Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 9 of 207
Found at i:3064629 original size:31 final size:32
Alignment explanation
Indices: 3064567--3064629 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
3064557 CCCTAAATCT
* *
3064567 ATCCCCATAGCCCCTTAAAGCATAACCCCTAA
1 ATCCCCATAACCCCTTAAAGCATAACACCTAA
* *
3064599 ATCCCCCTAACCCC-TAAATCATAACACCTAA
1 ATCCCCATAACCCCTTAAAGCATAACACCTAA
3064630 CCCTTAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.37, C:0.41, G:0.03, T:0.19
Consensus pattern (32 bp):
ATCCCCATAACCCCTTAAAGCATAACACCTAA
Found at i:3065120 original size:112 final size:113
Alignment explanation
Indices: 3064846--3065393 Score: 664
Period size: 112 Copynumber: 4.9 Consensus size: 113
3064836 TAAATAAATT
* * *
3064846 TAAATCCCTGAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCTGAAAGCTAAGAAAA
1 TAAAGCCCT-AGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
* *
3064911 CGGTGTCGTTGGGTTTAATTTTATTTGCGGCGCTTTCAT-AAAAGCGCCGC
65 CGGCGTCGTTGGGCTTAATTTT-TTTGCGGCGCTTTCATCAAAA-CGCCGC
* * * *
3064961 T--AGCCCTAGCATTAGCGGCACATTATTGAAAACGCCACTAAACCCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAAC
* *
3065024 GACGTCGTTGGGCTTAGTTTTTTTGCGGCGCTTT-ATCCAAAACGCCGC
66 GGCGTCGTTGGGCTTAATTTTTTTGCGGCGCTTTCAT-CAAAACGCCGC
* * * * * * * *
3065072 TAAAACCAC-AGCATTAGCGACGCTTTACTAAAAATGCCGCCAAA-CCCCCGAAGGTTAAGAAAA
1 TAAAGCC-CTAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
* * * *
3065135 CGGTGTCGTTGGGTTTAATTTTTTTGCGGTGCTTTCATAAAAACGCCGC
65 CGGCGTCGTTGGGCTTAATTTTTTTGCGGCGCTTTCATCAAAACGCCGC
* * *
3065184 TAAAGCCCTAGCATTAGCGGCACATTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAAC
* * * * *
3065249 GGCATCGTATGGGCTTAGTTTTTTTGCGGCGC-TTGATCAAAAAGCCTC
66 GGCGTCGT-TGGGCTTAATTTTTTTGCGGCGCTTTCATCAAAACGCCGC
* *
3065297 TAAAGCCCTCAGCATTAGCGACGCTTTACTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
1 TAAAGCCCT-AGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
*
3065362 CGGCGTCGTTGGGCTT-A-TTTTTTACGGCGCTT
65 CGGCGTCGTTGGGCTTAATTTTTTTGCGGCGCTT
3065394 CTTATTTTCA
Statistics
Matches: 365, Mismatches: 57, Indels: 25
0.82 0.13 0.06
Matches are distributed among these distances:
110 2 0.01
111 33 0.09
112 162 0.44
113 88 0.24
114 79 0.22
115 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (113 bp):
TAAAGCCCTAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAATTTTTTTGCGGCGCTTTCATCAAAACGCCGC
Found at i:3065247 original size:225 final size:224
Alignment explanation
Indices: 3064856--3065393 Score: 814
Period size: 225 Copynumber: 2.4 Consensus size: 224
3064846 TAAATCCCTG
* *
3064856 AGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCTGAAAGCTAAGAAAACGGTGTCGTT
1 AGCATTAGCGACGCTTTACTAAAAACGCCGCTAAACCCCC-GAAAGCTAAGAAAACGGTGTCGTT
*
3064921 GGGTTTAATTTTATTTGCGGCGCTTTCATAAAAGCGCCGCTAGCCCTAGCATTAGCGGCACATTA
65 GGGTTTAATTTT-TTTGCGGCGCTTTCATAAAAACGCCGCTAGCCCTAGCATTAGCGGCACATTA
*
3064986 TTGAAAACGCCACTAAACCCCCCGAAAGCTCAGAAAACGACGTCGT-TGGGCTTAGTTTTTTTGC
129 TTGAAAACGCCACTAAACCCCCCGAAAGCTCAGAAAACGACATCGTATGGGCTTAGTTTTTTTGC
* *
3065050 GGCGCTTTATCCAAAACGCCGCTAAA-ACCAC
194 GGCGCTTGAT-CAAAAAGCCGCTAAAGACCAC
* * * *
3065081 AGCATTAGCGACGCTTTACTAAAAATGCCGCCAAACCCCCGAAGGTTAAGAAAACGGTGTCGTTG
1 AGCATTAGCGACGCTTTACTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGTGTCGTTG
*
3065146 GGTTTAATTTTTTTGCGGTGCTTTCATAAAAACGCCGCTAAAGCCCTAGCATTAGCGGCACATTA
66 GGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCT--AGCCCTAGCATTAGCGGCACATTA
* *
3065211 TTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGGCATCGTATGGGCTTAGTTTTTTTGC
129 TTGAAAACGCCACTAAACCCCCCGAAAGCTCAGAAAACGACATCGTATGGGCTTAGTTTTTTTGC
* * *
3065276 GGCGCTTGATCAAAAAGCCTCTAAAGCCCTC
194 GGCGCTTGATCAAAAAGCCGCTAAAGACCAC
* *
3065307 AGCATTAGCGACGCTTTACTAAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGGCGTCGTT
1 AGCATTAGCGACGCTTTACTAAAAACGCCGCTAAA-CCCCCGAAAGCTAAGAAAACGGTGTCGTT
* *
3065372 GGGCTT-A-TTTTTTACGGCGCTT
65 GGGTTTAATTTTTTTGCGGCGCTT
3065394 CTTATTTTCA
Statistics
Matches: 283, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
223 26 0.09
224 34 0.12
225 129 0.46
226 64 0.23
227 30 0.11
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (224 bp):
AGCATTAGCGACGCTTTACTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGTGTCGTTG
GGTTTAATTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAGCCCTAGCATTAGCGGCACATTATT
GAAAACGCCACTAAACCCCCCGAAAGCTCAGAAAACGACATCGTATGGGCTTAGTTTTTTTGCGG
CGCTTGATCAAAAAGCCGCTAAAGACCAC
Found at i:3069707 original size:140 final size:139
Alignment explanation
Indices: 3069445--3069728 Score: 469
Period size: 140 Copynumber: 2.0 Consensus size: 139
3069435 GAAGTCAAAG
*
3069445 AAACTTATCAAATTCATTTGTAAATGATAAATTTAAGATTTGGACATCAACTTTCCTTTAAAATT
1 AAACTTATCAAATTCATTTGTAAATGATAAATTTAAGATTTGAACATCAACTTTCCTTTAAAATT
*
3069510 TCGAACACTCCTCGAAGTACAAACTCCAACATCCCTCATGTTCCGATAGCGTTCCTCCTCTAAAG
66 TCGAACACTCCTCGAAGTACAAACTCCAACATCCCTCATGTTCCGATAGCGTTCCTCCTCAAAAG
*
3069575 ACTATCAAC
131 ACTACCAAC
* * *
3069584 AAACTTATCTCAATTCATTTGTAAATGATAAATTTAAGATTTGAACATCAACTTTTCTTTGAAAT
1 AAACTTATC-AAATTCATTTGTAAATGATAAATTTAAGATTTGAACATCAACTTTCCTTTAAAAT
** * *
3069649 TTCGAACGGTCCTCGAAGTACAAACTCCGACATCCCTCATGTTCCGATAGTGTTCCTCCTCAAAA
65 TTCGAACACTCCTCGAAGTACAAACTCCAACATCCCTCATGTTCCGATAGCGTTCCTCCTCAAAA
3069714 GACTACCAAC
130 GACTACCAAC
3069724 AAACT
1 AAACT
3069729 GCATAATTAT
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
139 9 0.07
140 125 0.93
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (139 bp):
AAACTTATCAAATTCATTTGTAAATGATAAATTTAAGATTTGAACATCAACTTTCCTTTAAAATT
TCGAACACTCCTCGAAGTACAAACTCCAACATCCCTCATGTTCCGATAGCGTTCCTCCTCAAAAG
ACTACCAAC
Found at i:3077796 original size:31 final size:31
Alignment explanation
Indices: 3077727--3077796 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
3077717 ATTACAAAAT
* * * *
3077727 AGTCACTAAATTATTCGAAAATTTTTATTTA
1 AGTCACTGAACTATTCGAAAATTATTAATTA
* *
3077758 AGTCACTGAACTATTTGAAAGTTATTAATTA
1 AGTCACTGAACTATTCGAAAATTATTAATTA
3077789 AGTCACTG
1 AGTCACTG
3077797 GATTGTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (31 bp):
AGTCACTGAACTATTCGAAAATTATTAATTA
Found at i:3081537 original size:62 final size:62
Alignment explanation
Indices: 3081440--3081564 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
3081430 ATGCTTGCCA
* *
3081440 AAGTTTGACCCTACATGAAATATAGACTTCAAATTTGTAAATGGATAACTCTAACCCATTTT
1 AAGTTTGACCCTACACGAAATATAGACTTAAAATTTGTAAATGGATAACTCTAACCCATTTT
*
3081502 AAGTTTGACCCTATACGAAATATAGACTTAAAATTTGTAAATGGATAACTCTAACCCATTTT
1 AAGTTTGACCCTACACGAAATATAGACTTAAAATTTGTAAATGGATAACTCTAACCCATTTT
3081564 A
1 A
3081565 GGCTAGCTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (62 bp):
AAGTTTGACCCTACACGAAATATAGACTTAAAATTTGTAAATGGATAACTCTAACCCATTTT
Found at i:3081610 original size:23 final size:23
Alignment explanation
Indices: 3081575--3081620 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3081565 GGCTAGCTTA
*
3081575 TTTTTTTATTTAATATTAAATAT
1 TTTTTTTATTTAAAATTAAATAT
*
3081598 TTTTATTTA-TTAAAATTATATAT
1 TTTT-TTTATTTAAAATTAAATAT
3081621 ATGCAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTTTTATTTAAAATTAAATAT
Found at i:3097302 original size:26 final size:28
Alignment explanation
Indices: 3097256--3097318 Score: 94
Period size: 26 Copynumber: 2.3 Consensus size: 28
3097246 GAGATCATGG
3097256 AAGATGATCTCATAGGAGATGATCAACT
1 AAGATGATCTCATAGGAGATGATCAACT
*
3097284 AAGATGA-C-CATAGGAGATGATCAAGT
1 AAGATGATCTCATAGGAGATGATCAACT
*
3097310 GAGATGATC
1 AAGATGATC
3097319 CAGACGAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 23 0.72
27 2 0.06
28 7 0.22
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (28 bp):
AAGATGATCTCATAGGAGATGATCAACT
Found at i:3097317 original size:13 final size:13
Alignment explanation
Indices: 3097271--3097318 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
3097261 GATCTCATAG
*
3097271 GAGATGATCAACT
1 GAGATGATCAAGT
* *
3097284 AAGATGACCATAG-
1 GAGATGATCA-AGT
3097297 GAGATGATCAAGT
1 GAGATGATCAAGT
3097310 GAGATGATC
1 GAGATGATC
3097319 CAGACGAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.89
14 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (13 bp):
GAGATGATCAAGT
Found at i:3098174 original size:22 final size:22
Alignment explanation
Indices: 3098132--3098174 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3098122 AGTTAAGGAT
* *
3098132 AAATGGTATAAACAATCATAAA
1 AAATGGAATAAAAAATCATAAA
3098154 AAATGGAATAAATAAAT-ATAA
1 AAATGGAATAAA-AAATCATAA
3098175 GAGATGAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.63, C:0.05, G:0.09, T:0.23
Consensus pattern (22 bp):
AAATGGAATAAAAAATCATAAA
Found at i:3098870 original size:29 final size:28
Alignment explanation
Indices: 3098838--3098894 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
3098828 AGATAAGATC
*
3098838 TATAAGTATATATATATATGAATAAAAAT
1 TATAAGCATATATATATAT-AATAAAAAT
* * *
3098867 TATAGGCGTATATATATATTATAAAAAT
1 TATAAGCATATATATATATAATAAAAAT
3098895 GTATGATGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (28 bp):
TATAAGCATATATATATATAATAAAAAT
Found at i:3098960 original size:3 final size:3
Alignment explanation
Indices: 3098952--3098982 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3098942 TGTACATAGC
3098952 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3098983 CGGGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3100552 original size:129 final size:129
Alignment explanation
Indices: 3100350--3100703 Score: 426
Period size: 129 Copynumber: 2.7 Consensus size: 129
3100340 CAACGTCAGG
* * * * * ** * *
3100350 GAGATAGGACTTGATGCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTAT-AGTTTTAAT
1 GAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGA-TTTTAAT
* * **
3100413 CTGCTCCACTGTAACTTTAAGGAGATAGGATTTATTTCTTTCGTCTGCTCCACTGTAACCTCAAA
65 CCGCTCCACTGTAACTTTAAGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACAACCTCAAA
*
3100478 GAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAAT
1 GAGATAAGA-CTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAAT
* * * **
3100542 CCGCTTCACTGTAACTTCAAGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACAACTTCAGG
65 CCGCTCCACTGTAACTTTAAGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACAACCTCAAA
* * * *
3100607 GAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATC
1 GAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATC
* * *
3100672 CACTCCACTTGTAACTTTAGGGAGACAGGATT
66 CGCTCCAC-TGTAACTTTAAGGAGATAGGATT
3100704 ATCGGCTTCA
Statistics
Matches: 193, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
128 29 0.15
129 143 0.74
130 21 0.11
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (129 bp):
GAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATC
CGCTCCACTGTAACTTTAAGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACAACCTCAAA
Found at i:3100558 original size:44 final size:44
Alignment explanation
Indices: 3100505--3100688 Score: 137
Period size: 44 Copynumber: 4.2 Consensus size: 44
3100495 GATCTACTCT
*
3100505 ACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTC
1 ACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCC
* * ** *
3100549 ACTGTAACTTCA-AGGAGATAGGAT-TGAT-TTCTTTCGTCTGCTCC
1 ACTGTAACTTCAGA-GAGATAAGATCTG-TGAT-TTTAATCCGCTCC
** * * * * *
3100593 ACTACAACTTCAGGGAGATAAGA-CTG-GA-TGTGATCTGCTCT
1 ACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCC
* * * *
3100634 ACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCACTCC
1 ACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCC
3100678 ACTTGTAACTT
1 AC-TGTAACTT
3100689 TAGGGAGACA
Statistics
Matches: 105, Mismatches: 25, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
41 30 0.29
42 2 0.02
43 5 0.05
44 61 0.58
45 7 0.07
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
ACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCC
Found at i:3100820 original size:44 final size:44
Alignment explanation
Indices: 3100724--3100890 Score: 124
Period size: 44 Copynumber: 3.8 Consensus size: 44
3100714 ATCTAATGTG
* * * * * *
3100724 ATCTATTCTACTGTAACTTCAAAGAAATAAGATCCTTTA-TTTTA
1 ATCTACTCCACTGTAACTTCAGAGAAATAAGAT-CTCTAGCTTCA
* ** *
3100768 ATCCACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAAATAAGATCT-CTAGCTTCA
** * *
3100812 ATCTACTCCGTTATAA-TCTCAGGGAAATAAGATCTCTAGCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAAATAAGATCTCTAGCTTCA
* * * *
3100856 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 ATCTACTCCACTGTAACTTCAGAGAAATAAGATCT
3100891 GAAATTCTTC
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 89 0.95
45 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGAGAAATAAGATCTCTAGCTTCA
Found at i:3100923 original size:46 final size:44
Alignment explanation
Indices: 3100829--3101294 Score: 253
Period size: 44 Copynumber: 10.6 Consensus size: 44
3100819 CCGTTATAAT
* * * *
3100829 CTCAGGGAAATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAAC
1 CTCAGGGAGATAAGATCTGAT-TCTTCGATCTGCTCCACTGTAAC
* *
3100873 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAAC
1 CTCAGGGAGATAAGATCTG--ATTCTTCGATCTGCTCCACTGTAAC
* * * **
3100919 CTCAGGGAGATAAGACCTGA---TGCGATCTACTCTGCTGTAAC
1 CTCAGGGAGATAAGATCTGATTCTTCGATCTGCTCCACTGTAAC
* * * * * * *
3100960 TTTAGAGAGATAAGATCCTTTATT-TT-AATCCGCTCCACTGTAAT
1 CTCAGGGAGATAAGAT-C-TGATTCTTCGATCTGCTCCACTGTAAC
* * * *
3101004 CTCAGGGAGATAGGAT-TG-TGTCTTGGATCTGCTCCATTGTAAT
1 CTCAGGGAGATAAGATCTGAT-TCTTCGATCTGCTCCACTGTAAC
* * * *
3101047 CTCAAGGAGATAAGATCT-CTTGCTTCAATCTGTTCCACTGTAAC
1 CTCAGGGAGATAAGATCTGATT-CTTCGATCTGCTCCACTGTAAC
* *
3101091 ATCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAAC
1 CTCAGGGAGATAAGATCTG--ATTCTTCGATCTGCTCCACTGTAAC
* * * **
3101137 CTCAGGGAGATAAGACCTGA---TGCGATCTACTCTGCTGTAAC
1 CTCAGGGAGATAAGATCTGATTCTTCGATCTGCTCCACTGTAAC
* * * * * ** * *
3101178 TTAAGAGAGATAAGATCCTTTATT-TT-AATCCACCCCACTGTAAT
1 CTCAGGGAGATAAGAT-C-TGATTCTTCGATCTGCTCCACTGTAAC
** * * *
3101222 CTCAGGGAGATAAGA-CT-ACCAGCTTCAATCTGCTCCGCTGTAAT
1 CTCAGGGAGATAAGATCTGA--TTCTTCGATCTGCTCCACTGTAAC
*
3101266 CTCAGAGAGATAAGATCTGAAATTCTTCG
1 CTCAGGGAGATAAGATCTG--ATTCTTCG
3101295 GTCTATTCCC
Statistics
Matches: 318, Mismatches: 76, Indels: 54
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 60 0.19
42 5 0.02
43 36 0.11
44 130 0.41
45 4 0.01
46 77 0.24
47 3 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCAGGGAGATAAGATCTGATTCTTCGATCTGCTCCACTGTAAC
Found at i:3101113 original size:218 final size:219
Alignment explanation
Indices: 3100723--3101283 Score: 799
Period size: 218 Copynumber: 2.6 Consensus size: 219
3100713 AATCTAATGT
* * *
3100723 GATCTATTCTACTGTAACTTCAA-AGAAATAAGATCCTTTATTTTAATCCACTCCACTGTAA-CT
1 GATCTACTCTGCTGTAACTT-AAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC-
* * * *
3100786 TCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTCAGGGAAATAAGATCTCTAG
64 TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCATTATAATCTCAAGGAAATAAGATCTCTAG
*
3100851 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
129 CTTCAATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
3100916 AACCTCAGGGAGATAAGACCTGATGC
194 AACCTCAGGGAGATAAGACCTGATGC
* *
3100942 GATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTGCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
* ** * * * *
3101007 AGGGAGATAGGATT-GT-GTCTTGGATCTGCTCCATTGTAATCTCAAGGAGATAAGATCTCTTGC
66 AGGGAGATAGGATTACTAG-CTTCAATCTACTCCATTATAATCTCAAGGAAATAAGATCTCTAGC
* *
3101070 TTCAATCTGTTCCACTGTAACATCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTA
130 TTCAATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTA
3101135 ACCTCAGGGAGATAAGACCTGATGC
195 ACCTCAGGGAGATAAGACCTGATGC
*
3101160 GATCTACTCTGCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCACCCCACTGTAATCTC
1 GATCTACTCTGCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
* * * * ** * *
3101225 AGGGAGATAAGACTACCAGCTTCAATCTGCTCCGCTGTAATCTC-AGAGAGATAAGATCT
66 AGGGAGATAGGATTACTAGCTTCAATCTACTCCATTATAATCTCAAG-GAAATAAGATCT
3101284 GAAATTCTTC
Statistics
Matches: 306, Mismatches: 30, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
217 1 0.00
218 202 0.66
219 101 0.33
220 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (219 bp):
GATCTACTCTGCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
AGGGAGATAGGATTACTAGCTTCAATCTACTCCATTATAATCTCAAGGAAATAAGATCTCTAGCT
TCAATCTGCTCCACTGTAACATCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAA
CCTCAGGGAGATAAGACCTGATGC
Found at i:3102530 original size:7 final size:7
Alignment explanation
Indices: 3102518--3102557 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
3102508 TTAGCCTCTC
3102518 CATTTTT
1 CATTTTT
3102525 CA-TTTT
1 CATTTTT
3102531 CATTTTT
1 CATTTTT
3102538 CATTTTT
1 CATTTTT
*
3102545 CA-TTCT
1 CATTTTT
3102551 CATTTTT
1 CATTTTT
3102558 TTTTGACTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:3102536 original size:13 final size:14
Alignment explanation
Indices: 3102518--3102557 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
3102508 TTAGCCTCTC
3102518 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
3102531 CATTTTTCATTTTT
1 CATTTTTCATTTTT
*
3102545 CA-TTCTCATTTTT
1 CATTTTTCATTTTT
3102558 TTTTGACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:3102541 original size:20 final size:20
Alignment explanation
Indices: 3102518--3102557 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3102508 TTAGCCTCTC
*
3102518 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
3102538 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
3102558 TTTTGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:3103517 original size:22 final size:21
Alignment explanation
Indices: 3103457--3103518 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
3103447 GATTTTGATT
*
3103457 TTTTCTTCTTTCTTC-TTTTTG
1 TTTTCTTCATT-TTCATTTTTG
* *
3103478 TTTTATT-ATTTTTGATTTTTG
1 TTTTCTTCA-TTTTCATTTTTG
3103499 ATTTTCTTCATTTTCATTTT
1 -TTTTCTTCATTTTCATTTT
3103519 GACTTTGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.06
21 14 0.44
22 15 0.47
23 1 0.03
ACGTcount: A:0.10, C:0.11, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTCTTCATTTTCATTTTTG
Found at i:3103544 original size:40 final size:39
Alignment explanation
Indices: 3103418--3103547 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 39
3103408 TTCATTCTTC
3103418 TTTCTTTTTC-TCATTTTTATTTTGATCTTGATTTTGATTT
1 TTTCTTTTTCTTCATTTTTATTTTGAT-TTGATTTTGA-TT
*
3103458 TTTCTTCTTTCTTC-TTTTTGTTTT-A-TT-ATTTTTGATT
1 TTTCTT-TTTCTTCATTTTTATTTTGATTTGA-TTTTGATT
** *
3103495 TTTGATTTTCTTCATTTTCATTTTGACTTTGATTTTGATT
1 TTTCTTTTTCTTCATTTTTATTTTGA-TTTGATTTTGATT
*
3103535 TTTCCTTTTCTTC
1 TTTCTTTTTCTTC
3103548 CCTTTTTTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.09
37 15 0.20
38 9 0.12
40 28 0.37
41 14 0.19
42 2 0.03
ACGTcount: A:0.11, C:0.12, G:0.07, T:0.70
Consensus pattern (39 bp):
TTTCTTTTTCTTCATTTTTATTTTGATTTGATTTTGATT
Found at i:3104680 original size:9 final size:9
Alignment explanation
Indices: 3104666--3104698 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3104656 TTGTTCATTG
3104666 TTATTTATT
1 TTATTTATT
3104675 TTATTTATT
1 TTATTTATT
3104684 TT-TTTATT
1 TTATTTATT
3104692 TTGATTT
1 TT-ATTT
3104699 GTGTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 11 0.50
10 3 0.14
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTATT
Found at i:3105344 original size:13 final size:13
Alignment explanation
Indices: 3105326--3105350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3105316 TCAAATATTT
3105326 TAGTATTATTATA
1 TAGTATTATTATA
3105339 TAGTATTATTAT
1 TAGTATTATTAT
3105351 TTCTTGTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TAGTATTATTATA
Found at i:3105407 original size:28 final size:29
Alignment explanation
Indices: 3105369--3105423 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
3105359 GATATTATTG
3105369 TCTTTATTTCATTTGTGT-ATTTTTTTTCT
1 TCTTTATTTCATTT-TGTAATTTTTTTTCT
*
3105398 TCTTT-TTTCATTTTTTAATTTTTTTT
1 TCTTTATTTCATTTTGTAATTTTTTTT
3105424 ATGTCTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 17 0.71
29 5 0.21
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.76
Consensus pattern (29 bp):
TCTTTATTTCATTTTGTAATTTTTTTTCT
Found at i:3105614 original size:22 final size:22
Alignment explanation
Indices: 3105584--3105640 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
3105574 TTAATTTTCA
*
3105584 TATACATATATATATACCTTAT
1 TATAAATATATATATACCTTAT
* * *
3105606 TATAAATATCTTTATATCTTAT
1 TATAAATATATATATACCTTAT
**
3105628 TATGTATATATAT
1 TATAAATATATAT
3105641 CTATAGCTCT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
TATAAATATATATATACCTTAT
Found at i:3105752 original size:5 final size:5
Alignment explanation
Indices: 3105742--3105772 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
3105732 GCCTATAAAC
3105742 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
3105773 ATATATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:3110482 original size:27 final size:27
Alignment explanation
Indices: 3110452--3110506 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
3110442 AGATAAGATC
3110452 TATA-AGTATATATATATGAATAAAAAT
1 TATAGAGTATATATATAT-AATAAAAAT
* *
3110479 TATAGGCGTATATATATATTATAAAAAT
1 TATA-GAGTATATATATATAATAAAAAT
3110507 GTATGATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 8 0.33
29 12 0.50
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (27 bp):
TATAGAGTATATATATATAATAAAAAT
Found at i:3110572 original size:3 final size:3
Alignment explanation
Indices: 3110564--3110594 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3110554 TGTACATAGC
3110564 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3110595 CGGGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3113779 original size:62 final size:62
Alignment explanation
Indices: 3113639--3113828 Score: 290
Period size: 62 Copynumber: 3.0 Consensus size: 62
3113629 AATTTGGATT
*
3113639 ATATTGTGGCACATTATACTTTTAAAGCCTAAAATGCAACTCCATATTTCCTCAAGATTGGACC
1 ATATTGTGGCACATTATACTTTTAAAGCCTAAAATGCAAC-CC-CATTTCCTCAAGATTGGACC
* * *
3113703 ATATTGTGGCACATTATACTTTTAAAGCCTAAATTGCAGCCCCATTTCCTCAAAATTGGACC
1 ATATTGTGGCACATTATACTTTTAAAGCCTAAAATGCAACCCCATTTCCTCAAGATTGGACC
* * * *
3113765 ATATTGTGGCACATTATGCTTTTGAAGTCTAAAATGCAACCCCATCTCCTCAAGATTGGACC
1 ATATTGTGGCACATTATACTTTTAAAGCCTAAAATGCAACCCCATTTCCTCAAGATTGGACC
3113827 AT
1 AT
3113829 GATGGCCTTG
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
62 75 0.65
63 2 0.02
64 38 0.33
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (62 bp):
ATATTGTGGCACATTATACTTTTAAAGCCTAAAATGCAACCCCATTTCCTCAAGATTGGACC
Found at i:3125514 original size:12 final size:10
Alignment explanation
Indices: 3125489--3125546 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
3125479 ATTTATATTA
3125489 TAATTAAATT
1 TAATTAAATT
3125499 TAATTAAAATTT
1 TAATT-AAA-TT
*
3125511 TAATTTAATT
1 TAATTAAATT
*
3125521 TAATTTAATT
1 TAATTAAATT
3125531 TAATTTAAATT
1 TAA-TTAAATT
*
3125542 CAATT
1 TAATT
3125547 CTAGCCAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 22 0.52
11 13 0.31
12 7 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
TAATTAAATT
Found at i:3125517 original size:5 final size:5
Alignment explanation
Indices: 3125479--3125538 Score: 66
Period size: 5 Copynumber: 11.2 Consensus size: 5
3125469 TTACATTAAT
* *
3125479 ATTTA TATTATA ATTAA ATTTA ATTAAA ATTTTA ATTTA ATTTA ATTTA
1 ATTTA -ATT-TA ATTTA ATTTA ATT-TA A-TTTA ATTTA ATTTA ATTTA
3125528 ATTTA ATTTA A
1 ATTTA ATTTA A
3125539 ATTCAATTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 33 0.70
6 10 0.21
7 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTTA
Found at i:3125531 original size:32 final size:34
Alignment explanation
Indices: 3125479--3125541 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 34
3125469 TTACATTAAT
3125479 ATTTATATTATAATTAAATTTAATTAAAATTTTA
1 ATTTATATTATAATTAAATTTAATTAAAATTTTA
* *
3125513 ATTTA-ATT-TAATTTAATTTAATTTAAATT
1 ATTTATATTATAATTAAATTTAATTAAAATT
3125542 CAATTCTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 19 0.70
33 3 0.11
34 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
ATTTATATTATAATTAAATTTAATTAAAATTTTA
Found at i:3126500 original size:22 final size:20
Alignment explanation
Indices: 3126454--3126502 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
3126444 AGCTCTGTTA
*
3126454 CCAAAAATTGTATATAAGTT
1 CCAAAAATTGTATAGAAGTT
*
3126474 CCAAAAATTGTATGTAGAATTT
1 CCAAAAATTGTA--TAGAAGTT
3126496 CCAAAAA
1 CCAAAAA
3126503 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
22 13 0.52
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
CCAAAAATTGTATAGAAGTT
Found at i:3127890 original size:7 final size:7
Alignment explanation
Indices: 3127880--3127907 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3127870 GTCTTATCTC
3127880 TTTATTT
1 TTTATTT
3127887 TTTATTT
1 TTTATTT
3127894 TTTATTT
1 TTTATTT
3127901 TTTATTT
1 TTTATTT
3127908 AAGCCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTATTT
Found at i:3137812 original size:34 final size:34
Alignment explanation
Indices: 3137765--3137862 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 34
3137755 CCAAAATTCA
** *
3137765 TATATAAAATTGAACATTAAAGTATCTTTATTGG
1 TATATAATTTTGAACATTATAGTATCTTTATTGG
*** *
3137799 TATATAATTTTGAACA-TATA-TAT-AAAATTCG
1 TATATAATTTTGAACATTATAGTATCTTTATTGG
*
3137830 TATATAATTTTG-AGATTATAGTATCTTTATTGG
1 TATATAATTTTGAACATTATAGTATCTTTATTGG
3137863 CATAGACATT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
30 2 0.04
31 20 0.41
32 6 0.12
33 7 0.14
34 14 0.29
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (34 bp):
TATATAATTTTGAACATTATAGTATCTTTATTGG
Found at i:3138992 original size:22 final size:22
Alignment explanation
Indices: 3138943--3138993 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
3138933 GTTAGTGAAT
3138943 AAAAATATATAAATATAAATAA
1 AAAAATATATAAATATAAATAA
* * *
3138965 ACAAATATTTATATATAAA-AA
1 AAAAATATATAAATATAAATAA
3138986 ATAAAATA
1 A-AAAATA
3138994 AATTGAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATATATAAATATAAATAA
Found at i:3139982 original size:125 final size:125
Alignment explanation
Indices: 3139776--3140301 Score: 682
Period size: 125 Copynumber: 4.2 Consensus size: 125
3139766 GTCACGACCA
* * * **
3139776 CGTGAACGCGCTTTTGGTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGATTTTTCTGAGCAAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAA
* * *
3139841 TAGTATAAAAAACGCTTCAAGCAGGGTGCTATATGCGAAGAATTTGTGAAATCGCGCCCT
66 TAGTATAAAAATCGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCT
* ** *
3139901 CGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGGAATAATTTCGAGTTGACGTTTTTGAGCAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAA
*** * * *
3139966 ATAGTAT-AAAATCGCTTCTCCCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCG-GCT
65 ATAGTATAAAAATCGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCT
*
3140025 ACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAA
1 -CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAA
* * * * *
3140090 ATAGTATAAAAAAGT-GCTTCAAGCAGGCTACTATTTGCGAAGAATTTGTGAAATCGCGGCCT
65 ATAGTAT-AAAAA-TCGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCT
* * *
3140152 CATGGACGCGCTTTTGCTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAA
* * * ** *
3140217 ATAGTAT-AAAATCGCTTCTATCAGGATGCTTTATGAGGGGAATTTGTGAAATCGCGCCCA
65 ATAGTATAAAAATCGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCT
3140277 CGTGGACGCGCTTTTGCTACAGTAG
1 CGTGGACGCGCTTTTGCTACAGTAG
3140302 CATGTTTGGG
Statistics
Matches: 343, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
124 40 0.12
125 160 0.47
126 101 0.29
127 42 0.12
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (125 bp):
CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAA
TAGTATAAAAATCGCTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCT
Found at i:3140200 original size:251 final size:250
Alignment explanation
Indices: 3139773--3140301 Score: 869
Period size: 251 Copynumber: 2.1 Consensus size: 250
3139763 GCAGTCACGA
* * **
3139773 CCACGTGAACGCGCTTTTGGTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGATTTTTCTGAGC
1 CCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGC
* * *
3139838 AAATAGTATAAAAAACGCTTCAAGCAGGGTGCTATATGCGAAGAATTTGTGAAATCGCGCCCTCG
66 AAATAGTATAAAAAACGCTTCAAGCAGGCTACTATATGCGAAGAATTTGTGAAATCGCGCCCTCA
* * *
3139903 TGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGGAATAATTTCGAGTTGACGTTTTTGAGCAAAT
131 TGGACGCGCTTTTGCTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAAT
* * *
3139968 AGTATAAAATCGCTTCTCCCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGG
196 AGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGC
*
3140023 CTACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGC
1 CCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGC
* * *
3140088 AAATAGTATAAAAAAGTGCTTCAAGCAGGCTACTATTTGCGAAGAATTTGTGAAATCGCGGCCTC
66 AAATAGTATAAAAAA-CGCTTCAAGCAGGCTACTATATGCGAAGAATTTGTGAAATCGCGCCCTC
3140153 ATGGACGCGCTTTTGCTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAA
130 ATGGACGCGCTTTTGCTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAA
* **
3140218 TAGTATAAAATCGCTTCTATCAGGATGCTTTATGAGGGGAATTTGTGAAATCGCGC
195 TAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGC
3140274 CCACGTGGACGCGCTTTTGCTACAGTAG
1 CCACGTGGACGCGCTTTTGCTACAGTAG
3140302 CATGTTTGGG
Statistics
Matches: 257, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
250 75 0.29
251 182 0.71
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (250 bp):
CCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGC
AAATAGTATAAAAAACGCTTCAAGCAGGCTACTATATGCGAAGAATTTGTGAAATCGCGCCCTCA
TGGACGCGCTTTTGCTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAAT
AGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGC
Found at i:3142904 original size:22 final size:23
Alignment explanation
Indices: 3142855--3142939 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 23
3142845 ACTTGTGAAA
*
3142855 TAGGGTTTTTAAGGTT-AGGGTT
1 TAGGGTTTTTAAGGTTAAGGTTT
* *
3142877 TGGGGTGTTT-AGGTTAAGGTTT
1 TAGGGTTTTTAAGGTTAAGGTTT
**
3142899 TAGGGTTTTT-AGACTAAGGTTT
1 TAGGGTTTTTAAGGTTAAGGTTT
* *
3142921 T-GGGGTTTTAAAGTTAAGG
1 TAGGGTTTTTAAGGTTAAGG
3142940 GTCATGGTCT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 12 0.24
22 38 0.76
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (23 bp):
TAGGGTTTTTAAGGTTAAGGTTT
Found at i:3143538 original size:18 final size:18
Alignment explanation
Indices: 3143506--3143545 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3143496 GACTCAGAAA
** *
3143506 AGGATACATGTAAGGGTT
1 AGGATACATAAAAGGGCT
3143524 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
3143542 AGGA
1 AGGA
3143546 AACGCATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:3146230 original size:18 final size:18
Alignment explanation
Indices: 3146209--3146248 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3146199 ATAACTTTTT
*
3146209 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
3146227 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
3146245 AAAA
1 AAAA
3146249 TAAATATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:3146365 original size:30 final size:30
Alignment explanation
Indices: 3146331--3146393 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
3146321 ACTTAACAAG
3146331 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
*
3146361 CAAATGCCTTTAAATTAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
3146391 CAA
1 CAA
3146394 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:3146448 original size:22 final size:22
Alignment explanation
Indices: 3146423--3146465 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3146413 TATCCAAACA
3146423 ATAACAACAAAAT-AGTAGCAAC
1 ATAACAACAAAATGA-TAGCAAC
*
3146445 ATAATAACAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
3146466 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAC
Found at i:3147034 original size:27 final size:27
Alignment explanation
Indices: 3147004--3147061 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
3146994 TTATAATAAA
*
3147004 CCAAACATAAAAGTCCATTTACA-C-AAC
1 CCAAAAATAAAA-TCCA-TTACATCAAAC
*
3147031 CCAAAAATCAAATCCATTACATCAAAC
1 CCAAAAATAAAATCCATTACATCAAAC
3147058 CCAA
1 CCAA
3147062 TTACAGGCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 17 0.63
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (27 bp):
CCAAAAATAAAATCCATTACATCAAAC
Found at i:3148206 original size:23 final size:22
Alignment explanation
Indices: 3148179--3148296 Score: 76
Period size: 23 Copynumber: 5.0 Consensus size: 22
3148169 ACATTGTTTA
*
3148179 AATTTATCGTATATTATTATTTT
1 AATTT-TCATATATTATTATTTT
*
3148202 AATTTTGCATGTATTATT-TTTCT
1 AATTTT-CATATATTATTATTT-T
* *
3148225 AAGCTTTTCATGTATTAATATTTTTTT
1 AA--TTTTCA--TA-TATTATTATTTT
*
3148252 AATTTATTATATATTATTATTTT
1 AATTT-TCATATATTATTATTTT
* *
3148275 AATTTCCACATATATATTATTT
1 AATTTTCATATAT-TATTATTT
3148297 CATATGTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
22 9 0.12
23 40 0.53
24 4 0.05
25 7 0.09
26 3 0.04
27 9 0.12
28 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
AATTTTCATATATTATTATTTT
Found at i:3152800 original size:4 final size:4
Alignment explanation
Indices: 3152786--3152819 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
3152776 AAAAAATAGT
3152786 TTAA TTAAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TT-AA TTAA TTAA TTAA TTAA TTAA TTAA T
3152820 ATTTGGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:3168968 original size:30 final size:30
Alignment explanation
Indices: 3168932--3168988 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
3168922 TGTGGCCCAC
* *
3168932 ACGGCTTGGACCCACACCCGTGTGCCTCAT
1 ACGGCTTAGACACACACCCGTGTGCCTCAT
*
3168962 ACGGCTTAGACACACGCCCGTGTGCCT
1 ACGGCTTAGACACACACCCGTGTGCCT
3168989 AGGCTTGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.39, G:0.25, T:0.19
Consensus pattern (30 bp):
ACGGCTTAGACACACACCCGTGTGCCTCAT
Found at i:3170750 original size:25 final size:25
Alignment explanation
Indices: 3170703--3170751 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3170693 TGCATTCAAC
* *
3170703 CAATTCAATTACTTAATTGAATAAA
1 CAATTCAATTAATTAATTAAATAAA
3170728 CAATTCAA-TAATTAATTTAAATAA
1 CAATTCAATTAATTAA-TTAAATAA
3170752 TTAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (25 bp):
CAATTCAATTAATTAATTAAATAAA
Found at i:3170752 original size:13 final size:13
Alignment explanation
Indices: 3170734--3170761 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3170724 TAAACAATTC
3170734 AATAATTAATTTA
1 AATAATTAATTTA
3170747 AATAATTAATTTA
1 AATAATTAATTTA
3170760 AA
1 AA
3170762 AAATCTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATAATTAATTTA
Found at i:3172453 original size:21 final size:21
Alignment explanation
Indices: 3172408--3172453 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
3172398 ATTATTGAAC
*
3172408 TAAAACACTATTATCAAGGAAT
1 TAAAACACTATTAT-AAGAAAT
3172430 TAAAACATCTATTAT-AGAAAT
1 TAAAACA-CTATTATAAGAAAT
3172451 TAA
1 TAA
3172454 TTAGTGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (21 bp):
TAAAACACTATTATAAGAAAT
Found at i:3179603 original size:21 final size:20
Alignment explanation
Indices: 3179573--3179634 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
3179563 AAAAATTAAT
3179573 TTTG-GAAAATCTCAATTATG-
1 TTTGAGAAAAT-T-AATTATGA
*
3179593 TTTGAGAAAATTAATTTTGA
1 TTTGAGAAAATTAATTATGA
*
3179613 TTTTGAGAAAATTAATTTTGA
1 -TTTGAGAAAATTAATTATGA
3179634 T
1 T
3179635 CAAGTAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 6 0.16
20 6 0.16
21 26 0.68
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTGAGAAAATTAATTATGA
Found at i:3179777 original size:20 final size:19
Alignment explanation
Indices: 3179734--3179777 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3179724 ATTGAATTTG
*
3179734 AAAATTGGACTTGAGATAA
1 AAAATTGGACTTGAGAAAA
3179753 AAAATTGGAAC-TGAGAAACA
1 AAAATTGG-ACTTGAGAAA-A
3179773 AAAAT
1 AAAAT
3179778 CGAGATTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.55, C:0.07, G:0.18, T:0.20
Consensus pattern (19 bp):
AAAATTGGACTTGAGAAAA
Found at i:3186983 original size:17 final size:18
Alignment explanation
Indices: 3186961--3186996 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3186951 CAATTTGGGT
3186961 CATGTGGG-CCACACGGG
1 CATGTGGGCCCACACGGG
3186978 CATGTGGGCCCACACGGG
1 CATGTGGGCCCACACGGG
3186996 C
1 C
3186997 GAACATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.17, C:0.33, G:0.39, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACACGGG
Found at i:3190244 original size:18 final size:17
Alignment explanation
Indices: 3190222--3190265 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
3190212 TAAAAATACG
3190222 TTTTGAAATTGAATAATGA
1 TTTTGAAA-TGAATAAT-A
3190241 -TTTGTAAATGAATAATA
1 TTTTG-AAATGAATAATA
3190258 TTTTGAAA
1 TTTTGAAA
3190266 ACAAACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TTTTGAAATGAATAATA
Found at i:3195268 original size:71 final size:71
Alignment explanation
Indices: 3195153--3195291 Score: 253
Period size: 72 Copynumber: 2.0 Consensus size: 71
3195143 ACCAACACCA
*
3195153 TGATAAAGAATTGTACTCATTTTTTATTTTTAATTTGATGTA-TTTTTTGTGTTTAAATTTCGTT
1 TGATAAAGAATTGCACTCATTTTTTATTTTTAATTTGATGTATTTTTTTGTGTTTAAATTTCGTT
3195217 TTAATT
66 TTAATT
3195223 TGATAAAGAATTGCACTCATTTTTTTATTTTTAATTTGATGTATTTTTTTGTGTTTAAATTTCGT
1 TGATAAAGAATTGCACTCA-TTTTTTATTTTTAATTTGATGTATTTTTTTGTGTTTAAATTTCGT
3195288 TTTA
65 TTTA
3195292 CTTACAATTT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 18 0.27
71 23 0.35
72 25 0.38
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (71 bp):
TGATAAAGAATTGCACTCATTTTTTATTTTTAATTTGATGTATTTTTTTGTGTTTAAATTTCGTT
TTAATT
Found at i:3196218 original size:228 final size:228
Alignment explanation
Indices: 3195818--3196607 Score: 897
Period size: 228 Copynumber: 3.5 Consensus size: 228
3195808 AAAGAACATC
* * * * *
3195818 ATTAGCAGCG-TTTACAACAAAGCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTC-GTCTT
1 ATTAGCGGCGCTTTGCAA-AAAGCACCGCAAAATATCTTAACCAAAACGCAGAG-TTTCGGTCTT
* * * ** *
3195881 GATGTATACAAGAATTAGTGGCGCTTA-GGAGAAAACGCCGTTAAAG--CGTATTAGCGGCG-TT
64 GAGGTATACTAGAATTAGTGGCGCTTATAG-GAAAACGCCGCAAAAGATAGTATTAGCGGCGCTT
* * * *
3195942 TTGCGAGATGCGCCGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTGATGTATCCTAGA
128 TT-C-AAAAGCGCCGCAAAATATCTTAACCAAAACGCATCG-TTTTGGTATTGATGTATACTAGA
*
3196007 ATTAGTGGCGCTTACCGGAAAACGCCGCTAACGCATAGT
190 ATTAGTGGCGCTTACCGGAAAACGCCGCTAAAGCATAGT
*
3196046 ATTAGCGGCGCTTTGCAAAAAGCACCGCAAAAGATCTTAACCAAAACGCAGAG-TTCGGTCTTGA
1 ATTAGCGGCGCTTTGCAAAAAGCACCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCTTGA
**
3196110 GGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAACAGATAGTATTAGCGGCGCTTTT
66 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAA-AGATAGTATTAGCGGCGCTTTT
*
3196175 CAAAAGCGCCGCAAAATAT-TTGAACCAAAACACATCGTTTTGGTATTGATGTATACTAGAATTA
130 CAAAAGCGCCGCAAAATATCTT-AACCAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTA
* *
3196239 GTGGCGTTTA-CGGTAAAATGCCGCTAAAGCATAGT
194 GTGGCGCTTACCGG-AAAACGCCGCTAAAGCATAGT
* * * * * *
3196274 ATTAGCGGCGATTCTTTGC---TAGCGCCGCAAAATATCCTAACTAAAACGCAGCGTTTTGGTCT
1 ATTAGCGGCG---CTTTGCAAAAAGCACCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCT
* * ** * *
3196336 TGATGTATACTAAAATTAGTGGCGCTTACGGGAAACCGCCGCTAAAGAATAGTATTAGCGGCGCT
63 TGAGGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAAAG-ATAGTATTAGCGGCGCT
* * * * * ** *
3196401 TACTGAAAAGCACCACAAAATATCTTAACCAAAACGCATAGTTTTAATCTTGATGTATACTAGAA
127 T-TTCAAAAGCGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGGTATTGATGTATACTAGAA
** * * *
3196466 TTAGTGGCGCTTACTAGAAAACACCGTTAAATCATAGT
191 TTAGTGGCGCTTACCGGAAAACGCCGCTAAAGCATAGT
*
3196504 ATTAGCGGCGCTTTGCAAAAAGCACCGCAACATATCTTAA-CAAAACGCAGAGTTT-GGTCTTGA
1 ATTAGCGGCGCTTTGCAAAAAGCACCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCTTGA
** *
3196567 GGTATGTTAGAATTAGTGGCGCTTATAAGAAAACGCCGCAA
66 GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAA
3196608 CTGGATAGTA
Statistics
Matches: 474, Mismatches: 68, Indels: 40
0.81 0.12 0.07
Matches are distributed among these distances:
226 3 0.01
227 49 0.10
228 178 0.38
229 111 0.23
230 120 0.25
231 13 0.03
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (228 bp):
ATTAGCGGCGCTTTGCAAAAAGCACCGCAAAATATCTTAACCAAAACGCAGAGTTTCGGTCTTGA
GGTATACTAGAATTAGTGGCGCTTATAGGAAAACGCCGCAAAAGATAGTATTAGCGGCGCTTTTC
AAAAGCGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGT
GGCGCTTACCGGAAAACGCCGCTAAAGCATAGT
Found at i:3196339 original size:115 final size:113
Alignment explanation
Indices: 3195835--3196605 Score: 805
Period size: 115 Copynumber: 6.8 Consensus size: 113
3195825 GCGTTTACAA
* * *
3195835 CAAAGCGCCGCAAAATCTCTTAACCAAAACGCAGCGTTTTCGTCTTGATGTATACAAGAATTAGT
1 CAAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* *
3195900 GGCGCTTAGGAGAAAACGCCGTTAAAGC---GTATTAGCGGCGT-TTTG
66 GGCGCTTACG-GAAAACGCCGCTAAAGCATAGTATTAGCGGCGTCTTTG
* * * *
3195945 CGAGATGCGCCGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTGATGTATCCTAGAATT
1 C-A-AAGCGCCGCAAAATATCTTAACCAAAACGCAGCG-TTTTGGTCTTGATGTATACTAGAATT
*
3196010 AGTGGCGCTTACCGGAAAACGCCGCTAACGCATAGTATTAGCGGCG-CTTTG
63 AGTGGCGCTTA-CGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTCTTTG
* * * * * **
3196061 CAAAAAGCACCGCAAAAGATCTTAACCAAAACGCAGAG-TTCGGTCTTGAGGTATGTTAGAATTA
1 C--AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
* * *
3196125 GTGGCGCTTATAGGAAAACGCCGCAAACAG-ATAGTATTAGCGGCG-CTTTT
64 GTGGCGCTTA-CGGAAAACGCCGCTAA-AGCATAGTATTAGCGGCGTCTTTG
* * *
3196175 CAAAAGCGCCGCAAAATAT-TTGAACCAAAACACATCGTTTTGGTATTGATGTATACTAGAATTA
1 C-AAAGCGCCGCAAAATATCTT-AACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
* *
3196239 GTGGCGTTTACGGTAAAATGCCGCTAAAGCATAGTATTAGCGGCGATTCTTTG
64 GTGGCGCTTACGG-AAAACGCCGCTAAAGCATAGTATTAGCGGCG--TCTTTG
* * * *
3196292 C-TAGCGCCGCAAAATATCCTAACTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGT
1 CAAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* *
3196356 GGCGCTTACGGGAAACCGCCGCTAAAGAATAGTATTAGCGGCG-CTTACTG
66 GGCGCTTAC-GGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTCTT--TG
* * * ** **
3196406 AAAAGCACCACAAAATATCTTAACCAAAACGCATAGTTTTAATCTTGATGTATACTAGAATTAGT
1 CAAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* * * *
3196471 GGCGCTTACTAGAAAACACCGTTAAATCATAGTATTAGCGGCG-CTTTG
66 GGCGCTTAC-GGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTCTTTG
* * * * **
3196519 CAAAAAGCACCGCAACATATCTTAA-CAAAACGCAGAG-TTTGGTCTTGAGGTATGTTAGAATTA
1 C--AAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
**
3196582 GTGGCGCTTATAAGAAAACGCCGC
64 GTGGCGCTTA-CGGAAAACGCCGC
3196606 AACTGGATAG
Statistics
Matches: 554, Mismatches: 82, Indels: 47
0.81 0.12 0.07
Matches are distributed among these distances:
110 1 0.00
111 1 0.00
112 36 0.06
113 123 0.22
114 135 0.24
115 203 0.37
116 49 0.09
117 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (113 bp):
CAAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
GGCGCTTACGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTCTTTG
Found at i:3196911 original size:49 final size:47
Alignment explanation
Indices: 3196858--3196965 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 47
3196848 GTTTATCATA
* ** *
3196858 TTTGGTTTAGGTTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATT
1 TTTGGTTTAGGTTTAGGGT-TTAAGGTTCACAATAT-AGGTTTAGTATT
* * *
3196907 TTTGGATTATA-ATTTAGGGTTTAAGGTTTACAATATAGGTTTAGTGTT
1 TTTGG-TT-TAGGTTTAGGGTTTAAGGTTCACAATATAGGTTTAGTATT
3196955 TTTGGTTTAGG
1 TTTGGTTTAGG
3196966 GTTTGAGAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
46 2 0.04
47 2 0.04
48 15 0.31
49 17 0.35
50 10 0.21
51 2 0.04
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (47 bp):
TTTGGTTTAGGTTTAGGGTTTAAGGTTCACAATATAGGTTTAGTATT
Found at i:3197132 original size:21 final size:20
Alignment explanation
Indices: 3197108--3197176 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
3197098 GTTTATGATG
3197108 TAGGTTTTGGTGTCTTGGGTT
1 TAGGTTTTGGTGT-TTGGGTT
* *
3197129 TAGGGTTTAGTAGTTTGGGGTT
1 TAGGTTTTGGT-GTTT-GGGTT
*
3197151 TAAGG-TTTGGGGTTTGAGGTT
1 T-AGGTTTTGGTGTTTG-GGTT
3197172 TAGGT
1 TAGGT
3197177 CGTTTTAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 4 0.10
21 20 0.51
22 12 0.31
23 3 0.08
ACGTcount: A:0.12, C:0.01, G:0.41, T:0.46
Consensus pattern (20 bp):
TAGGTTTTGGTGTTTGGGTT
Found at i:3197160 original size:14 final size:14
Alignment explanation
Indices: 3197141--3197172 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3197131 GGGTTTAGTA
3197141 GTTTGGGGTTTAAG
1 GTTTGGGGTTTAAG
*
3197155 GTTTGGGGTTTGAG
1 GTTTGGGGTTTAAG
3197169 GTTT
1 GTTT
3197173 AGGTCGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.44, T:0.47
Consensus pattern (14 bp):
GTTTGGGGTTTAAG
Found at i:3197300 original size:21 final size:21
Alignment explanation
Indices: 3197270--3197309 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3197260 TACAATGCAT
*
3197270 GGTTTTGAGTGTAAGGTTTTG
1 GGTTTAGAGTGTAAGGTTTTG
3197291 GGTTTAGAGTGTAAGGTTT
1 GGTTTAGAGTGTAAGGTTT
3197310 GCAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (21 bp):
GGTTTAGAGTGTAAGGTTTTG
Found at i:3197316 original size:21 final size:21
Alignment explanation
Indices: 3197271--3197318 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3197261 ACAATGCATG
* *
3197271 GTTTTGAGTGTAAGGTTTTGG
1 GTTTAGAGTGTAAGGTTTTGA
3197292 GTTTAGAGTGTAAGG-TTTGCA
1 GTTTAGAGTGTAAGGTTTTG-A
3197313 GTTTAG
1 GTTTAG
3197319 GGTTTAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (21 bp):
GTTTAGAGTGTAAGGTTTTGA
Found at i:3198142 original size:22 final size:22
Alignment explanation
Indices: 3198117--3198182 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
3198107 CCACTCTGAT
*
3198117 TTTCCCAATTTCATTTCCCGAA-
1 TTTCCC-ATTTCATTTCCCCAAC
*
3198139 TTTCCCATTTCCTATTCCCCCAAC
1 TTTCCCATTT-C-ATTTCCCCAAC
*
3198163 TTCCCCGATTTCATTTCCCC
1 TTTCCC-ATTTCATTTCCCC
3198183 CCAATTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
21 4 0.11
22 7 0.19
23 15 0.42
24 6 0.17
25 4 0.11
ACGTcount: A:0.17, C:0.41, G:0.03, T:0.39
Consensus pattern (22 bp):
TTTCCCATTTCATTTCCCCAAC
Found at i:3198198 original size:40 final size:40
Alignment explanation
Indices: 3198142--3198221 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
3198132 TCCCGAATTT
* * *
3198142 CCCATTTCCTATTCCCCCAACTTCCCCGATTTCATTTCCC
1 CCCAATTCCTATTCCCCCAACTTCCCCAATTTAATTTCCC
* *
3198182 CCCAATTCCTTTTCCCCCAATTTCCCCAATTTAATTTCCC
1 CCCAATTCCTATTCCCCCAACTTCCCCAATTTAATTTCCC
3198222 TAAATCCCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.17, C:0.45, G:0.01, T:0.36
Consensus pattern (40 bp):
CCCAATTCCTATTCCCCCAACTTCCCCAATTTAATTTCCC
Found at i:3198206 original size:16 final size:16
Alignment explanation
Indices: 3198165--3198206 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
3198155 CCCCCAACTT
* *
3198165 CCCCGATTTCATTTCC
1 CCCCAATTTCCTTTCC
*
3198181 CCCCAA-TTCCTTTTC
1 CCCCAATTTCCTTTCC
3198196 CCCCAATTTCC
1 CCCCAATTTCC
3198207 CCAATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.14, C:0.48, G:0.02, T:0.36
Consensus pattern (16 bp):
CCCCAATTTCCTTTCC
Found at i:3199696 original size:17 final size:17
Alignment explanation
Indices: 3199676--3199736 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
3199666 TTAATATCTA
3199676 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
3199693 TATAAGTTTTCT--A--
1 TATAAGTTTTCTAAATT
* *
3199706 TATTAG-TAT-TAAATT
1 TATAAGTTTTCTAAATT
3199721 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
3199737 AAGTGTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
11 1 0.03
12 2 0.06
13 6 0.18
15 6 0.18
16 2 0.06
17 17 0.50
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:3199706 original size:30 final size:30
Alignment explanation
Indices: 3199672--3199753 Score: 114
Period size: 28 Copynumber: 2.8 Consensus size: 30
3199662 TGTTTTAATA
3199672 TCTATATAAGTTTTCTAAATTTATAAGTTT
1 TCTATATAAGTTTTCTAAATTTATAAGTTT
* *
3199702 TCTATATTAG-TAT-TAAATTTATAAGTTT
1 TCTATATAAGTTTTCTAAATTTATAAGTTT
* *
3199730 TCTAAATAAGTGTTCTAAATTTAT
1 TCTATATAAGTTTTCTAAATTTAT
3199754 TAGTAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 23 0.52
29 3 0.07
30 18 0.41
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.51
Consensus pattern (30 bp):
TCTATATAAGTTTTCTAAATTTATAAGTTT
Found at i:3199845 original size:27 final size:27
Alignment explanation
Indices: 3199804--3199894 Score: 155
Period size: 27 Copynumber: 3.4 Consensus size: 27
3199794 AAATAATTAT
3199804 ATAACTTACACAACTTACACAACTTAC
1 ATAACTTACACAACTTACACAACTTAC
* * *
3199831 ATAACATACATAACTTACACAACTTGC
1 ATAACTTACACAACTTACACAACTTAC
3199858 ATAACTTACACAACTTACACAACTTAC
1 ATAACTTACACAACTTACACAACTTAC
3199885 ATAACTTACA
1 ATAACTTACA
3199895 TAATAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.26
Consensus pattern (27 bp):
ATAACTTACACAACTTACACAACTTAC
Found at i:3199895 original size:9 final size:9
Alignment explanation
Indices: 3199804--3199897 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
3199794 AAATAATTAT
3199804 ATAACTTAC
1 ATAACTTAC
*
3199813 ACAACTTAC
1 ATAACTTAC
*
3199822 ACAACTTAC
1 ATAACTTAC
*
3199831 ATAACATAC
1 ATAACTTAC
3199840 ATAACTTAC
1 ATAACTTAC
* *
3199849 ACAACTTGC
1 ATAACTTAC
3199858 ATAACTTAC
1 ATAACTTAC
*
3199867 ACAACTTAC
1 ATAACTTAC
*
3199876 ACAACTTAC
1 ATAACTTAC
3199885 ATAACTTAC
1 ATAACTTAC
3199894 ATAA
1 ATAA
3199898 TAAATAACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 75 1.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (9 bp):
ATAACTTAC
Found at i:3206406 original size:41 final size:41
Alignment explanation
Indices: 3206350--3206456 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
3206340 TAAATATATT
*
3206350 TTTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTTAA
1 TTTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTTTAA
*
3206391 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTTTAA
3206432 --TTTTTTAATTTTAAAATATATTTTT
1 TTTTTTTTAATTTTAAAATAT-TTTTT
3206457 TTAATTTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
39 19 0.31
40 4 0.06
41 39 0.63
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTTTTAATTTTAAAATATTTTTTAAATACTTTTTTTAA
Found at i:3206444 original size:28 final size:29
Alignment explanation
Indices: 3206412--3206468 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
3206402 TTTAAAATAT
*
3206412 TTTTAAAATA-CTTTTTTTAATTTTTTAA
1 TTTTAAAATATATTTTTTTAATTTTTTAA
3206440 TTTTAAAATATATTTTTTTAATTTTTTAA
1 TTTTAAAATATATTTTTTTAATTTTTTAA
3206469 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAAAATATATTTTTTTAATTTTTTAA
Found at i:3206466 original size:39 final size:39
Alignment explanation
Indices: 3206352--3206475 Score: 128
Period size: 41 Copynumber: 3.1 Consensus size: 39
3206342 AATATATTTT
* *
3206352 TTTTTTAATTTTAAAATAT-TTTTTACATACTTTTTTTAA
1 TTTTTTAATTTTAAAATATATTTTTA-AAATTTTTTTTAA
3206391 TTTTTTTTAATTTT-AAA-ATATTTTTAAAATACTTTTTTTAA
1 --TTTTTTAATTTTAAAATATATTTTTAAAAT--TTTTTTTAA
** **
3206432 TTTTTTAATTTTAAAATATATTTTTTTAATTTTTTAAAA
1 TTTTTTAATTTTAAAATATATTTTTAAAATTTTTTTTAA
3206471 TTTTT
1 TTTTT
3206476 AAAATAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
39 28 0.39
40 12 0.17
41 32 0.44
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATATTTTTAAAATTTTTTTTAA
Found at i:3207669 original size:18 final size:18
Alignment explanation
Indices: 3207629--3207670 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3207619 CTTAACTTTT
3207629 AAAAGTAAAATCTAAATA
1 AAAAGTAAAATCTAAATA
* *
3207647 TAAAGTAAAACTTTAAA-A
1 AAAAGTAAAA-TCTAAATA
3207665 AAAAGT
1 AAAAGT
3207671 GAATGATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAAGTAAAATCTAAATA
Found at i:3221242 original size:6 final size:6
Alignment explanation
Indices: 3221234--3221282 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
3221224 AGGGTAATGG
* * * *
3221234 AAACAG AAACAA AAACAA AAACAA AAA-AA ATACAG ACACAA AAACAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA
3221281 AA
1 AA
3221283 CATGACCCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.78, C:0.16, G:0.04, T:0.02
Consensus pattern (6 bp):
AAACAA
Found at i:3229076 original size:31 final size:29
Alignment explanation
Indices: 3229040--3229109 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
3229030 ATTTAGCTAA
**
3229040 AAAAGTGCTTTTGCAAAGATTTTTTTGTCCC
1 AAAAGTGCTTTTG-AAA-AACTTTTTGTCCC
* *
3229071 AAAAGTACTTTTGAAAAACTTTTTGTCTC
1 AAAAGTGCTTTTGAAAAACTTTTTGTCCC
*
3229100 AAAAATGCTT
1 AAAAGTGCTT
3229110 CTTAAAAGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 18 0.55
30 3 0.09
31 12 0.36
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (29 bp):
AAAAGTGCTTTTGAAAAACTTTTTGTCCC
Found at i:3230967 original size:30 final size:29
Alignment explanation
Indices: 3230888--3230976 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
3230878 ATACTAAAAC
3230888 TATACATG-AACTATGATTTAATGTACAATTG
1 TATACATGAAACT-TGATTT--TGTACAATTG
* *
3230919 TATACAT-AAACTTTGATTTTGTGCAATTT
1 TATACATGAAAC-TTGATTTTGTACAATTG
* *
3230948 TATACATGAAATCTTGATTTGGTCCAATT
1 TATACATGAAA-CTTGATTTTGTACAATT
3230977 CTTGTAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
29 15 0.30
30 17 0.34
31 17 0.34
32 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (29 bp):
TATACATGAAACTTGATTTTGTACAATTG
Found at i:3232391 original size:14 final size:14
Alignment explanation
Indices: 3232374--3232435 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
3232364 ATAAAATATT
3232374 TTTATTTAAATTTA
1 TTTATTTAAATTTA
* *
3232388 TTTATTAAAAATTA
1 TTTATTTAAATTTA
*
3232402 TTAATTTAATATTTA
1 TTTATTTAA-ATTTA
*
3232417 TATATTT-AATTTAA
1 TTTATTTAAATTT-A
3232431 TTTAT
1 TTTAT
3232436 CTCAATCTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.11
14 25 0.66
15 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTTAAATTTA
Found at i:3232423 original size:15 final size:14
Alignment explanation
Indices: 3232368--3232426 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
3232358 AATAATATAA
3232368 AATATTT-TTATTT
1 AATATTTATTATTT
3232381 AA-ATTTATT-TATT
1 AATATTTATTAT-TT
* *
3232394 AAAAATTATTAATTT
1 AATATTTATT-ATTT
3232409 AATATTTATATATTT
1 AATATTTAT-TATTT
3232424 AAT
1 AAT
3232427 TTAATTTATC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 5 0.14
13 8 0.22
14 6 0.16
15 16 0.43
16 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATATTTATTATTT
Found at i:3233398 original size:3 final size:3
Alignment explanation
Indices: 3233392--3233417 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3233382 ATTGTTGTAC
3233392 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
3233418 TTATTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:3235918 original size:18 final size:18
Alignment explanation
Indices: 3235895--3235929 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3235885 ATATATTTTA
3235895 TTTTTAATTTAAAAATAT
1 TTTTTAATTTAAAAATAT
* *
3235913 TTTTTATTTTTAAAATA
1 TTTTTAATTTAAAAATA
3235930 AAATTTTGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAATTTAAAAATAT
Found at i:3235931 original size:24 final size:24
Alignment explanation
Indices: 3235878--3235932 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
3235868 GCTCGAATAT
*
3235878 AATAAATATATATTTTATTTTTAA
1 AATAAAAATATATTTTATTTTTAA
** *
3235902 TTTAAAAATATTTTTTATTTTTAA
1 AATAAAAATATATTTTATTTTTAA
3235926 AATAAAA
1 AATAAAA
3235933 TTTTGGTGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATAAAAATATATTTTATTTTTAA
Found at i:3242046 original size:78 final size:78
Alignment explanation
Indices: 3241917--3242078 Score: 324
Period size: 78 Copynumber: 2.1 Consensus size: 78
3241907 GGCCTTTCCT
3241917 AACATAGGTTCAACCCATAACATTACCCCCTCTTGCCATATGAGCTTATCCTTAAGTTCGAAGTC
1 AACATAGGTTCAACCCATAACATTACCCCCTCTTGCCATATGAGCTTATCCTTAAGTTCGAAGTC
3241982 AAGATTACTTGAC
66 AAGATTACTTGAC
3241995 AACATAGGTTCAACCCATAACATTACCCCCTCTTGCCATATGAGCTTATCCTTAAGTTCGAAGTC
1 AACATAGGTTCAACCCATAACATTACCCCCTCTTGCCATATGAGCTTATCCTTAAGTTCGAAGTC
3242060 AAGATTACTTGAC
66 AAGATTACTTGAC
3242073 AACATA
1 AACATA
3242079 AATCAACCTA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 84 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (78 bp):
AACATAGGTTCAACCCATAACATTACCCCCTCTTGCCATATGAGCTTATCCTTAAGTTCGAAGTC
AAGATTACTTGAC
Found at i:3243981 original size:17 final size:17
Alignment explanation
Indices: 3243959--3244001 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
3243949 AAACAATTAA
*
3243959 TATTAATTGCTTAAATG
1 TATTAATTACTTAAATG
3243976 TATTAATTACTTAAATG
1 TATTAATTACTTAAATG
3243993 TATTAATTA
1 TATTAATTA
3244002 TTGATATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (17 bp):
TATTAATTACTTAAATG
Found at i:3250703 original size:12 final size:13
Alignment explanation
Indices: 3250680--3250711 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
3250670 AAACTGATGC
3250680 TTTACGATAAAAT
1 TTTACGATAAAAT
3250693 TTTAC-ATAAAAT
1 TTTACGATAAAAT
3250705 TTTACGA
1 TTTACGA
3250712 GCATTTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
TTTACGATAAAAT
Found at i:3250813 original size:67 final size:67
Alignment explanation
Indices: 3250705--3250834 Score: 181
Period size: 66 Copynumber: 1.9 Consensus size: 67
3250695 TACATAAAAT
* ** * **
3250705 TTTACGAGCATTTTGTCTCAGTAACTTAGCCTGCTGCCAACCTGA-ACTGATGCTTAGCTATATA
1 TTTACAAGCATTTTGTAACAGTAACCTAGCCTGCTGCCAACCTGAGACCCATGCTTAGCTATATA
3250769 AA
66 AA
*
3250771 TTTACAAGCATTTTGTAACAGTAGCCTATGCCTGCTGCCAACCTGAGACCCATGCTTAGCTATA
1 TTTACAAGCATTTTGTAACAGTAACCTA-GCCTGCTGCCAACCTGAGACCCATGCTTAGCTATA
3250835 AAAAATTTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 23 0.42
67 17 0.31
68 15 0.27
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (67 bp):
TTTACAAGCATTTTGTAACAGTAACCTAGCCTGCTGCCAACCTGAGACCCATGCTTAGCTATATA
AA
Found at i:3256964 original size:216 final size:216
Alignment explanation
Indices: 3256591--3257663 Score: 1496
Period size: 216 Copynumber: 5.0 Consensus size: 216
3256581 CTCAGTTAAT
* * *
3256591 GAGTTGTAATGGCTAAAGATACTAACAATGTCACGCTAGCATGCAGAAAGATTATCGCCAA-TTA
1 GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTTG
* * *
3256655 AAAATTCAAGCTAGGATTATTTTCATTTGACGAACCCTTCTTTTGATGAACAAACAGGGATTGAC
66 AGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGAACAAACAGGGATTGAC
* * *
3256720 TCATGCAAAAGGAGGTCAAGATTTAAGCAACATCTGTTGCTTGGTAGACACATTTTTTAGCTAGC
131 TCATGCAAAAGGAAGTCAACATTTAAGCAACATCTATTGCTTGGTAGACACATTTTTTAGCTAGC
3256785 CATAATTCCTCACTTGTCAAG
196 CATAATTCCTCACTTGTCAAG
3256806 GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTTG
1 GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTTG
* *
3256871 AGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGCACAAAGAGGGATTGAC
66 AGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGAACAAACAGGGATTGAC
* * *
3256936 TCATGCAAAAGGAGGTTAACAATTAAGCAACAT-TCATTGCTTGGTAGACATC-TTTTTTAGCTA
131 TCATGCAAAAGGAAGTCAACATTTAAGCAACATCT-ATTGCTTGGTAGACA-CATTTTTTAGCTA
* **
3256999 GCCATAATTCTTTGCTTGTCAAG
194 GCCATAATTCCTCACTTGTCAAG
* *
3257022 GAGTTGTAATGGATAAAGATATTAACAATGTCACGTTAGCTTGCAGAAAGATTATCGCCAACTTG
1 GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTTG
* * * * * * * ** *
3257087 AGAATTCAAGCTAAGATTATTCACATTCGATGAACCCTTGTTTTAATGAAAAAACAAGGACCGGC
66 AGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGAACAAACAGGGATTGAC
* * * * * *
3257152 TAATGCCAAATGAAGTCAACATTTAAGCAACATCCATTGCTTGGTAGATATC-TTTTTTAGTTAG
131 TCATGCAAAAGGAAGTCAACATTTAAGCAACATCTATTGCTTGGTAGACA-CATTTTTTAGCTAG
* *
3257216 CCATAATTCCTTACTTGTCAGG
195 CCATAATTCCTCACTTGTCAAG
* * * *
3257238 GAGTTGCAATGGCTAAAGATATTAA-AGATGTTACACTAGCTTGTAGAAAGATTATCGCCAACTT
1 GAGTTGTAATGGCTAAAGATATTAACA-ATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTT
* * * * **
3257302 GAGAATTCGAGCTAGGATTATTCTCATTCGACAAACCCTTCTTTTAATGAACTAACAGGGATCAA
65 GAGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGAACAAACAGGGATTGA
*
3257367 CTCATGCAAAAGGAAGTCAACATTTAAGCAACATCTGTTGCTTGGTAGACACATTTTTTAGCTAG
130 CTCATGCAAAAGGAAGTCAACATTTAAGCAACATCTATTGCTTGGTAGACACATTTTTTAGCTAG
3257432 CCATAATTCCTCACTTGTCAAG
195 CCATAATTCCTCACTTGTCAAG
*
3257454 GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATTGCCAACTTG
1 GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTTG
* * * * * *
3257519 AGAGTTCAATCTAGGATTATTCTTATTCGACGAACCCTTTTTTTGATGCACAAGCAGGGATT-AG
66 AGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGAACAAACAGGGATTGA-
* * * * *
3257583 CTCATGTAAAAGGAAGTAAACAATGAAGCAACATCCATTGCTTGGTAG--ACATCTTTTTAGCTA
130 CTCATGCAAAAGGAAGTCAACATTTAAGCAACATCTATTGCTTGGTAGACACAT-TTTTTAGCTA
3257646 GCCATAATTCCTCACTTG
194 GCCATAATTCCTCACTTG
3257664 GTGTTTTTAT
Statistics
Matches: 759, Mismatches: 90, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
214 4 0.01
215 91 0.12
216 662 0.87
217 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (216 bp):
GAGTTGTAATGGCTAAAGATATTAACAATGTCACGCTAGCTTGCAGAAAGATTATCGCCAACTTG
AGAATTCAAGCTAGGATTATTCTCATTCGACGAACCCTTCTTTTGATGAACAAACAGGGATTGAC
TCATGCAAAAGGAAGTCAACATTTAAGCAACATCTATTGCTTGGTAGACACATTTTTTAGCTAGC
CATAATTCCTCACTTGTCAAG
Found at i:3257783 original size:83 final size:83
Alignment explanation
Indices: 3257644--3257807 Score: 310
Period size: 83 Copynumber: 2.0 Consensus size: 83
3257634 TCTTTTTAGC
3257644 TAGCCATAATTCCTCACTTGGTGTTTTTATTTGTTCGATCACTTGTATCAAAAGAATGTTTGAAC
1 TAGCCATAATTCCTCACTTGGTGTTTTTATTTGTTCGATCACTTGTATCAAAAGAATGTTTGAAC
3257709 AACTTTAAATAGAATAGG
66 AACTTTAAATAGAATAGG
*
3257727 TAGCCATAATTCCTCACTTGGTGTTTTTATTTGTTCGATCACTTGTATCGAAAGAATGTTTGAAC
1 TAGCCATAATTCCTCACTTGGTGTTTTTATTTGTTCGATCACTTGTATCAAAAGAATGTTTGAAC
*
3257792 AACTTTAATTAGAATA
66 AACTTTAAATAGAATA
3257808 CGTTTAAGCA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (83 bp):
TAGCCATAATTCCTCACTTGGTGTTTTTATTTGTTCGATCACTTGTATCAAAAGAATGTTTGAAC
AACTTTAAATAGAATAGG
Found at i:3265371 original size:11 final size:11
Alignment explanation
Indices: 3265355--3265399 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
3265345 TGGCGTCTTT
3265355 TACAAAAATAA
1 TACAAAAATAA
3265366 TACAAAAATAA
1 TACAAAAATAA
* *
3265377 AATAAAAA-AA
1 TACAAAAATAA
*
3265387 TACCAAAATAA
1 TACAAAAATAA
3265398 TA
1 TA
3265400 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TACAAAAATAA
Found at i:3265887 original size:144 final size:149
Alignment explanation
Indices: 3265628--3266096 Score: 568
Period size: 144 Copynumber: 3.1 Consensus size: 149
3265618 TTTAGTGTGT
* * *
3265628 TTTTTATTGAAAGTAATAAAAT-TCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTT
1 TTTTTATTGAAAGTAATAAAATCT-GGGAAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTT
*
3265691 TTTAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATA-AA
65 TTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATATAA
* *
3265755 A-T-T-A-GAAAATATTATA
130 ATTATAACAAAAATAATATA
* *
3265771 -TTTT-TT-AAAGTAATAAACTCTGGGGAAAAAAATACGAATAAAGGGCCAAAATAAGGGGTTTT
1 TTTTTATTGAAAGTAATAAAATCT-GGGAAAAAAATACGAATAAAGGGCCGAAATAA-GGGTTTT
* *
3265833 TTTTAAATTTATTTAAAAAATACACTAAATTAATACATTTTAAACATAATGTACTAAAATAATAT
64 TTTT-AATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
3265898 AAATTAATAAAAAACAAAAATAATATA
128 AAATT-AT----AACAAAAATAATATA
* *
3265925 TTTTTATTGAAAGTAATAAAATCCT-GGAAAAAAATACGAATAAAGGACTGAAATAAGGGTTTTT
1 TTTTTATTGAAAGTAATAAAAT-CTGGGAAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTT
*
3265989 TTTAATTTATTT-AAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
65 TTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATATAA
* * * *
3266053 AATAAAAAAATAAAAAATAATA
130 ATTATAACAA-AAATAAT-ATA
*
3266075 TATTTT-TTAAAAGTAATAAAAT
1 T-TTTTATTGAAAGTAATAAAAT
3266097 TCAGAAAAAA
Statistics
Matches: 282, Mismatches: 23, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
140 12 0.04
141 32 0.11
142 6 0.02
143 7 0.02
144 56 0.20
145 3 0.01
146 1 0.00
148 5 0.02
149 6 0.02
150 19 0.07
151 4 0.01
152 1 0.00
153 52 0.18
154 19 0.07
155 15 0.05
156 30 0.11
157 12 0.04
158 2 0.01
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (149 bp):
TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTT
TTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAA
TTATAACAAAAATAATATA
Found at i:3265929 original size:154 final size:149
Alignment explanation
Indices: 3265743--3266129 Score: 499
Period size: 153 Copynumber: 2.5 Consensus size: 149
3265733 CATAATGTAC
* * * *
3265743 TAAAATAATAAAATTAGAAAATATTATATTTTTT-AAAGTAATAAACTCTGGGGAAAAAAATACG
1 TAAAATAA-AAAAATAAAAAATAATATATTTTTTAAAAGTAATAAAATCT--GGAAAAAAATACG
*
3265807 AATAAAGGGCCAAAATAAGGGGTTTTTTTTAAATTTATTTAAAAAATACACTAAATTAATACATT
63 AATAAAGGGCCAAAATAA-GGGTTTTTTTT-AATTTATTT-AAAAACACACTAAATTAATACATT
*
3265872 TTAAACATAATGTACTAAAATAATA
125 TCAAACATAATGTACTAAAATAATA
* *
3265897 TAAATTAATAAAAA-ACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCTGGAAAAAAATA
1 TAAAATAA-AAAAATA-AAAAATAATATA-TTTT-TTAAAAGTAATAAAAT-CTGGAAAAAAATA
* **
3265961 CGAATAAAGGACTGAAATAAGGGTTTTTTTTAATTTATTTAAAAACACACTAAATTAATACATTT
61 CGAATAAAGGGCCAAAATAAGGGTTTTTTTTAATTTATTTAAAAACACACTAAATTAATACATTT
*
3266026 CAAACATAATGTACTAAAATAATG
126 CAAACATAATGTACTAAAATAATA
* * *
3266050 TAAAATAAAAAAATAAAAAATAATATATTTTTTAAAAGTAATAAAATTCAGAAAAAAAATATGAA
1 TAAAATAAAAAAATAAAAAATAATATATTTTTTAAAAGTAATAAAA-TCTGGAAAAAAATACGAA
* *
3266115 CAAATGGCCAAAATA
65 TAAAGGGCCAAAATA
3266130 CGAATAATTT
Statistics
Matches: 205, Mismatches: 21, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
150 38 0.19
151 5 0.02
152 17 0.08
153 55 0.27
154 31 0.15
155 15 0.07
156 30 0.15
157 12 0.06
158 2 0.01
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.31
Consensus pattern (149 bp):
TAAAATAAAAAAATAAAAAATAATATATTTTTTAAAAGTAATAAAATCTGGAAAAAAATACGAAT
AAAGGGCCAAAATAAGGGTTTTTTTTAATTTATTTAAAAACACACTAAATTAATACATTTCAAAC
ATAATGTACTAAAATAATA
Found at i:3266492 original size:18 final size:18
Alignment explanation
Indices: 3266457--3266499 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3266447 AATCGCCTTG
3266457 TATTTT-ATTTTTTCAAA
1 TATTTTAATTTTTTCAAA
*
3266474 TTTTTTAATTTTATT-AAA
1 TATTTTAATTTT-TTCAAA
3266492 TATTTTAA
1 TATTTTAA
3266500 GACTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 15 0.68
19 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTAATTTTTTCAAA
Found at i:3266850 original size:15 final size:15
Alignment explanation
Indices: 3266831--3266860 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
3266821 TTAATTTTTG
3266831 AAAAATAAATTACTTT
1 AAAAA-AAATTACTTT
3266847 AAAAAAAATTACTT
1 AAAAAAAATTACTT
3266861 AGCGGTCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAAAATTACTTT
Found at i:3267803 original size:25 final size:25
Alignment explanation
Indices: 3267769--3267825 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
3267759 TTACTAATAG
3267769 ATAG-TTAGTTTAGTGACCTTGGGT
1 ATAGTTTAGTTTAGTGACCTTGGGT
3267793 ATAGTTTAGTTTAGTGACCTTGGGT
1 ATAGTTTAGTTTAGTGACCTTGGGT
*
3267818 GTAGTTTA
1 ATAGTTTA
3267826 CCCTTACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (25 bp):
ATAGTTTAGTTTAGTGACCTTGGGT
Found at i:3270744 original size:18 final size:20
Alignment explanation
Indices: 3270704--3270745 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
3270694 TATTTTTTAT
* *
3270704 TAATATAATAACTATAATTA
1 TAATATAATAAATATAATGA
3270724 TAATA-AATAAATAT-ATGA
1 TAATATAATAAATATAATGA
3270742 TAAT
1 TAAT
3270746 TAAAAACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATATAATAAATATAATGA
Found at i:3271758 original size:23 final size:24
Alignment explanation
Indices: 3271706--3271760 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
3271696 TTTGATGGGT
* *
3271706 AAAATTAATAATAGTATAGTATTG
1 AAAAATAATAATAGTATAGTAGTG
*
3271730 AAAAATAATAATAGTA-ATTAGTG
1 AAAAATAATAATAGTATAGTAGTG
3271753 AAAAATAA
1 AAAAATAA
3271761 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (24 bp):
AAAAATAATAATAGTATAGTAGTG
Found at i:3273024 original size:28 final size:29
Alignment explanation
Indices: 3272984--3273039 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
3272974 AAGTTTTTCC
3272984 TTTTTACTAAAAAA-CTAAAATTAATTCT
1 TTTTTACTAAAAAAGCTAAAATTAATTCT
* *
3273012 TTTTTACTTAAAAAGCTAAAGTTAATTC
1 TTTTTACTAAAAAAGCTAAAATTAATTC
3273040 AAAAAGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (29 bp):
TTTTTACTAAAAAAGCTAAAATTAATTCT
Found at i:3273030 original size:29 final size:28
Alignment explanation
Indices: 3272984--3273039 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
3272974 AAGTTTTTCC
3272984 TTTTTACTAAAAAACTAAAATTAATTCT
1 TTTTTACTAAAAAACTAAAATTAATTCT
* *
3273012 TTTTTACTTAAAAAGCTAAAGTTAATTC
1 TTTTTAC-TAAAAAACTAAAATTAATTC
3273040 AAAAAGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (28 bp):
TTTTTACTAAAAAACTAAAATTAATTCT
Found at i:3273061 original size:18 final size:20
Alignment explanation
Indices: 3273035--3273072 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
3273025 AGCTAAAGTT
3273035 AATTCAAAAAGATA-AATGA
1 AATTCAAAAAGATAGAATGA
3273054 AATT-AAAAAGATAGAATGA
1 AATTCAAAAAGATAGAATGA
3273073 TTTTTCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.21
Consensus pattern (20 bp):
AATTCAAAAAGATAGAATGA
Found at i:3273920 original size:16 final size:16
Alignment explanation
Indices: 3273896--3273946 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
3273886 AATTTTATCG
*
3273896 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
*
3273912 TTATAAATTATAAAA-A
1 TTATAAATT-TAAAATT
*
3273928 TTCTAAA-TTAAAATT
1 TTATAAATTTAAAATT
3273943 TTAT
1 TTAT
3273947 TTTATTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 5 0.18
15 4 0.14
16 14 0.50
17 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:3274379 original size:61 final size:61
Alignment explanation
Indices: 3274306--3274456 Score: 169
Period size: 61 Copynumber: 2.5 Consensus size: 61
3274296 ATGGTCTGAC
* * * * *
3274306 TAATAAAATTAGTCTTCAATGTTTATAAAA-TTTGTCATTTTAATTTTAATTTTAAAAAATT
1 TAATAAATTTAGTCTTCAATATTTATAAAAGTTT-TCATTTTAATTCTAATTCTAAAAAACT
* * *
3274367 TAATAAATTTAGTCTTCATTATTTATAAAAGTTTTCATTTTAGTTCTAATTCTAAAAGACT
1 TAATAAATTTAGTCTTCAATATTTATAAAAGTTTTCATTTTAATTCTAATTCTAAAAAACT
* * * * *
3274428 CAATAAATTTGGCCCTCAACATTTATAAA
1 TAATAAATTTAGTCTTCAATATTTATAAA
3274457 TTCTATCAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
61 72 0.96
62 3 0.04
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (61 bp):
TAATAAATTTAGTCTTCAATATTTATAAAAGTTTTCATTTTAATTCTAATTCTAAAAAACT
Found at i:3283190 original size:9 final size:9
Alignment explanation
Indices: 3283176--3283201 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3283166 TTAAGTGATG
3283176 AATTTAATC
1 AATTTAATC
3283185 AATTTAATC
1 AATTTAATC
3283194 AATTTAAT
1 AATTTAAT
3283202 TAACAGCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTTAATC
Found at i:3285782 original size:88 final size:87
Alignment explanation
Indices: 3285569--3285782 Score: 220
Period size: 88 Copynumber: 2.4 Consensus size: 87
3285559 TAAAAAGCAA
* * *
3285569 TCAAAATTTTCTAAAAAAACAATTAAGCTTTTATTTTTATTTTCACTCAATTGGGTACTTGAACT
1 TCAAAATTTTCAAAAAAAACAATTAAGCCTTT-TTTTTATTTTCACTCAATCGGGTACTTGAACT
** *
3285634 TTCAAAATGCATAAAAAAGGCTT
65 GCCAAAATGCATAAAAAAGGCTC
* **
3285657 TC-AAACTTAAAAAAAAAACAATTAAGCCCTTGCTTTTTT-TTTTCACTCAATCGGGTACTTGAA
1 TCAAAATTTTCAAAAAAAACAATTAAG-CCTT--TTTTTTATTTTCACTCAATCGGGTACTTGAA
*
3285720 CTGCCAAAATGCATCAAAAAAAAG-TCC
63 CTGCCAAAATGCAT--AAAAAAGGCT-C
* *
3285747 TCAAAATTTTTCCAAAAAAA-AATTAAGCCATTTTTT
1 TCAAAA-TTTTCAAAAAAAACAATTAAGCCTTTTTTT
3285783 CACTCAATTG
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
87 20 0.19
88 45 0.44
89 6 0.06
90 13 0.13
91 10 0.10
92 9 0.09
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (87 bp):
TCAAAATTTTCAAAAAAAACAATTAAGCCTTTTTTTTATTTTCACTCAATCGGGTACTTGAACTG
CCAAAATGCATAAAAAAGGCTC
Found at i:3285951 original size:9 final size:9
Alignment explanation
Indices: 3285884--3286008 Score: 85
Period size: 9 Copynumber: 13.6 Consensus size: 9
3285874 TGACATGAGG
*
3285884 AAAAAATAT
1 AAAAATTAT
3285893 AAAAA--AT
1 AAAAATTAT
*
3285900 AAAAATCAAT
1 AAAAAT-TAT
*
3285910 AAAAGTTAT
1 AAAAATTAT
*
3285919 -AGAATTAT
1 AAAAATTAT
*
3285927 AAAATTTTATT
1 AAAA-ATTA-T
3285938 AAAAATTAT
1 AAAAATTAT
3285947 AAAAATATAT
1 AAAAAT-TAT
*
3285957 AAAAATCAT
1 AAAAATTAT
*
3285966 AAAAATATAA
1 AAAAAT-TAT
*
3285976 AAAAATTGT
1 AAAAATTAT
*
3285985 AAAATTTTAT
1 AAAA-ATTAT
*
3285995 AAAAATAAT
1 AAAAATTAT
3286004 AAAAA
1 AAAAA
3286009 AAATTATATA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 37 0.41
10 36 0.40
11 5 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3285961 original size:19 final size:19
Alignment explanation
Indices: 3285921--3286008 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
3285911 AAAGTTATAG
* *
3285921 AATTATAAAATTTTATTAAA
1 AATTATAAAAATATA-TAAA
3285941 AATTATAAAAATATATAAA
1 AATTATAAAAATATATAAA
* *
3285960 AATCATAAAAATATAAAAA
1 AATTATAAAAATATATAAA
* * *
3285979 AATTGTAAAATTTTATAAA
1 AATTATAAAAATATATAAA
*
3285998 AATAATAAAAA
1 AATTATAAAAA
3286009 AAATTATATA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
19 43 0.77
20 13 0.23
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
AATTATAAAAATATATAAA
Found at i:3285978 original size:8 final size:8
Alignment explanation
Indices: 3285885--3285978 Score: 55
Period size: 8 Copynumber: 10.6 Consensus size: 8
3285875 GACATGAGGA
3285885 AAAAATAT
1 AAAAATAT
3285893 AAAAA-AT
1 AAAAATAT
3285900 AAAAATCAAT
1 AAAAAT--AT
*
3285910 AAAAGTTAT
1 AAAA-ATAT
* *
3285919 AGAATTAT
1 AAAAATAT
*
3285927 AAAATTTTATT
1 AAAA--ATA-T
3285938 AAAAATTAT
1 AAAAA-TAT
3285947 AAAAATATAT
1 -AAAA-ATAT
3285957 AAAAATCAT
1 AAAAAT-AT
3285966 AAAAATAT
1 AAAAATAT
3285974 AAAAA
1 AAAAA
3285979 AATTGTAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
7 7 0.10
8 21 0.30
9 18 0.25
10 18 0.25
11 7 0.10
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (8 bp):
AAAAATAT
Found at i:3286224 original size:19 final size:20
Alignment explanation
Indices: 3286193--3286259 Score: 84
Period size: 19 Copynumber: 3.4 Consensus size: 20
3286183 GAACGATAGT
3286193 TTTTATAATTTTTTTACAAA
1 TTTTATAATTTTTTTACAAA
*
3286213 TTTTAT-ATTTTTTTACAAT
1 TTTTATAATTTTTTTACAAA
* *
3286232 TCTTTATAATTTTCTTAC-GA
1 T-TTTATAATTTTTTTACAAA
3286252 TTTTATAA
1 TTTTATAA
3286260 AATTTTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 20 0.49
20 12 0.29
21 9 0.22
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAA
Found at i:3286266 original size:29 final size:30
Alignment explanation
Indices: 3286234--3286305 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
3286224 TTTACAATTC
3286234 TTTATAATTTTCTTACGAT-TTTATA-AAAT
1 TTTATAATTTT-TTACGATATTTATATAAAT
* * *
3286263 TTTAT-ATTTTTT-CTATATTTCTATATAT
1 TTTATAATTTTTTACGATATTTATATAAAT
3286291 TTTATAATTTTTTAC
1 TTTATAATTTTTTAC
3286306 TTTTTTTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.08
27 7 0.19
28 13 0.36
29 12 0.33
30 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTATAATTTTTTACGATATTTATATAAAT
Found at i:3286300 original size:8 final size:9
Alignment explanation
Indices: 3286251--3286301 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
3286241 TTTTCTTACG
*
3286251 ATTTTATAAA
1 ATTTTAT-AT
3286261 ATTTTATAT
1 ATTTTATAT
* *
3286270 TTTTTCTAT
1 ATTTTATAT
3286279 ATTTCTATAT
1 ATTT-TATAT
3286289 ATTTTATA-
1 ATTTTATAT
3286297 ATTTT
1 ATTTT
3286302 TTACTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 5 0.14
9 15 0.43
10 15 0.43
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:3286312 original size:19 final size:19
Alignment explanation
Indices: 3286192--3286313 Score: 70
Period size: 19 Copynumber: 6.3 Consensus size: 19
3286182 GGAACGATAG
*
3286192 TTTTTATAATTTTTTTACAA
1 TTTTTATAA-TTTTTTACAT
* *
3286212 ATTTTATATTTTTTTACAAT
1 TTTTTATAATTTTTTAC-AT
*
3286232 TCTTTATAATTTTCTTACGA-
1 TTTTTATAATTTT-TTAC-AT
** *
3286252 -TTTTATAAAATTTTATAT
1 TTTTTATAATTTTTTACAT
* * *
3286270 TTTTTCT-ATATTTCTATAT
1 TTTTTATAAT-TTTTTACAT
* *
3286289 ATTTTATAATTTTTTACTT
1 TTTTTATAATTTTTTACAT
3286308 TTTTTA
1 TTTTTA
3286314 CAAAAAAAAT
Statistics
Matches: 75, Mismatches: 21, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
17 1 0.01
18 4 0.05
19 45 0.60
20 20 0.27
21 5 0.07
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTTTACAT
Found at i:3286355 original size:19 final size:20
Alignment explanation
Indices: 3286331--3286384 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
3286321 AATTCTAATT
3286331 TTTAAT-ATTTTTATTAAAA
1 TTTAATAATTTTTATTAAAA
**
3286350 TTTAATAATTTTTA-TAACT
1 TTTAATAATTTTTATTAAAA
3286369 TTTAATAATTTTTATT
1 TTTAATAATTTTTATT
3286385 TTTTATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 23 0.74
20 8 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAATAATTTTTATTAAAA
Found at i:3286363 original size:10 final size:10
Alignment explanation
Indices: 3286326--3286397 Score: 66
Period size: 9 Copynumber: 7.8 Consensus size: 10
3286316 AAAAAAATTC
3286326 TAATTTTTAA
1 TAATTTTTAA
*
3286336 T-ATTTTTAT
1 TAATTTTTAA
**
3286345 TAAAATTTAA
1 TAATTTTTAA
3286355 TAATTTTT-A
1 TAATTTTTAA
*
3286364 TAACTTTTAA
1 TAATTTTTAA
3286374 TAATTTTT-A
1 TAATTTTTAA
3286383 T--TTTTT-A
1 TAATTTTTAA
3286390 TAATTTTT
1 TAATTTTT
3286398 TGTCACATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.14
9 23 0.46
10 20 0.40
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:3304924 original size:21 final size:22
Alignment explanation
Indices: 3304882--3304930 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
3304872 AGCGGAAATT
3304882 AAAATATAAATTTTTTGAATGTA
1 AAAATATAAATTTTTT-AATGTA
3304905 AAAATAT-AATTTTATT-ATGTA
1 AAAATATAAATTTT-TTAATGTA
*
3304926 TAAAT
1 AAAAT
3304931 TTATGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
AAAATATAAATTTTTTAATGTA
Found at i:3318224 original size:15 final size:16
Alignment explanation
Indices: 3318198--3318232 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3318188 GGATTAATTG
3318198 TATATATTAATTAAAT
1 TATATATTAATTAAAT
*
3318214 TATAT-TTAATTATAT
1 TATATATTAATTAAAT
3318229 TATA
1 TATA
3318233 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATATTAATTAAAT
Found at i:3343343 original size:24 final size:24
Alignment explanation
Indices: 3343316--3343361 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
3343306 TAGTCCTTAT
3343316 ATGTTAGATCCAAGAGTAAATTGG
1 ATGTTAGATCCAAGAGTAAATTGG
3343340 ATGTTAGATCCAAGAGTAAATT
1 ATGTTAGATCCAAGAGTAAATT
3343362 AGTCTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (24 bp):
ATGTTAGATCCAAGAGTAAATTGG
Found at i:3347681 original size:152 final size:151
Alignment explanation
Indices: 3347521--3348084 Score: 825
Period size: 152 Copynumber: 3.7 Consensus size: 151
3347511 TTTATTCGTA
* *
3347521 TTTTTTCCCGAATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTGTTATTTTACATTAT
1 TTTTTTCCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTAT
* * **
3347586 TTTAGTAGATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTATTTAAATTAAAAAAAACCAT
66 TTTAGTATATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTAAAAAAAACC-T
3347651 TATTTCGGCCCTTTGTTAGTAT
130 TATTTCGGCCCTTTGTTAGTAT
* *
3347673 TTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTAAATTAT
1 TTTTTTCCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTAT
* * * *
3347738 TTTAGTACATTATGCTTAAAATGTATTAATTTACTGTGTTTTTTAAATAAATT-AAAAAAACTCT
66 TTTAGTATATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTAAAAAAAAC-CT
*
3347802 TATTTCGGCCCTTTGTTTGTAT
130 TATTTCGGCCCTTTGTTAGTAT
3347824 TTTTTTCCCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTA
1 TTTTTT-CCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTA
* * *
3347889 TTTTAGTATATTATGTTTGAAATGTAATTCATTTAGTGTATTTTTTAAATAAATTTTAAAAAAAT
65 TTTTAGTATATTATGCTTGAAATGT-ATTCATTTAGTGTGTTTTTTAAATAAA--TTAAAAAAAA
* * *
3347954 TCTTATTTCGGCTCTTTGTTCGTA-
127 CCTTATTTCGGCCCTTTGTTAGTAT
*
3347978 -TTTTTCCC-AGATTTTATTACTTT-AAAAAATATAATA-TTTCTAATTTTATTATTTTACATTA
1 TTTTTTCCCGA-ATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTA
**
3348039 TTTTTTTATATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTTA
65 TTTTAGTATATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTTA
3348085 TTGAAAGTAA
Statistics
Matches: 376, Mismatches: 29, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
149 20 0.05
150 47 0.12
151 49 0.13
152 202 0.54
153 29 0.08
155 23 0.06
156 6 0.02
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.53
Consensus pattern (151 bp):
TTTTTTCCCGAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTAT
TTTAGTATATTATGCTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTAAAAAAAACCTT
ATTTCGGCCCTTTGTTAGTAT
Found at i:3348655 original size:152 final size:151
Alignment explanation
Indices: 3348080--3348991 Score: 1269
Period size: 155 Copynumber: 6.0 Consensus size: 151
3348070 TTAGTGTGTT
*
3348080 TTTTATTGAAAGTAATAAAATC-CGGAAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTT
1 TTTT-TTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAA-GGCCAAAATAAGGGTTTTTTT
* * *
3348144 AAAATTTATTTAAAAAATACACTAAATGAATACATTTCAAACATAATGTATTAAAATAATATAAA
64 -AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
* *
3348209 ATAATAAAATTATAAAATATTATA
128 ATAATAAAATTAGAAAATAATATA
*
3348233 TTTTTTAAAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAAGGCCAAAATAAGGGTTTTTTT
1 TTTTTTGAAAGTAATAAAATCTA-GGAAAAAAATACGAAC-AAAGGCCAAAATAAGGGTTTTTTT
* * *
3348298 TAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
64 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
*
3348363 TAATAAAA-TACAAAAATAATATA
129 TAATAAAATTA-GAAAATAATATA
* * * *
3348386 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCAGAAATAATGATTTTTT
1 -TTTT-TTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAAGGCCA-AAATAAGGGTTTTTT
3348451 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
63 T-AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
3348516 AATAATAAAATTAGAAAATAATATA
127 AATAATAAAATTAGAAAATAATATA
* *
3348541 TTTTTATTGAAAGTAATAAAATCT-GGAAAAAAATACGAACAAAGAGCCGAAATAA-GGATTTTT
1 -TTTT-TTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAAG-GCCAAAATAAGGGTTTTTT
*
3348604 TAAATTTATTTAAAAAATACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
63 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
3348669 ATAATAAAATTAGAAAATAGTATA
128 ATAATAAAATTAGAAAATAATATA
* * *
3348693 -TTTTT-AAAGTAATAAAATTTAGGAAAAAAATACGAACAAAGGACCGAAATAAGGGTTTTTTTT
1 TTTTTTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAAGG-CCAAAATAAGGGTTTTTTTA
* * *
3348756 AATTTATTTAAAAAACACAGTAAATTAATACATTTCAAGCATAATGTACTAAAATAATGTAAAAT
65 AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
* *
3348821 AATAAAATTAGAAAATAGTTTA
130 AATAAAATTAGAAAATAATATA
* * * * *
3348843 TTTTTTAAAAGTAATAAAATTTCAGAAAAAAAATACGAACAAAGGGCTAAAATAAGAGTTTTTTT
1 TTTTTTGAAAGTAATAAAATCT-AGGAAAAAAATACGAACAAA-GGCCAAAATAAG-G--GTTTT
* ** ** *
3348908 TTTAAATTCAAATAAAAAATTCACTAAATGAATACATTTCAAACATAATCTACTAAAATAATGTA
61 TTTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
3348973 AAATAATAAAATTAGAAAA
126 AAATAATAAAATTAGAAAA
3348992 AAAGTGTACT
Statistics
Matches: 692, Mismatches: 47, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
148 15 0.02
149 31 0.04
150 93 0.13
151 5 0.01
152 119 0.17
153 122 0.18
154 100 0.14
155 127 0.18
156 80 0.12
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (151 bp):
TTTTTTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAAGGCCAAAATAAGGGTTTTTTTAA
ATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
ATAAAATTAGAAAATAATATA
Found at i:3350309 original size:32 final size:33
Alignment explanation
Indices: 3350269--3350349 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 33
3350259 TCTTCATCTT
3350269 AATTTCTCTTAG-ATATCTTCATGAA-TCTT-AA
1 AATTTCTCTTAGAAT-TCTTCATGAATTCTTCAA
* *
3350300 AAGTTTCTCTAAGAATTCTTCATGAATTCTTCAT
1 AA-TTTCTCTTAGAATTCTTCATGAATTCTTCAA
3350334 AATTTCTCTTAGAATT
1 AATTTCTCTTAGAATT
3350350 TCTAATACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
31 2 0.05
32 19 0.44
33 19 0.44
34 3 0.07
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (33 bp):
AATTTCTCTTAGAATTCTTCATGAATTCTTCAA
Found at i:3351028 original size:63 final size:63
Alignment explanation
Indices: 3350955--3351082 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
3350945 GAATATATTG
*
3350955 AGTTAGTTTCAAATTAAGAAACATTTCAACTAAAAACACAACTAAGATTATAATCATGGTTTA
1 AGTTAGTTTCAAATTAAGAAACATTTCAACTAAAAACACAACTAAGATTATAATCATGGTGTA
*
3351018 AGTTAGTTTCAAATTGAGAAACATTTCAACTAAAAACACAACTAAGATTATAATCATGGTGTA
1 AGTTAGTTTCAAATTAAGAAACATTTCAACTAAAAACACAACTAAGATTATAATCATGGTGTA
3351081 AG
1 AG
3351083 GTGGTAATCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (63 bp):
AGTTAGTTTCAAATTAAGAAACATTTCAACTAAAAACACAACTAAGATTATAATCATGGTGTA
Found at i:3363545 original size:24 final size:24
Alignment explanation
Indices: 3363470--3363545 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
3363460 CTGGGCTTAG
3363470 TAACGGGAAGCT-CGCAAGGAGC-CT
1 TAACGGGAAGCTCCG-AA-GAGCACT
* * *
3363494 ATATCGGGTAGCTCCGAAGAGCATT
1 -TAACGGGAAGCTCCGAAGAGCACT
*
3363519 TAACGGGAAGCTCCGAAGAGTACT
1 TAACGGGAAGCTCCGAAGAGCACT
3363543 TAA
1 TAA
3363546 TCAGAAAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
24 27 0.64
25 13 0.31
26 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (24 bp):
TAACGGGAAGCTCCGAAGAGCACT
Done.