGCTT-AGAGAGACA-AGATTTGC
1 TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGA-AGAGATTTGC
100691677 CATATTTGAT
Statistics
Matches: 209, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
86 19 0.09
87 64 0.31
88 126 0.60
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
TTCAAGGAGATAAGAATTGTGGCTTCGAACCGCTCCAATGCCACTTCAGAGAGAAGAGATTTGCA
ACTTCGATCTACTCCGCTGGAAC
Found at i:100691711 original size:44 final size:44
Alignment explanation
Indices: 100691654--100691763 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
100691644 CGCTCCCATG
* * * *
100691654 CTGCTTAGAGAGACAAGATTTGCCATATTT-GATCTGCTCCACTA
1 CTGCTTAGGGAGACAAGATTTGCAATATTTAG-CCTACTCCACTA
* * *
100691698 CTGCTTAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTA
1 CTGCTTAGGGAGACAAGATTTGCAATATTTAGCCTACTCCACTA
* *
100691742 CTGCTTAGGGAGATAGGATTTG
1 CTGCTTAGGGAGACAAGATTTG
100691764 TGAATTTACT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 53 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGCTTAGGGAGACAAGATTTGCAATATTTAGCCTACTCCACTA
Found at i:100694863 original size:28 final size:27
Alignment explanation
Indices: 100694799--100694978 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
100694789 ATATTAAGTC
* *
100694799 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
100694826 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
100694854 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
100694881 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
100694909 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
100694937 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
100694964 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100694979 GCACAATTTA
Statistics
Matches: 143, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
27 66 0.46
28 76 0.53
29 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:100694883 original size:55 final size:55
Alignment explanation
Indices: 100694799--100694978 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
100694789 ATATTAAGTC
* * *
100694799 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
100694854 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* *
100694909 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
100694964 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100694979 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:100694938 original size:83 final size:82
Alignment explanation
Indices: 100694799--100694978 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
100694789 ATATTAAGTC
* * *
100694799 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
100694864 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
100694881 CGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
100694946 AGTGCTACATATTCAATT
65 AGTGCTACATAGTCAACT
100694964 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100694979 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:100704805 original size:28 final size:28
Alignment explanation
Indices: 100704744--100704952 Score: 359
Period size: 28 Copynumber: 7.5 Consensus size: 28
100704734 ATATTAAGTC
* * *
100704744 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
100704771 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
100704799 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
100704827 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
100704855 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
100704883 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
* *
100704911 CGCACACTTAGTGCTACATATTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
100704938 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100704953 GCACAATTTA
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 38 0.22
28 138 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:100716211 original size:22 final size:23
Alignment explanation
Indices: 100716167--100716223 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
100716157 CAAAAGAATG
* *
100716167 AAATAAATAACAGAAAACCATTTA
1 AAATAAATAA-TGAAAACAATTTA
*
100716191 AAATAAATAATG-AAACAATTTT
1 AAATAAATAATGAAAACAATTTA
*
100716213 AAATAAGTAAT
1 AAATAAATAAT
100716224 ACATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 18 0.62
23 1 0.03
24 10 0.34
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.26
Consensus pattern (23 bp):
AAATAAATAATGAAAACAATTTA
Found at i:100717497 original size:20 final size:19
Alignment explanation
Indices: 100717474--100717517 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
100717464 TTTAAAAAAG
*
100717474 AAAATCCATGAATAAACATAAA
1 AAAATCCAT--ATAAACA-GAA
100717496 AAAATCCATATAAACAGAA
1 AAAATCCATATAAACAGAA
100717515 AAA
1 AAA
100717518 TGAAATAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 7 0.33
22 9 0.43
ACGTcount: A:0.66, C:0.14, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAATCCATATAAACAGAA
Found at i:100717502 original size:22 final size:20
Alignment explanation
Indices: 100717474--100717517 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
100717464 TTTAAAAAAG
*
100717474 AAAATCCATGAATAAACATAAA
1 AAAATCCAT--ATAAACAGAAA
100717496 AAAATCCATATAAACAGAAA
1 AAAATCCATATAAACAGAAA
100717516 AA
1 AA
100717518 TGAAATAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.66, C:0.14, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAATCCATATAAACAGAAA
Found at i:100718921 original size:54 final size:53
Alignment explanation
Indices: 100718853--100719326 Score: 288
Period size: 54 Copynumber: 8.8 Consensus size: 53
100718843 AGTTCACTGG
* * *
100718853 TTTAAGATCACAACCTTGTAGTTATAAGATTTTTTGAATCTTACGAATTGTCGA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGATTG-CGA
** * * * *
100718907 TTTAAGATTGCAACCTTATACTTACAACATTTTTCGAATCTTACGGCTTGCTGA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGATTGC-GA
* * * * * * * *
100718961 TTTAATATCGCGACCTTATACTTATAGGATTTTCTGTATCTTACGGTTTGCCAA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGATTG-CGA
* ** * ** *
100719015 TTTAAGATCACAACCTTATACTTATAAGATTTTGTGAATCTCGCGGCTCACCAA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGAT-TGCGA
* * * * * * * *
100719069 TTTAAGATCGCAGCCTTATACTTACAAGATTTTCTGAATATTGC-GAGTATCCAA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGA-T-TGCGA
* * * * ** * ** *
100719123 TTTAAGATCGCAACCTAATACTTACAAGATTTTTTTAATCTTGTGGCTCAACAA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGAT-TGCGA
* * * * * **
100719177 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGGCTCACCGA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGAT-TGCGA
** * * * **
100719231 TTTAAGATTGCAGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCTCATT--GA
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTT--A-CGGATTGCGA
* * * *
100719285 TTTAAGATCCCAACCTTATACTTACAAGATTTCTAGAATCTT
1 TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTT
100719327 GTAGTTGTTG
Statistics
Matches: 342, Mismatches: 70, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
53 2 0.01
54 336 0.98
55 2 0.01
57 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (53 bp):
TTTAAGATCACAACCTTATACTTATAAGATTTTTTGAATCTTACGGATTGCGA
Found at i:100719047 original size:108 final size:108
Alignment explanation
Indices: 100718853--100719326 Score: 497
Period size: 108 Copynumber: 4.4 Consensus size: 108
100718843 AGTTCACTGG
* * * * * ** * * *
100718853 TTTAAGATCACAACCTTGTAGTTATAAGATTTTTTGAATCTTACGAATTGTCGATTTAAGATTGC
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACGGTTTGCCAATTTAAGATCGC
* * ** *
100718918 AACCTTATACTTACAACATTTTTCGAATCTTACGGCTTGCTGA
66 AACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTCACTAA
* * * * * *
100718961 TTTAATATCGCGACCTTATACTTATAGGATTTTCTGTATCTTACGGTTTGCCAATTTAAGATCAC
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACGGTTTGCCAATTTAAGATCGC
* * *
100719026 AACCTTATACTTATAAGATTTTGT-GAATCTCGCGGCTCACCAA
66 AACCTTATACTTACAAGATTTT-TCGAATCTTGCGGCTCACTAA
* * * *
100719069 TTTAAGATCGCAGCCTTATACTTACAAGATTTTCTGAATATTGCGAGTAT-CCAATTTAAGATCG
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACG-GTTTGCCAATTTAAGATCG
* ** *
100719133 CAACCTAATACTTACAAGATTTTTTTAATCTTGTGGCTCAAC-AA
65 CAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTC-ACTAA
* * ** * *
100719177 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGGCTCACCGATTTAAGATTGC
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACGGTTTGCCAATTTAAGATCGC
* * * *
100719242 AGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCTCATTGA
66 AACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTCACTAA
*
100719285 TTTAAGATCCCAACCTTATACTTACAAGA-TTTCTAGAATCTT
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCT-GAATCTT
100719327 GTAGTTGTTG
Statistics
Matches: 306, Mismatches: 53, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
107 8 0.03
108 292 0.95
109 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (108 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACGGTTTGCCAATTTAAGATCGC
AACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTCACTAA
Found at i:100719327 original size:54 final size:53
Alignment explanation
Indices: 100718906--100719327 Score: 348
Period size: 54 Copynumber: 7.8 Consensus size: 53
100718896 CGAATTGTCG
* * * * * *
100718906 ATTTAAGATTGCAACCTTATACTTACAACATTTTTCGAATCTTACGGCT--TGCTG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTCT-GAATCTTGCAGCTCAT-C-A
* * * * * * * * ***
100718960 ATTTAATATCGCGACCTTATACTTATAGGATTTTCTGTATCTTACGGTTTGCCA
1 ATTTAAGATCGCAACCTTATACTTACAAGA-TTTCTGAATCTTGCAGCTCATCA
* * * * * *
100719014 ATTTAAGATCACAACCTTATACTTATAAGATTTTGTGAATCTCGCGGCTCACCA
1 ATTTAAGATCGCAACCTTATACTTACAAGA-TTTCTGAATCTTGCAGCTCATCA
* *
100719068 ATTTAAGATCGCAGCCTTATACTTACAAGATTTTCTGAATATTGCGAG-T-ATCCA
1 ATTTAAGATCGCAACCTTATACTTACAAGA-TTTCTGAATCTTGC-AGCTCAT-CA
* * * ** *
100719122 ATTTAAGATCGCAACCTAATACTTACAAGATTTTTTTAATCTTGTGGCTCAACA
1 ATTTAAGATCGCAACCTTATACTTACAAGA-TTTCTGAATCTTGCAGCTCATCA
* * *
100719176 ATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGGCTCACCG
1 ATTTAAGATCGCAACCTTATACTTACAAGA-TTTCTGAATCTTGCAGCTCATCA
* * * **
100719230 ATTTAAGATTGCAGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCTCATTG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTCT-GAATCTTGCAGCTCATCA
*
100719284 ATTTAAGATCCCAACCTTATACTTACAAGATTTCTAGAATCTTG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTCT-GAATCTTG
100719328 TAGTTGTTGA
Statistics
Matches: 305, Mismatches: 55, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
53 6 0.02
54 292 0.96
55 7 0.02
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (53 bp):
ATTTAAGATCGCAACCTTATACTTACAAGATTTCTGAATCTTGCAGCTCATCA
Found at i:100719327 original size:162 final size:160
Alignment explanation
Indices: 100718853--100719328 Score: 517
Period size: 162 Copynumber: 2.9 Consensus size: 160
100718843 AGTTCACTGG
* * * * ** ***
100718853 TTTAAGATCACAACCTTGTAGTTATAAGATTTTTTGAATCTTACGAATTGTCGATTTAAGATTGC
1 TTTAAGATCACAACCTTATACTTATAAGATTTTCTGAATCTTGCGGCTCACCGATTTAAGATTGC
* * * * * *
100718918 AACCTTATACTTACAACATTTTTCGAATCTTACGGCT-TGCTGATTTAATATCGCGACCTTATAC
66 AGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCTAT--TGATTTAAGATCGCAACCTTATAC
* * * ** * ***
100718982 TTATAGGATTTTCTGTATCTTACGGTTTGCCAA
129 TTACAAGA-TTTCTGAATCTTGTGGCTCAACAA
* * * *
100719015 TTTAAGATCACAACCTTATACTTATAAGATTTTGTGAATCTCGCGGCTCACCAATTTAAGATCGC
1 TTTAAGATCACAACCTTATACTTATAAGATTTTCTGAATCTTGCGGCTCACCGATTTAAGATTGC
* ** *
100719080 AGCCTTATACTTACAAGA-TTTTCTGAATATTGCGAG-TATCCAATTTAAGATCGCAACCTAATA
66 AGCCTTATACTTACAAGATTTTTC-GAATCTTGC-AGCTAT-TGATTTAAGATCGCAACCTTATA
* *
100719143 CTTACAAGATTTTTTTAATCTTGTGGCTCAACAA
128 CTTACAAGA-TTTCTGAATCTTGTGGCTCAACAA
* *
100719177 TTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGGCTCACCGATTTAAGATTGC
1 TTTAAGATCACAACCTTATACTTATAAGATTTTCTGAATCTTGCGGCTCACCGATTTAAGATTGC
*
100719242 AGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCTCATTGATTTAAGATCCCAACCTTATACT
66 AGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCT-ATTGATTTAAGATCGCAACCTTATACT
100719307 TACAAGATTTCTAGAATCTTGT
130 TACAAGATTTCT-GAATCTTGT
100719329 AGTTGTTGAT
Statistics
Matches: 261, Mismatches: 46, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
161 11 0.04
162 241 0.92
163 9 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (160 bp):
TTTAAGATCACAACCTTATACTTATAAGATTTTCTGAATCTTGCGGCTCACCGATTTAAGATTGC
AGCCTTATACTTACAAGATTTTTCGAATCTTGCAGCTATTGATTTAAGATCGCAACCTTATACTT
ACAAGATTTCTGAATCTTGTGGCTCAACAA
Found at i:100720376 original size:29 final size:28
Alignment explanation
Indices: 100720343--100720400 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
100720333 AAAAATTAAA
100720343 AATATTT-AT-ATTTATATTATTTTTAATTT
1 AATATTTAATAATTTA-ATT-TTTTT-ATTT
100720372 AATATTTAATAATTTAATTTTTTTATTT
1 AATATTTAATAATTTAATTTTTTTATTT
100720400 A
1 A
100720401 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 5 0.19
29 12 0.44
30 5 0.19
31 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
AATATTTAATAATTTAATTTTTTTATTT
Found at i:100721370 original size:13 final size:14
Alignment explanation
Indices: 100721351--100721402 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
100721341 CCACCCACTG
*
100721351 GAAGAGAGAAAGAA
1 GAAGAAAGAAAGAA
*
100721365 -AAGAGAGAAAGAA
1 GAAGAAAGAAAGAA
*
100721378 GAAGAAAAAAAGAA
1 GAAGAAAGAAAGAA
*
100721392 TAAGAAAGAAA
1 GAAGAAAGAAA
100721403 AAAAAGGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (14 bp):
GAAGAAAGAAAGAA
Found at i:100721386 original size:20 final size:21
Alignment explanation
Indices: 100721352--100721408 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
100721342 CACCCACTGG
* *
100721352 AAGAGAGAAAGAAAAGAGAGA-
1 AAGAAAGAAAAAAAAGAGA-AT
100721373 AAG-AAGAAGAAAAAA-AGAAT
1 AAGAAAGAA-AAAAAAGAGAAT
100721393 AAGAAAGAAAAAAAAG
1 AAGAAAGAAAAAAAAG
100721409 GTAATGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (21 bp):
AAGAAAGAAAAAAAAGAGAAT
Found at i:100721663 original size:60 final size:60
Alignment explanation
Indices: 100721573--100721691 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
100721563 GTTTTTTTTA
* *
100721573 TAATTAATTTAAAATTAAATTGTTAGTAATTTAGGATTA-TGTTATAAATTTTTGTGTTTG
1 TAATTAATTTAAAATTAAATTATTAGTAATTTAGGATTATTG-TATAAATTGTTGTGTTTG
* * *
100721633 TAATTATTTTAAAATTAATTTATTATTAATTTAGGATTATTGTATAAATTGTTGTGTTT
1 TAATTAATTTAAAATTAAATTATTAGTAATTTAGGATTATTGTATAAATTGTTGTGTTT
100721692 AGTTTAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 51 0.96
61 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (60 bp):
TAATTAATTTAAAATTAAATTATTAGTAATTTAGGATTATTGTATAAATTGTTGTGTTTG
Found at i:100732014 original size:24 final size:24
Alignment explanation
Indices: 100731982--100732027 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
100731972 TTCCGTTCTG
100731982 CTAAATTTTGTGACTGTTGCTCTA
1 CTAAATTTTGTGACTGTTGCTCTA
**
100732006 CTAAATTTTGTGTTTGTTGCTC
1 CTAAATTTTGTGACTGTTGCTC
100732028 ATTTGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.50
Consensus pattern (24 bp):
CTAAATTTTGTGACTGTTGCTCTA
Found at i:100732127 original size:27 final size:27
Alignment explanation
Indices: 100732089--100732171 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
100732079 TGTGGGTCCC
* * *
100732089 ACCAATCGCGCCTCTGAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
*
100732116 ACCAGTCGCGCCTGTCAAATAGGCTCA
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
*
100732143 ACCAGTCGCACCTGTCAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
100732170 AC
1 AC
100732172 TATTCACGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.27, C:0.34, G:0.22, T:0.18
Consensus pattern (27 bp):
ACCAGTCGCGCCTGTCAGATAGGCTCA
Found at i:100732185 original size:27 final size:27
Alignment explanation
Indices: 100732089--100732202 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
100732079 TGTGGGTCCC
* * * *
100732089 ACCAATCGCGCCTCTGAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAAATAGGCTCA
100732116 ACCAGTCGCGCCTGTCAAATAGGCTCA
1 ACCAGTCGCGCCTGTCAAATAGGCTCA
* *
100732143 ACCAGTCGCACCTGTCAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAAATAGGCTCA
* * * * *
100732170 ACTATTCACGCTTGTCAAATAGGCGCA
1 ACCAGTCGCGCCTGTCAAATAGGCTCA
*
100732197 AACAGT
1 ACCAGT
100732203 ATACCATTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (27 bp):
ACCAGTCGCGCCTGTCAAATAGGCTCA
Found at i:100734105 original size:29 final size:27
Alignment explanation
Indices: 100734072--100734145 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
100734062 GATCTATAAG
* *
100734072 TTATTTTTTAATTGATTTATTATGTGTAT
1 TTATTTATTAATT--TTTATTATATGTAT
100734101 TTATTTATTAA-TTTTATTATATGTAT
1 TTATTTATTAATTTTTATTATATGTAT
*
100734127 TTACTTATTAA-TTTTATTA
1 TTATTTATTAATTTTTATTA
100734146 AGAATTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 31 0.74
28 1 0.02
29 10 0.24
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (27 bp):
TTATTTATTAATTTTTATTATATGTAT
Found at i:100734116 original size:26 final size:26
Alignment explanation
Indices: 100734087--100734170 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
100734077 TTTTAATTGA
* *
100734087 TTTATTATGTGTATTTATTTATTAAT
1 TTTATTATATGTATTTACTTATTAAT
100734113 TTTATTATATGTATTTACTTATTAAT
1 TTTATTATATGTATTTACTTATTAAT
* *
100734139 TTTATTA-A-GAATTTTAATTATTAAT
1 TTTATTATATGTA-TTTACTTATTAAT
*
100734164 GTTATTA
1 TTTATTA
100734171 ACTTTTTCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
24 2 0.04
25 19 0.37
26 31 0.60
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (26 bp):
TTTATTATATGTATTTACTTATTAAT
Found at i:100734120 original size:12 final size:12
Alignment explanation
Indices: 100734100--100734170 Score: 54
Period size: 13 Copynumber: 5.6 Consensus size: 12
100734090 ATTATGTGTA
100734100 TTTATTTATTAAT
1 TTTA-TTATTAAT
*
100734113 TTTATTA-TATGT
1 TTTATTATTA-AT
100734125 ATTTACTTATTAAT
1 -TTTA-TTATTAAT
**
100734139 TTTATTAAGAAT
1 TTTATTATTAAT
100734151 TTTAATTATTAAT
1 TTT-ATTATTAAT
*
100734164 GTTATTA
1 TTTATTA
100734171 ACTTTTTCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
11 2 0.04
12 17 0.37
13 21 0.46
14 4 0.09
15 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (12 bp):
TTTATTATTAAT
Found at i:100734237 original size:21 final size:23
Alignment explanation
Indices: 100734197--100734239 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
100734187 AGTATTTCAT
*
100734197 AATATTAAAAATATTCTTTAAAA
1 AATATTAAAAATAATCTTTAAAA
100734220 AATA-TAAAAATAAT-TTTAAA
1 AATATTAAAAATAATCTTTAAA
100734240 TGTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AATATTAAAAATAATCTTTAAAA
Found at i:100741385 original size:32 final size:33
Alignment explanation
Indices: 100741320--100741399 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
100741310 ACTTGTAGTT
100741320 TAAATTTATTTATATATTATTTATACATAATAATA
1 TAAA-TTATTTAT-TATTATTTATACATAATAATA
* *
100741355 TAAATTATTTATTATT-TTTATATATGATAATA
1 TAAATTATTTATTATTATTTATACATAATAATA
*
100741387 TATATTATTTATT
1 TAAATTATTTATT
100741400 TAATAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.62
33 4 0.10
34 8 0.19
35 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (33 bp):
TAAATTATTTATTATTATTTATACATAATAATA
Found at i:100741408 original size:29 final size:32
Alignment explanation
Indices: 100741320--100741410 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 32
100741310 ACTTGTAGTT
* * *
100741320 TAAATTTATTTATATATTATTTATACATAATAATA
1 TAAA-TTATTTAT-TATTA-ATATATATGATAATA
**
100741355 TAAATTATTTATTATTTTTATATATGATAATA
1 TAAATTATTTATTATTAATATATATGATAATA
* *
100741387 TATATTATTTATTTAATAATATAT
1 TAAATTATTTA-TTATTAATATAT
100741411 TATATGAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
32 23 0.48
33 13 0.27
34 8 0.17
35 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TAAATTATTTATTATTAATATATATGATAATA
Found at i:100745114 original size:19 final size:19
Alignment explanation
Indices: 100745087--100745124 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
100745077 TTGCTGAACT
100745087 AAATAAAACACATTAAATA
1 AAATAAAACACATTAAATA
*
100745106 AAATCAAACACATTAAATA
1 AAATAAAACACATTAAATA
100745125 CATTCAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAACACATTAAATA
Found at i:100750179 original size:47 final size:47
Alignment explanation
Indices: 100750119--100750213 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
100750109 TAATTTTTCA
* * * *
100750119 TAAGTTTACTAATTGTGTCTTATTTAGTATAGCATTTTAATGTGTCT
1 TAAGTCTACTAATTATGTCTTACTTAGTATAGCATTTTAAAGTGTCT
* *
100750166 TAAGTCTATTAATTATGTTTTACTTAGTATAGCATTTTAAAGTGTCT
1 TAAGTCTACTAATTATGTCTTACTTAGTATAGCATTTTAAAGTGTCT
100750213 T
1 T
100750214 TCTTCAGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (47 bp):
TAAGTCTACTAATTATGTCTTACTTAGTATAGCATTTTAAAGTGTCT
Found at i:100752023 original size:14 final size:15
Alignment explanation
Indices: 100751998--100752035 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
100751988 TAATTCCACA
100751998 TGAAAT-TTATATTG
1 TGAAATATTATATTG
100752012 -GAAATATTATATTG
1 TGAAATATTATATTG
*
100752026 TGAGATATTA
1 TGAAATATTA
100752036 AAATGTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (15 bp):
TGAAATATTATATTG
Found at i:100758895 original size:93 final size:92
Alignment explanation
Indices: 100758782--100758953 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 92
100758772 TGCCCATAAG
* * * *
100758782 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GAACTCAACTC
1 CGAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAG-ACTCAACTC
*
100758846 AACGAGCTCGGATGCCTAATTACATCTCA
65 AAC-AACTCGGATGCCTAATTACATCTCA
* * * *
100758875 CGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATTCGTAAGTGAACTCAGACTCTACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
100758940 ACAACTCGGATGCC
66 ACAACTCGGATGCC
100758954 CAAATATCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
92 11 0.16
93 57 0.83
94 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (92 bp):
CGAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAACTCGGATGCCTAATTACATCTCA
Found at i:100761345 original size:27 final size:27
Alignment explanation
Indices: 100761307--100761360 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
100761297 GTGAATGCGT
100761307 AGCATGGTTTCCAGCGGATAAGGTCGC
1 AGCATGGTTTCCAGCGGATAAGGTCGC
100761334 AGCATGGTTTCCAGCGGATAAGGTCGC
1 AGCATGGTTTCCAGCGGATAAGGTCGC
100761361 CGGCCATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (27 bp):
AGCATGGTTTCCAGCGGATAAGGTCGC
Found at i:100768421 original size:33 final size:33
Alignment explanation
Indices: 100768373--100768481 Score: 110
Period size: 33 Copynumber: 3.2 Consensus size: 33
100768363 AGTAAACAAT
*
100768373 GTATACAGTAACAGTCTAGGCCTGAGCCCTATCCA
1 GTAT-CAGT-ACAGTCTAGGCCTGAGCCCTATACA
* * *
100768408 GTATCAGTACAGTCTGGGCCTTAGCCTTATACA
1 GTATCAGTACAGTCTAGGCCTGAGCCCTATACA
* * * * *
100768441 GTAACAGAACAGTCTAGGCTTTAACCCTATACA
1 GTATCAGTACAGTCTAGGCCTGAGCCCTATACA
*
100768474 GTAACAGT
1 GTATCAGT
100768482 GTGCGCCTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 55 0.87
34 4 0.06
35 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (33 bp):
GTATCAGTACAGTCTAGGCCTGAGCCCTATACA
Found at i:100768650 original size:26 final size:26
Alignment explanation
Indices: 100768616--100768694 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
100768606 CCAGCACACC
*
100768616 AATATTGCAGCAAAGCTGCCAGTAAT
1 AATAATGCAGCAAAGCTGCCAGTAAT
*
100768642 AATAATGCAACAAAGCTGCCAGTAAT
1 AATAATGCAGCAAAGCTGCCAGTAAT
* * *
100768668 AATAATGCAGCATAGCTTCCAGAAAT
1 AATAATGCAGCAAAGCTGCCAGTAAT
100768694 A
1 A
100768695 GTAAATGTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (26 bp):
AATAATGCAGCAAAGCTGCCAGTAAT
Found at i:100768756 original size:27 final size:26
Alignment explanation
Indices: 100768698--100768761 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
100768688 AGAAATAGTA
* *
100768698 AATGTGGCA-AGCCACTAGTATCAAT
1 AATGTGGCATAGCCACAAGTAACAAT
*
100768723 AATTGTGGCATAGCCACAAGTAACAGT
1 AA-TGTGGCATAGCCACAAGTAACAAT
*
100768750 GAATGTGACATA
1 -AATGTGGCATA
100768762 ATCACTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 7 0.22
27 21 0.66
28 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (26 bp):
AATGTGGCATAGCCACAAGTAACAAT
Found at i:100768947 original size:27 final size:27
Alignment explanation
Indices: 100768917--100769063 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
100768907 GGGCATAATT
*
100768917 GTCATTTTACCATACAGGGGTGTTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * **
100768944 GTCAGTTTACCCTACAGGGCAATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
100768971 ATCATTTTACCATACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
100768998 GCCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * * *
100769025 GTTATTTTACCCTACAGAGGTATTACC
1 GTCATTTTACCATACAGGGGTATTACG
100769052 GTCATTTTACCA
1 GTCATTTTACCA
100769064 ATCGGAGGTA
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:100769085 original size:27 final size:27
Alignment explanation
Indices: 100769070--100769254 Score: 172
Period size: 27 Copynumber: 6.9 Consensus size: 27
100769060 ACCAATCGGA
*
100769070 GGTATTTTGATAATTTCACAAATTAGG
1 GGTATTTTGATAATTTTACAAATTAGG
* *** *
100769097 GGTATTTTGGTAATTTTACAACCCATG
1 GGTATTTTGATAATTTTACAAATTAGG
* * * *
100769124 GGTGTTTCGATAATTTCACAAATCAGG
1 GGTATTTTGATAATTTTACAAATTAGG
* * *
100769151 GGTATTTCGGTAATTTTCCAAATTAGG
1 GGTATTTTGATAATTTTACAAATTAGG
** * *
100769178 GGTATTTCAATAATTTTACAAATTTGA
1 GGTATTTTGATAATTTTACAAATTAGG
* * *
100769205 GGTATTTGGGTAATTTTCCAAATTAGG
1 GGTATTTTGATAATTTTACAAATTAGG
* *
100769232 GGTATTTCGGTAATTTTACAAAT
1 GGTATTTTGATAATTTTACAAAT
100769255 CGAGGTCTTA
Statistics
Matches: 127, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTTGATAATTTTACAAATTAGG
Found at i:100769166 original size:81 final size:81
Alignment explanation
Indices: 100769070--100769254 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
100769060 ACCAATCGGA
* * *** * *
100769070 GGTATTTTGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAACCCATG-GGTGTTTCGA
1 GGTATTTCGGTAATTTCACAAATTAGGGGTATTTCAATAATTTTACAA-ACATGAGGTATTTCGA
100769134 TAA-TTTCACAAATCAGG
65 TAATTTTC-CAAATCAGG
** * *
100769151 GGTATTTCGGTAATTTTC-CAAATTAGGGGTATTTCAATAATTTTACAAATTTGAGGTATTTGGG
1 GGTATTTCGGTAA-TTTCACAAATTAGGGGTATTTCAATAATTTTACAAACATGAGGTATTTCGA
*
100769215 TAATTTTCCAAATTAGG
65 TAATTTTCCAAATCAGG
*
100769232 GGTATTTCGGTAATTTTACAAAT
1 GGTATTTCGGTAATTTCACAAAT
100769255 CGAGGTCTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
80 5 0.06
81 74 0.85
82 8 0.09
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTCACAAATTAGGGGTATTTCAATAATTTTACAAACATGAGGTATTTCGAT
AATTTTCCAAATCAGG
Found at i:100777463 original size:40 final size:40
Alignment explanation
Indices: 100777386--100777641 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 40
100777376 AAACCAAGTA
* * *
100777386 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* ** *
100777425 CCTTTGGGACTTAGCCCGGATATAGTAGTTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
100777465 TCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
100777505 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
100777545 CCTTCGGGACTTAGCTCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
100777585 CCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
100777625 TCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
100777642 CGTTATCATC
Statistics
Matches: 191, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.07
40 178 0.93
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:100780193 original size:68 final size:68
Alignment explanation
Indices: 100780119--100780270 Score: 186
Period size: 67 Copynumber: 2.2 Consensus size: 68
100780109 CATCATGTGT
* * * *
100780119 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGT-GATACT-AT-ATGTACACC
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGAGTGGATACTGATGAAGGACACC
100780181 ATGTAG
63 ATGTAG
* * *
100780187 ACAAGAGAGCTACGAG-ATATATGTAGCTAGGTCGCATGAGTGGTTCCTGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGAGTGGATACTGATGAAGGACACCATG
100780251 TAG
66 TAG
100780254 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
100780271 TAAACTGGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 19 0.26
65 7 0.10
66 2 0.03
67 29 0.40
68 16 0.22
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGAGTGGATACTGATGAAGGACACCATG
TAG
Found at i:100782331 original size:46 final size:45
Alignment explanation
Indices: 100782226--100782396 Score: 222
Period size: 46 Copynumber: 3.8 Consensus size: 45
100782216 ACATATCCAT
100782226 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTTGTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTG-A
*
100782270 GCCGATGCATTTCCCAGACATGTCTTACACTAGCTTACATCTTGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTGA
* * * *
100782315 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTTGA
*
100782361 TGCCGATGCCATGTCCCAGAAATGTCTTACACTAGC
1 -GCCGATG-CATGTCCCAGACATGTCTTACACTAGC
100782397 ACACACACAT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
44 33 0.29
45 1 0.01
46 52 0.46
47 26 0.23
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTGA
Found at i:100785232 original size:21 final size:21
Alignment explanation
Indices: 100785206--100785249 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
100785196 CATAAATAAT
*
100785206 TTAATGGTTTTGTCTTTTAAC
1 TTAATGGTTTTGACTTTTAAC
100785227 TTAATGGTTTTGACTTTTAAC
1 TTAATGGTTTTGACTTTTAAC
100785248 TT
1 TT
100785250 TAAAAAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (21 bp):
TTAATGGTTTTGACTTTTAAC
Found at i:100786204 original size:22 final size:21
Alignment explanation
Indices: 100786162--100786217 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
100786152 TAAAAATTTC
* *
100786162 AAAACAAAAGGAAATAGAATA
1 AAAACAAAAAGAAATAAAATA
*
100786183 AAAACAAAAATAAGATAAAATA
1 AAAACAAAAAGAA-ATAAAATA
*
100786205 AAATAAAAAAAGA
1 AAA-ACAAAAAGA
100786218 CATACCCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 10 0.36
23 7 0.25
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAACAAAAAGAAATAAAATA
Found at i:100786328 original size:66 final size:66
Alignment explanation
Indices: 100786222--100786359 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 66
100786212 AAAAGACATA
*
100786222 CCCATTATCCCAACTAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
1 CCCATTATCCCAACAAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
100786287 T
66 T
* *
100786288 CCCATTATCCCAACAAACCTAATCTTTATTTAGA-TGATTTCTTAGACTTCAATTTGAATCCAAA
1 CCCATTATCCCAACAAACCTAATCCTTATTTA-ACAGATTTCTTAGACTTCAATTTGAATCCAAA
100786352 TT
65 TT
100786354 -CCATTA
1 CCCATTA
100786360 GTTGTGAGAC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 6 0.09
66 61 0.90
67 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (66 bp):
CCCATTATCCCAACAAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
T
Found at i:100789398 original size:9 final size:9
Alignment explanation
Indices: 100789384--100789414 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
100789374 GATCAAGTAA
100789384 AATTAAATT
1 AATTAAATT
100789393 AATTAAATT
1 AATTAAATT
100789402 AATTAAAATT
1 AATT-AAATT
100789412 AAT
1 AAT
100789415 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:100796698 original size:39 final size:39
Alignment explanation
Indices: 100796635--100796833 Score: 346
Period size: 39 Copynumber: 5.1 Consensus size: 39
100796625 ATTACCAGCA
*
100796635 CCAGCACGAAGCCTGC-GGATCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGATACATTT
* *
100796674 CCAGCACGAAGCCTACGGGACTTTAGCCCTGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
100796713 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
100796752 CCAGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
100796791 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
100796830 CCAG
1 CCAG
100796834 TGTCTTGCAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
39 149 0.98
40 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:100801538 original size:6 final size:6
Alignment explanation
Indices: 100801527--100801553 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
100801517 GTTTCTCTAA
100801527 TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTT
100801554 GAAGAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCAT
Found at i:100805274 original size:30 final size:30
Alignment explanation
Indices: 100805238--100805299 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
100805228 ATTCCCGAGC
* *
100805238 TTAGGGGCAAAAGTGTAATTATGTAAAAGT
1 TTAGGGGCAAAAATGTAATTATGCAAAAGT
*
100805268 TTAGGGGCAAAAATGTAATTTTGCAAAAGT
1 TTAGGGGCAAAAATGTAATTATGCAAAAGT
100805298 TT
1 TT
100805300 GTATTAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAATGTAATTATGCAAAAGT
Found at i:100807509 original size:46 final size:46
Alignment explanation
Indices: 100807459--100807634 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
100807449 TGGTTGAGCA
*
100807459 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
100807505 TCCGAACTCATTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
100807550 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100807598 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100807635 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.58
47 27 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100807615 original size:93 final size:93
Alignment explanation
Indices: 100807456--100807627 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
100807446 GGATGGTTGA
* * * *
100807456 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
*
100807521 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
100807549 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
100807614 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
100807628 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:100808795 original size:80 final size:80
Alignment explanation
Indices: 100808662--100808942 Score: 481
Period size: 80 Copynumber: 3.5 Consensus size: 80
100808652 GAAACAGGGG
100808662 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGC
1 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGC
100808727 TAAATCCCGAAGAGC
66 TAAATCCCGAAGAGC
100808742 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGC
1 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGC
100808807 TAAATCCCGAAGAGC
66 TAAATCCCGAAGAGC
*
100808822 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGC
1 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGC
*
100808887 TAAACCCCGAAGAGC
66 TAAATCCCGAAGAGC
* * * * * * *
100808902 ATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
100808943 ATCATGCTGG
Statistics
Matches: 192, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 192 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGC
TAAATCCCGAAGAGC
Found at i:100808954 original size:40 final size:40
Alignment explanation
Indices: 100808662--100808942 Score: 400
Period size: 40 Copynumber: 7.0 Consensus size: 40
100808652 GAAACAGGGG
* * *
100808662 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
*
100808702 ATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
* * *
100808742 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
*
100808782 ATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
* * *
100808822 ATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
* **
100808862 ATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
* * * *
100808902 ATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCAAAGAGC
1 ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
100808942 A
1 A
100808943 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGC
Found at i:100813053 original size:47 final size:47
Alignment explanation
Indices: 100813000--100813185 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 47
100812990 TTAGGATTTT
* *
100813000 ATGTGATGAATGTGAACATGCATATATGTAATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
100813047 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
100813094 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
100813141 ATGTGGTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
100813186 TAGTGTGAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:100813149 original size:25 final size:25
Alignment explanation
Indices: 100813074--100813149 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
100813064 ATGCATATAT
100813074 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
100813099 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
100813121 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
100813146 GTGA
1 GTGA
100813150 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:100813398 original size:37 final size:37
Alignment explanation
Indices: 100813348--100813462 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
100813338 GGAAATATAT
*
100813348 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
100813385 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* ** *
100813422 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
100813459 TCCG
1 TCCG
100813463 AGCTAAAGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:100815616 original size:30 final size:31
Alignment explanation
Indices: 100815538--100815616 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
100815528 CATAGTATCG
* * *
100815538 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCAGGATCTCTC
*
100815568 TAT-TCTGGATTTCTTTATTCCAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCAGGATCTCTC
100815598 TATCTTGGATTTCTTTATT
1 TATCTTGGATTTCTTTATT
100815617 TGGTTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 35 0.83
31 6 0.14
ACGTcount: A:0.13, C:0.18, G:0.14, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCAGGATCTCTC
Found at i:100815624 original size:14 final size:15
Alignment explanation
Indices: 100815547--100815626 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
100815537 GTATCTTGGG
*
100815547 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
100815562 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
100815577 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
100815592 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
100815607 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
100815621 TTTCTT
1 TTTCTT
100815627 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 12 0.23
15 36 0.68
16 4 0.08
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:100818071 original size:46 final size:46
Alignment explanation
Indices: 100818015--100818190 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
100818005 TGGTTGAGCA
* *
100818015 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
** * * * * *
100818061 TCAAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
100818106 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
100818154 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100818191 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 59 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:100818171 original size:93 final size:93
Alignment explanation
Indices: 100818012--100818183 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
100818002 GGATGGTTGA
* * * * *
100818012 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCAAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCAAAACTCGTTGAGT
100818077 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
** *
100818105 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCAAAACTCGTTGAGT
100818170 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
100818184 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCAAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:100823960 original size:46 final size:46
Alignment explanation
Indices: 100823910--100824004 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
100823900 TTTCATATAA
* *
100823910 ACATCAAGAAAAACATACATGAGCTTAATAATATTCAAACTCTCAT
1 ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAACTCTCAT
* * *
100823956 ACATCAAGAAACACATATATGAGCTCAACAATATTCAAATTCTCAT
1 ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAACTCTCAT
100824002 ACA
1 ACA
100824005 CATATGTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.25
Consensus pattern (46 bp):
ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAACTCTCAT
Found at i:100829337 original size:15 final size:15
Alignment explanation
Indices: 100829313--100829354 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
100829303 TGATGATTGA
*
100829313 ACAA-AAAATACAAT
1 ACAATAAAATAAAAT
100829327 ACAATAAAATAAAAT
1 ACAATAAAATAAAAT
100829342 A-AATAGAAATAAA
1 ACAATA-AAATAAA
100829355 CAAAAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
ACAATAAAATAAAAT
Found at i:100829440 original size:75 final size:75
Alignment explanation
Indices: 100829338--100829607 Score: 393
Period size: 75 Copynumber: 3.6 Consensus size: 75
100829328 CAATAAAATA
* * *
100829338 AAATAAATAGAAATAAACAAAAGAAAGAAAAGGGATTTGATGGAAAAACAGAGGTAATGATGACG
1 AAATAAATAG-AATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACG
100829403 ATTAAACAATC
65 ATTAAACAATC
* *
100829414 AAATAAATAGAATAAACAAAACAAAGAAAAGGAAATTGATGGCAAAACAAAGGTAATGATGACGA
1 AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACGA
100829479 TTAAACAATC
66 TTAAACAATC
* * *
100829489 AAATAAACAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGCAATGATGACAA
1 AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACGA
100829554 TTAAACAATC
66 TTAAACAATC
* * * * *
100829564 AAATTAACA-AA-AAA-AACACAAAGACAAGGAAATTGATGGCAAAA
1 AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAA
100829608 AAATATGATA
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 27 0.15
73 3 0.02
74 2 0.01
75 138 0.77
76 10 0.06
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (75 bp):
AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACGA
TTAAACAATC
Found at i:100843728 original size:27 final size:26
Alignment explanation
Indices: 100843678--100843729 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
100843668 TAAATTATAT
* * *
100843678 AAATTATTTTATTTTTTTATTATTAG
1 AAATTATTTTATTTATTAAGTATTAG
100843704 AAATTATTTTTATTTATTAAGTATTA
1 AAATTA-TTTTATTTATTAAGTATTA
100843730 CTAATAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
AAATTATTTTATTTATTAAGTATTAG
Found at i:100845984 original size:3 final size:3
Alignment explanation
Indices: 100845973--100846035 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
100845963 CAATAATACC
* * *
100845973 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
100846018 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
100846036 GATAGCAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:100847102 original size:31 final size:29
Alignment explanation
Indices: 100847067--100847135 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
100847057 TTGTTTGTAA
*
100847067 TTGGGCTGAGGGTCTATTTTGGGTCTTGGGT
1 TTGGGCTGAGGGT-TATTTT-GGTCATGGGT
* * *
100847098 TTGGGCTGGTGGGTTGTTTTGGTGATGGGT
1 TTGGGCT-GAGGGTTATTTTGGTCATGGGT
100847128 TTGGGCTG
1 TTGGGCTG
100847136 GGTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 12 0.36
32 5 0.15
ACGTcount: A:0.04, C:0.07, G:0.46, T:0.42
Consensus pattern (29 bp):
TTGGGCTGAGGGTTATTTTGGTCATGGGT
Found at i:100848371 original size:23 final size:23
Alignment explanation
Indices: 100848345--100848388 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
100848335 ATTAGATGAT
100848345 TTTAAATT-TCATAAATGTTTTTA
1 TTTAAATTATCA-AAATGTTTTTA
100848368 TTTAAATTATCAAAATGTTTT
1 TTTAAATTATCAAAATGTTTT
100848389 AAATTCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTAAATTATCAAAATGTTTTTA
Found at i:100849457 original size:22 final size:22
Alignment explanation
Indices: 100849429--100849473 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
100849419 AATTTGTTCC
*
100849429 ACATAAATAATAAAAGAAGCAT
1 ACATAAATAATAAAACAAGCAT
100849451 ACATAAATAATAAAACAAGCAT
1 ACATAAATAATAAAACAAGCAT
100849473 A
1 A
100849474 AAAAATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.11, G:0.07, T:0.18
Consensus pattern (22 bp):
ACATAAATAATAAAACAAGCAT
Found at i:100853393 original size:3 final size:3
Alignment explanation
Indices: 100853385--100854195 Score: 1622
Period size: 3 Copynumber: 270.3 Consensus size: 3
100853375 AATTCAACTA
100853385 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853433 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853481 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853529 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853577 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853625 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853673 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853721 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853769 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853817 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853865 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853913 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100853961 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100854009 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100854057 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100854105 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
100854153 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
100854196 ATCTAAGCAA
Statistics
Matches: 808, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 808 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:100857886 original size:9 final size:9
Alignment explanation
Indices: 100857859--100857888 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
100857849 ATCTTCCTAA
100857859 TTGGTTTAG
1 TTGGTTTAG
*
100857868 CTGGTTTAG
1 TTGGTTTAG
100857877 TTGGTTTAG
1 TTGGTTTAG
100857886 TTG
1 TTG
100857889 TTTGTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (9 bp):
TTGGTTTAG
Found at i:100858304 original size:8 final size:7
Alignment explanation
Indices: 100858288--100858352 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
100858278 TAGATACATT
100858288 ATTTTTA
1 ATTTTTA
100858295 ATTCTTTA
1 ATT-TTTA
100858303 ATTTTTA
1 ATTTTTA
100858310 ATTTTCTA
1 ATTTT-TA
100858318 ATTTATTA
1 ATTT-TTA
100858326 TTATTTGTTTA
1 --A-TT-TTTA
100858337 ATTTTT-
1 ATTTTTA
100858343 -TTTTTA
1 ATTTTTA
100858349 ATTT
1 ATTT
100858353 GTAGGTTGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
5 5 0.10
7 18 0.37
8 17 0.35
9 2 0.04
10 1 0.02
11 5 0.10
12 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:100858308 original size:15 final size:15
Alignment explanation
Indices: 100858288--100858321 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
100858278 TAGATACATT
100858288 ATTTTTAATTCTT-TA
1 ATTTTTAATT-TTCTA
100858303 ATTTTTAATTTTCTA
1 ATTTTTAATTTTCTA
100858318 ATTT
1 ATTT
100858322 ATTATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTAATTTTCTA
Found at i:100869958 original size:45 final size:46
Alignment explanation
Indices: 100869909--100870100 Score: 209
Period size: 45 Copynumber: 4.3 Consensus size: 46
100869899 TCAGCCACGA
100869909 TCTTATTTC-TTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
* * *
100869954 TCTTA-TTCATTTCC-ATCATGTTGCCATAGTGTATTTAAACTATGG
1 TCTTATTTCATTTCCGA-CATGATGCCATAGTGTCTTTCAACTATGG
**** * * *
100869999 TCTTATTT-ATTTTTTTCATGTTGCCATAGTGTTTTTCAACTATGA
1 TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
* *
100870044 TCTTA-TTCATTTCTGATAT-AGTGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTCATTTCCGACATGA-TGCCATAGTGTCTTTCAACTATGG
100870089 TCTTA-TTCATTT
1 TCTTATTTCATTT
100870101 TTAACGCCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
44 6 0.05
45 117 0.94
46 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (46 bp):
TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
Found at i:100870038 original size:90 final size:90
Alignment explanation
Indices: 100869925--100870102 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 90
100869915 TTCTTTCCGA
*
100869925 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTC-CATCAT-GTTGCCATAGTGTAT
1 CATGATGCCATAGTGTCTTTCAACTATGATCTTATTCATTTCTCAT-ATAG-TGCCATAGTGTAT
*
100869988 TTAAACTATGGTCTTATTTATTTTTTT
64 TTAAACTATGGTCTTATTCATTTTTTT
* * * *
100870015 CATGTTGCCATAGTGTTTTTCAACTATGATCTTATTCATTTCTGATATAGTGCCATAGTGTCTTT
1 CATGATGCCATAGTGTCTTTCAACTATGATCTTATTCATTTCTCATATAGTGCCATAGTGTATTT
*
100870080 CAACTATGGTCTTATTCATTTTT
66 AAACTATGGTCTTATTCATTTTT
100870103 AACGCCAATG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 76 0.96
91 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (90 bp):
CATGATGCCATAGTGTCTTTCAACTATGATCTTATTCATTTCTCATATAGTGCCATAGTGTATTT
AAACTATGGTCTTATTCATTTTTTT
Found at i:100872179 original size:10 final size:10
Alignment explanation
Indices: 100872164--100872194 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
100872154 AAAACTATTA
100872164 TTATTACTTT
1 TTATTACTTT
100872174 TTATTACTTT
1 TTATTACTTT
100872184 TTATTA-TTT
1 TTATTACTTT
100872193 TT
1 TT
100872195 GTTGGGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTACTTT
Found at i:100872895 original size:42 final size:42
Alignment explanation
Indices: 100872795--100872896 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 42
100872785 ATTTAGAGAT
*
100872795 CTCACACAGCCATGTCTGGTGGGCACACGGACGTGTGAGACC
1 CTCACACAGCCATGTCTGGTGGGCACACAGACGTGTGAGACC
*
100872837 CTCACAC-GATCATGTCTGGTGGGCACACA-AGCGTGTGAGACC
1 CTCACACAG-CCATGTCTGGTGGGCACACAGA-CGTGTGAGACC
*
100872879 CTCACACAGCCGTGTCTG
1 CTCACACAGCCATGTCTG
100872897 CCTTGTACCC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (42 bp):
CTCACACAGCCATGTCTGGTGGGCACACAGACGTGTGAGACC
Done.