Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 205 of 333
Found at i:67104034 original size:25 final size:25
Alignment explanation
Indices: 67104006--67104057 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
67103996 AGAAGCCTTT
*
67104006 AAATAAATTTGAATAAAATAAAATC
1 AAATAAATTGGAATAAAATAAAATC
** * *
67104031 AAATTGATTGGAATCAAATCAAATC
1 AAATAAATTGGAATAAAATAAAATC
67104056 AA
1 AA
67104058 GATATTTGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (25 bp):
AAATAAATTGGAATAAAATAAAATC
Found at i:67105189 original size:26 final size:26
Alignment explanation
Indices: 67105152--67105235 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
67105142 TGATACAAAT
* * *
67105152 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67105178 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
67105204 TGATAATGGGTTAGGTTAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
67105230 TGATAA
1 TGATAA
67105236 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:67110527 original size:82 final size:82
Alignment explanation
Indices: 67110418--67110748 Score: 389
Period size: 82 Copynumber: 4.1 Consensus size: 82
67110408 ACGATAGGAT
** * * * * *
67110418 TAAATCCTTAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
* *
67110483 CTTTTAAATGGCGGGAA
66 CTGTTAAACGGCGGGAA
* * * * *
67110500 TGAATCCCAAAATAGAATTATTCAATTAATTCGCATTTGGAAACAAAATCAAAATCAAAT-AAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
*
67110564 -TGTTAAACGGCGAGAA
66 CTGTTAAACGGCGGGAA
** ** *
67110580 TAAATCCTGAAACAGAATTATTCAATTAATTCTCGTTTGGAAATGAAATCAAAATCGAATAAACT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
67110645 CTGTTAAACGGCGGGAA
66 CTGTTAAACGGCGGGAA
* * * *
67110662 CAAATCCCAAAACAAAATTATTCAATTAATTCTCGCTTGGAAAC-AAATCAAAATGGAATAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
* * * *
67110726 ATGTTGAACGACAGGAA
66 CTGTTAAACGGCGGGAA
67110743 TAAATC
1 TAAATC
67110749 TTGAAACAGG
Statistics
Matches: 208, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
80 64 0.31
81 43 0.21
82 101 0.49
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (82 bp):
TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
CTGTTAAACGGCGGGAA
Found at i:67110601 original size:162 final size:161
Alignment explanation
Indices: 67110380--67110757 Score: 449
Period size: 162 Copynumber: 2.3 Consensus size: 161
67110370 TTAAAATTCT
* ** * * * *
67110380 GAAACAAAATCAAAATCAAT-TA-TGTTAAACGATAGGATTAAATCCTTAAACAAAATTATTTAA
1 GAAACAAAATCAAAATCAATAAATTGTTAAACGGCAGGAATAAATCCTGAAACAGAATTATTCAA
* * * * **
67110443 TTAAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAATCTTTTAAATGGCGGGAATGAATCCC
66 TTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCC
* * *
67110508 AAAATAGAATTATTCAATTAATTCGCATTTG
131 AAAACAAAATTATTCAATTAATTCGCACTTG
67110539 GAAACAAAATCAAAATCAAATAAATTGTTAAACGGC-GAGAATAAATCCTGAAACAGAATTATTC
1 GAAACAAAATCAAAATC-AATAAATTGTTAAACGGCAG-GAATAAATCCTGAAACAGAATTATTC
* ** *
67110603 AATTAATTCTCGTTTGGAAATGAAATCAAAATCGAATAAACTCTGTTAAACGGCGGGAACAAATC
64 AATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATC
* *
67110668 CCAAAACAAAATTATTCAATTAATTCTCGCTTG
129 CCAAAACAAAATTATTCAATTAATTCGCACTTG
* * * *
67110701 GAAAC-AAATCAAAATGGAATAAAATATGTTGAACGACAGGAATAAATCTTGAAACAG
1 GAAACAAAATCAAAAT-CAAT-AAAT-TGTTAAACGGCAGGAATAAATCCTGAAACAG
67110758 GTTTTGTTGA
Statistics
Matches: 185, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
159 17 0.09
160 3 0.02
161 15 0.08
162 123 0.66
163 26 0.14
164 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (161 bp):
GAAACAAAATCAAAATCAATAAATTGTTAAACGGCAGGAATAAATCCTGAAACAGAATTATTCAA
TTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCC
AAAACAAAATTATTCAATTAATTCGCACTTG
Found at i:67111452 original size:25 final size:25
Alignment explanation
Indices: 67111424--67111475 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
67111414 AGGAGCCTTT
*
67111424 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTGGAATAAAATCAAATC
** * *
67111449 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATCAAATC
67111474 AA
1 AA
67111476 GATACCTGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATCAAATC
Found at i:67113249 original size:68 final size:68
Alignment explanation
Indices: 67113140--67113277 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
67113130 TATACATAGC
67113140 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
1 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
67113205 TTT
66 TTT
67113208 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
1 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
67113273 TTT
66 TTT
67113276 AA
1 AA
67113278 GTCACAAATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (68 bp):
AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
TTT
Found at i:67114881 original size:18 final size:18
Alignment explanation
Indices: 67114850--67114929 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
67114840 TACCAATATC
*
67114850 ATTCAGTAATAATCAATT
1 ATTCAGTAACAATCAATT
* * *
67114868 ATTAAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
67114886 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
67114904 ATTCAGTAACAGTCAGTC
1 ATTCAGTAACAATCAATT
67114922 ATTCAGTA
1 ATTCAGTA
67114930 TCTTTATTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:67114891 original size:36 final size:36
Alignment explanation
Indices: 67114848--67114929 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
67114838 TTTACCAATA
* *
67114848 TCATTCAGTAATAATCAATTATTAAGTAGCAATCAG
1 TCATTCAGTAACAATCAATTATTAAGTAACAATCAG
* * *
67114884 TTATTCAGTAACAATCAATTATTCAGTAACAGTCAG
1 TCATTCAGTAACAATCAATTATTAAGTAACAATCAG
67114920 TCATTCAGTA
1 TCATTCAGTA
67114930 TCTTTATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATTATTAAGTAACAATCAG
Found at i:67118307 original size:26 final size:26
Alignment explanation
Indices: 67118271--67118378 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
67118261 TGAAATTCCA
67118271 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
67118297 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
67118323 ATCAAGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
67118349 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
67118375 ATCA
1 ATCA
67118379 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:67118354 original size:52 final size:52
Alignment explanation
Indices: 67118271--67118379 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 52
67118261 TGAAATTCCA
*
67118271 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCAAGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
67118323 ATCAAGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCAAGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
67118375 ATCAA
1 ATCAA
67118380 TTTGTATCAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.29
Consensus pattern (52 bp):
ATCAAGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:67118838 original size:11 final size:12
Alignment explanation
Indices: 67118816--67118845 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
67118806 TTAATATTTA
67118816 AATTTCTTATTC
1 AATTTCTTATTC
67118828 AATTT-TTATTC
1 AATTTCTTATTC
67118839 AATTTCT
1 AATTTCT
67118846 ACTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTCTTATTC
Found at i:67119537 original size:19 final size:18
Alignment explanation
Indices: 67119487--67119537 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
67119477 TTTATTCATT
* *
67119487 AATATAATAATGTAATATC
1 AATATAATAA-ATAATATA
67119506 AAT-TAATTAAATAATAATA
1 AATATAA-TAAATAAT-ATA
67119525 AATATAATAAATA
1 AATATAATAAATA
67119538 TCTATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.26
19 17 0.63
20 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AATATAATAAATAATATA
Found at i:67122395 original size:13 final size:13
Alignment explanation
Indices: 67122377--67122401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67122367 TTACCTAGCC
67122377 TATAAAAAGTGAT
1 TATAAAAAGTGAT
67122390 TATAAAAAGTGA
1 TATAAAAAGTGA
67122402 ATTTTTTGTG
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:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (13 bp):
TATAAAAAGTGAT
Found at i:67123659 original size:54 final size:54
Alignment explanation
Indices: 67123590--67123694 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
67123580 TTAATTGTTG
* *
67123590 TTATTATTTTATTGTAATTATTCGTGCAATTTAATTGATGCACCACAATTACTA
1 TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGATGCACCACAATTACTA
* *
67123644 TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGGTGCATCACAATTA
1 TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGATGCACCACAATTA
67123695 TTGTTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (54 bp):
TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGATGCACCACAATTACTA
Found at i:67123734 original size:135 final size:135
Alignment explanation
Indices: 67123523--67123828 Score: 384
Period size: 135 Copynumber: 2.3 Consensus size: 135
67123513 ATTTTTGTGA
* * *
67123523 TAATTAATCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGATTAATTGT
1 TAATTACTCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGATCAATTGC
* * ** * *
67123588 TGTTATTATTTTATTGTAATTATTCGTGCAATTTAATTGATGCACCACAATTACTATTATCATTT
66 TATTATCATTTTATTGTAATTACCCATACAATTTAATTGATGCACCACAATTACTATTATCATTT
67123653 TATTG
131 TATTG
* ** * * * *
67123658 TAATTACTCGTGCAATTTAATTGGTGCATCACAATTATTGTTAATTTT-AAAAACCAGTCCA-TG
1 TAATTACTCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGA-TCAATTG
* * *
67123721 CCTATTATCATTTTGTTGTAATTACCCATACAATTTAATTGATGCACCACAATTATTGTTATCAT
65 -CTATTATCATTTTATTGTAATTACCCATACAATTTAATTGATGCACCACAATTACTATTATCAT
67123786 TTTATTG
129 TTTATTG
*
67123793 TAATTACTCATGCAATTTAA-TCAATACACCACAATT
1 TAATTACTCATGCAATTTAATTC-ATGCACCACAATT
67123829 TAATCAAGAG
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
134 10 0.07
135 134 0.93
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (135 bp):
TAATTACTCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGATCAATTGC
TATTATCATTTTATTGTAATTACCCATACAATTTAATTGATGCACCACAATTACTATTATCATTT
TATTG
Found at i:67123784 original size:54 final size:54
Alignment explanation
Indices: 67123725--67123828 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
67123715 TCCATGCCTA
* ** *
67123725 TTATCATTTTGTTGTAATTACCCATACAATTTAATTGATGCACCACAATTATTG
1 TTATCATTTTATTGTAATTACCCATACAATTTAATCAATACACCACAATTATTG
* *
67123779 TTATCATTTTATTGTAATTACTCATGCAATTTAATCAATACACCACAATT
1 TTATCATTTTATTGTAATTACCCATACAATTTAATCAATACACCACAATT
67123829 TAATCAAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (54 bp):
TTATCATTTTATTGTAATTACCCATACAATTTAATCAATACACCACAATTATTG
Found at i:67124322 original size:41 final size:41
Alignment explanation
Indices: 67124265--67124475 Score: 350
Period size: 41 Copynumber: 5.1 Consensus size: 41
67124255 GGTGTTCTAG
67124265 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
67124306 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGTCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * * *
67124347 AAAAAACCAGAGCATTGGCGGCGCTGTTGGTAAAACGCTGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
67124388 TAAAAACCAGAGCACTAGCGGCGCTTTTTGGTAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGC-TTTTGGTAAAACGCCGC
*
67124430 TAAAAACCAGATCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
67124471 TAAAA
1 TAAAA
67124476 GTCATATAAC
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 119 0.76
42 37 0.24
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (41 bp):
TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:67124675 original size:21 final size:21
Alignment explanation
Indices: 67124646--67124725 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
67124636 TAGTTTAAGG
* *
67124646 TTTATGGTTTAAGATACATGA
1 TTTAGGGTTTAAGATATATGA
* * *
67124667 TTTAGGGTTTAAGGTTTAGGA
1 TTTAGGGTTTAAGATATATGA
*
67124688 GTTAATTGTGGTTTAAGATATATGA
1 -TT--TAG-GGTTTAAGATATATGA
67124713 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
67124726 GTTTAAGGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
21 24 0.53
22 4 0.09
24 4 0.09
25 13 0.29
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTAAGATATATGA
Found at i:67124844 original size:21 final size:21
Alignment explanation
Indices: 67124820--67124863 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
67124810 GTGTTGGAGT
*
67124820 TTAA-GGTGTAAGGGTTTGGGG
1 TTAAGGGT-TAAGGGTTTAGGG
67124841 TTAAGGGTTAAGGGTTTAGGG
1 TTAAGGGTTAAGGGTTTAGGG
67124862 TT
1 TT
67124864 TATGGGACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTTAGGG
Found at i:67124847 original size:14 final size:14
Alignment explanation
Indices: 67124818--67124865 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
67124808 CAGTGTTGGA
*
67124818 GTTTAAGGTGTAAGG
1 GTTTAGGGT-TAAGG
*
67124833 GTTTGGGGTTAAGG
1 GTTTAGGGTTAAGG
* *
67124847 GTTAAGGGTTTAGG
1 GTTTAGGGTTAAGG
67124861 GTTTA
1 GTTTA
67124866 TGGGACAGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.38
Consensus pattern (14 bp):
GTTTAGGGTTAAGG
Found at i:67126340 original size:6 final size:6
Alignment explanation
Indices: 67126329--67126362 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
67126319 TACTTCGTTT
67126329 CCACTC CCACTC CCACTC CCACTC CCACTC CCAC
1 CCACTC CCACTC CCACTC CCACTC CCACTC CCAC
67126363 ATACTCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.68, G:0.00, T:0.15
Consensus pattern (6 bp):
CCACTC
Found at i:67130559 original size:19 final size:19
Alignment explanation
Indices: 67130537--67130577 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
67130527 TTTATTGATA
67130537 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
67130555 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
67130574 TTTT
1 TTTT
67130578 GACTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:67130887 original size:43 final size:43
Alignment explanation
Indices: 67130826--67130929 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
67130816 TTTTTGAATT
* **
67130826 TCATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCACTAAAGG
1 TCATGGCCTTTAGCGGCGTTCGTGGGAAAAGCGCCACTAAAGG
* *
67130869 TCATGGCCTTTAGCGGCGTTCGTGGGAAAAGCGTCGCTAAAGG
1 TCATGGCCTTTAGCGGCGTTCGTGGGAAAAGCGCCACTAAAGG
67130912 TCATGGCCTTTAGCGGCG
1 TCATGGCCTTTAGCGGCG
67130930 GCAGAAATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (43 bp):
TCATGGCCTTTAGCGGCGTTCGTGGGAAAAGCGCCACTAAAGG
Found at i:67133650 original size:5 final size:5
Alignment explanation
Indices: 67133642--67133668 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
67133632 ACAAAAATCT
67133642 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
67133669 CAAAACTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:67136368 original size:28 final size:28
Alignment explanation
Indices: 67136325--67136381 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
67136315 CACACGGTTG
* *
67136325 AGCCATAGTAGGAGCAACTGGTACCCCA
1 AGCCACAGTAGAAGCAACTGGTACCCCA
67136353 AGCCACAGTAGAAGCAACTGGTACCCCA
1 AGCCACAGTAGAAGCAACTGGTACCCCA
67136381 A
1 A
67136382 CTCTCGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.23, T:0.12
Consensus pattern (28 bp):
AGCCACAGTAGAAGCAACTGGTACCCCA
Found at i:67141314 original size:24 final size:21
Alignment explanation
Indices: 67141265--67141315 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
67141255 AAAAAATATT
67141265 TCATGCTTAATTAATTAAAAA
1 TCATGCTTAATTAATTAAAAA
* *
67141286 CCATGTCTTAAATTAAGTTAAATA
1 TCATG-CTT-AATTAA-TTAAAAA
67141310 TCATGC
1 TCATGC
67141316 ATGCTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.17
22 3 0.12
23 7 0.29
24 10 0.42
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (21 bp):
TCATGCTTAATTAATTAAAAA
Found at i:67143025 original size:43 final size:43
Alignment explanation
Indices: 67142962--67143177 Score: 258
Period size: 43 Copynumber: 5.0 Consensus size: 43
67142952 TATATGTGAT
*
67142962 ATCGATATGTGATTACGTGTAAGACCACGTCTGGAACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * *
67143005 ATCGATGTTTGATTATGTGTAAGACC-CGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* *
67143047 ATCGATACGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * * *
67143090 ATCAATATGTGTTTGCGAGTAAGACC-CTGTCTGGGATAG-TGGC
1 ATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGC
* ** *
67143133 ATCGATATGAGGCTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
67143176 AT
1 AT
67143178 TGTACGATAT
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 39 0.27
43 104 0.72
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:67143112 original size:85 final size:86
Alignment explanation
Indices: 67142962--67143177 Score: 274
Period size: 85 Copynumber: 2.5 Consensus size: 86
67142952 TATATGTGAT
* * * * * *
67142962 ATCGATATGTGATTACGTGTAAGACCACGTCTGGAACGTTGGCATCGATGTTTGATTATGTGTAA
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGAGTAA
*
67143027 GACCC-GTCTGGGA-CGTTGGC
66 GACCCTGTCTGGGATAG-TGGC
* * * *
67143047 ATCGATACGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAATATGTGTTTGCGAGTAA
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGAGTAA
67143112 GACCCTGTCTGGGATAGTGGC
66 GACCCTGTCTGGGATAGTGGC
* ** *
67143133 ATCGATATGAGGCTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
67143178 TGTACGATAT
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 60 0.54
86 51 0.46
87 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (86 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGAGTAA
GACCCTGTCTGGGATAGTGGC
Found at i:67144467 original size:26 final size:26
Alignment explanation
Indices: 67144438--67144545 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
67144428 TGGTACAAAT
67144438 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
67144464 TGATAATGGATTAGGTAAATATTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
67144490 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
67144516 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
67144542 TGAT
1 TGAT
67144546 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:67146183 original size:27 final size:27
Alignment explanation
Indices: 67146143--67146226 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
67146133 AGGAAGCGTC
67146143 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTATGCCACAAATATCTGAT
* * * *
67146170 GTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGAT
* * *
67146197 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCACAAATATCTG-AT
67146225 CT
1 CT
67146227 AGTGACTCTG
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
27 43 0.93
28 3 0.07
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGAT
Found at i:67146244 original size:27 final size:26
Alignment explanation
Indices: 67146180--67146252 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
67146170 GTGGTGGCTT
* *
67146180 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACAT-TATCTGTTCTAGTGACTC
67146207 TGCCACGATTATCTGTATCTAGTGACTC
1 TGCCAC-ATTATCTGT-TCTAGTGACTC
*
67146235 TGTCACATTATCTGTTCT
1 TGCCACATTATCTGTTCT
67146253 GGTAGCCATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.07
27 22 0.54
28 16 0.39
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.40
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTAGTGACTC
Found at i:67146247 original size:54 final size:54
Alignment explanation
Indices: 67146143--67146255 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
67146133 AGGAAGCGTC
* * * *
67146143 CTGGTGGCTATGCCACAAATATCTGATGTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
67146197 CTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
67146251 CTGGT
1 CTGGT
67146256 AGCCATGCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
54 35 0.70
55 15 0.30
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:67148928 original size:86 final size:85
Alignment explanation
Indices: 67148699--67148964 Score: 255
Period size: 86 Copynumber: 3.1 Consensus size: 85
67148689 CCACAGCTGA
* * * * *
67148699 TTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGCAGATTAAACAAATTGCCACTTG
1 TTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTTG
* *
67148764 GTTCATGAT-TGAACACCATATC
66 GTTCATAATCT-AACA-CAT-TG
** ** * * * * * * *
67148786 TTTTTAGCTACTACCACTTGTTGTAAGTGTAGAAAATATTTACAGATTAAATAAACTGTCACTTG
1 TTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTTG
67148851 GTTCATAATCTAACCACATTG
66 GTTCATAATCTAA-CACATTG
* * * * *
67148872 TTTGCAATTACTGCCACTTGTTGTGAGTGCATAAAATATTTGTAAATTAGACAAACTACCACTTG
1 TTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTTG
* *
67148937 GTTAATAATCGAATCACATTG
66 GTTCATAATCTAA-CACATTG
67148958 TTTGCAA
1 TTTGCAA
67148965 ATTAAACTGC
Statistics
Matches: 143, Mismatches: 34, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
86 76 0.53
87 64 0.45
88 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (85 bp):
TTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTTG
GTTCATAATCTAACACATTG
Found at i:67152845 original size:26 final size:26
Alignment explanation
Indices: 67152809--67152918 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
67152799 CATGAAATTC
67152809 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
67152835 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
67152861 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
67152887 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
67152913 TTATCA
1 TTATCA
67152919 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:67158624 original size:25 final size:26
Alignment explanation
Indices: 67158575--67158680 Score: 173
Period size: 25 Copynumber: 4.2 Consensus size: 26
67158565 CATGAAATTC
67158575 TATCATGGAACATTTACCTAA-CCAT
1 TATCATGGAACATTTACCTAACCCAT
67158600 TATCAT-GAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
67158625 TATCATGGAA-ATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCCAT
*
67158650 TATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCCAT
67158676 TATCA
1 TATCA
67158681 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
24 14 0.18
25 40 0.52
26 23 0.30
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:67158678 original size:51 final size:50
Alignment explanation
Indices: 67158575--67158680 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 50
67158565 CATGAAATTC
67158575 TATCATGGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCAT
*
67158625 TATCATGGAA-ATTTACCTAACCTATTATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACC-ATTATCAT-GAACATTTACCTAACCCAT
67158676 TATCA
1 TATCA
67158681 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 12 0.23
50 18 0.34
51 23 0.43
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (50 bp):
TATCATGGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCAT
Found at i:67172863 original size:28 final size:30
Alignment explanation
Indices: 67172822--67172886 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
67172812 TATAAAAATA
*
67172822 TTTTATGTAAAAAA-ACTATAAATT-TTTAT
1 TTTTATGTAAAAAATA-TAAAAATTATTTAT
*
67172851 TTTTAT-TATAAAATATAAAAATTAATTTAT
1 TTTTATGTAAAAAATATAAAAATT-ATTTAT
67172881 TTTTAT
1 TTTTAT
67172887 AAAAACATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 13 0.42
29 7 0.23
30 11 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTTATGTAAAAAATATAAAAATTATTTAT
Found at i:67172981 original size:18 final size:18
Alignment explanation
Indices: 67172958--67173007 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 18
67172948 ACCTTATAAA
67172958 AATATTTTTCATTTTT-AT
1 AATATTTTT-ATTTTTCAT
67172976 AATATTTTATATTTTTCAT
1 AATATTTT-TATTTTTCAT
67172995 ATATAATTTTTAT
1 A-AT-ATTTTTAT
67173008 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 14 0.50
19 4 0.14
20 5 0.18
21 5 0.18
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
AATATTTTTATTTTTCAT
Found at i:67173087 original size:20 final size:21
Alignment explanation
Indices: 67173048--67173087 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
67173038 ATTATCATCA
*
67173048 CATGTCAAATACTAGTTTCAC
1 CATGTCAAATACTAGATTCAC
*
67173069 CATGTCAAATATTA-ATTCA
1 CATGTCAAATACTAGATTCA
67173088 AAATTATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (21 bp):
CATGTCAAATACTAGATTCAC
Found at i:67180550 original size:22 final size:22
Alignment explanation
Indices: 67180522--67180566 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
67180512 GAGTCAGAAT
67180522 AGGGGAACCCGAAATCATTCTG
1 AGGGGAACCCGAAATCATTCTG
67180544 AGGGGAACCCGAAATCATTCTG
1 AGGGGAACCCGAAATCATTCTG
67180566 A
1 A
67180567 CCTTGTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (22 bp):
AGGGGAACCCGAAATCATTCTG
Found at i:67182804 original size:22 final size:20
Alignment explanation
Indices: 67182769--67182808 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
67182759 CCAGTCCCAT
67182769 GCATCAGTAATAACAACATG
1 GCATCAGTAATAACAACATG
67182789 GCATGCAGTAAATAACAACA
1 GCAT-CAGT-AATAACAACA
67182809 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (20 bp):
GCATCAGTAATAACAACATG
Found at i:67184377 original size:26 final size:26
Alignment explanation
Indices: 67184341--67184450 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
67184331 CATGAAATTC
67184341 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
67184367 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
67184393 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
67184419 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
67184445 TTATCA
1 TTATCA
67184451 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:67190176 original size:26 final size:26
Alignment explanation
Indices: 67190140--67190249 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
67190130 CATGAAATTC
67190140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
67190166 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
67190192 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
67190218 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
67190244 TTATCA
1 TTATCA
67190250 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:67193174 original size:43 final size:42
Alignment explanation
Indices: 67193112--67193557 Score: 141
Period size: 43 Copynumber: 10.2 Consensus size: 42
67193102 CTATTTAGGG
67193112 AGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCATGA
1 AGATAAGA-CTTCAATCTTCAATCTGC-TCCTTGCTACCTCA-GA
*
67193157 AGATAAGAC-TCAATCTTCAA-CTTGCTCTTTTGCTACCTCAG-
1 AGATAAGACTTCAATCTTCAATC-TGCTC-CTTGCTACCTCAGA
* **** * * *
67193198 AGATAAGGCTTGGGGCTTCAAATCTACTCCATTGC--CGATACATGG
1 AGATAAGACTTCAATCTTC-AATCTGCTCC-TTGCTAC-CT-CA-GA
* * * * *
67193243 AGATAAGA-TTCACCATCTTCGATCTACTCC--GCTACTGTTTAGGG
1 AGATAAGACTTCA--ATCTTCAATCTGCTCCTTGCTAC--CTCA-GA
* * *
67193287 AGATAAGATCTTCAATTTTCAGTCTGCTTCCTTACTACCTCAGGA
1 AGATAAGA-CTTCAATCTTCAATCTGC-TCCTTGCTACCTCA-GA
*
67193332 AGATAAGAC-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 AGATAAGACTTCAATCTTCAATCTGCTC-CTTGCTACCTCAGA
* ** * * *
67193374 GAGATAAGGCTT-AGGGCTTAAATCTGCTCCATTGC--CGATACATGG
1 -AGATAAGACTTCA-ATCTTCAATCTGCTCC-TTGCTAC-CT-CA-GA
* * * * *
67193419 AGATAAGA-TTCGCCATCTTCGATCTGCTCC--GCTACTATTTAGGG
1 AGATAAGACTT--CAATCTTCAATCTGCTCCTTGCTAC--CTCA-GA
* * * *
67193463 ATATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAAGA
1 AGATAAGA-CTTCAATCTTCAATCTGC-TCCTTGCTACCTC-AGA
* * *
67193508 AGATAAGAC-TCTATTTTCAACCTGCTCTCTTGCTACCTCAGA
1 AGATAAGACTTCAATCTTCAATCTGCTC-CTTGCTACCTCAGA
67193550 GAGATAAG
1 -AGATAAG
67193558 GCTTGGGGCT
Statistics
Matches: 296, Mismatches: 63, Indels: 86
0.67 0.14 0.19
Matches are distributed among these distances:
41 9 0.03
42 23 0.08
43 103 0.35
44 75 0.25
45 66 0.22
46 11 0.04
47 9 0.03
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
AGATAAGACTTCAATCTTCAATCTGCTCCTTGCTACCTCAGA
Found at i:67193471 original size:176 final size:176
Alignment explanation
Indices: 67193037--67193783 Score: 1057
Period size: 176 Copynumber: 4.3 Consensus size: 176
67193027 CAGGGCTAGT
* * * *
67193037 GGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCCTCGATCTGTTCCACTA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
* * * *
67193102 CTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCATGAAGATAAGACT
66 CTATTTAGGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* *
67193167 CAATCTTCAACTTGCTCTTTTGCTACCTC--AGAGATAAGGCTTGG
131 CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * *
67193211 GGCTTCAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCT
1 GGCTT-AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCT
* *
67193276 ACTGTTTAGGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGAC
65 ACTATTTAGGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
*
67193341 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAG
130 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
67193388 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
* * *
67193453 CTATTTAGGGATATAAGATCTTCAATCTTT-AGTCTGCTTTCTTGCTACCTCAAGAAGATAAGAC
66 CTATTTAGGGAGATAAGATCTTCAAT-TTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
* *
67193517 TCTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
130 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * ** * *
67193564 GGCTTAAATCTACTCCATTGTCGATACATGGAGATAAGATTTTCCATCTTCGATCTGCTCTGCTG
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
* * * * *
67193629 CAACTTCAGGGAGATAAGATCTTC------CA-TCTGCTTTCTTGCTACTTCAGAAAGATAAGAC
66 CTA-TTTAGGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
*
67193687 TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TGG
130 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * *
67193733 TGGCTTAAATCTGCTCTATTGCCAATATATGGAGATAAGATTCGCCATCTT
1 -GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTT
67193784 TAATCTCCAT
Statistics
Matches: 517, Mismatches: 49, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
169 3 0.01
170 112 0.22
171 1 0.00
174 5 0.01
175 139 0.27
176 217 0.42
177 40 0.08
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (176 bp):
GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
CTATTTAGGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
Found at i:67193673 original size:38 final size:38
Alignment explanation
Indices: 67193609--67193727 Score: 105
Period size: 38 Copynumber: 3.0 Consensus size: 38
67193599 AAGATTTTCC
* * * *
67193609 ATCTTCGATCTGCTCTGC-TGCAACTTCAGGGAGATAAG
1 ATCTTCCATCTGCT-TTCTTGCTACTTCAGAGAGATAAG
*
67193647 ATCTTCCATCTGCTTTCTTGCTACTTCAGAAAGATAAG
1 ATCTTCCATCTGCTTTCTTGCTACTTCAGAGAGATAAG
* * *
67193685 ACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
1 A-TC-TTC--C-ATCTGCTTTCTTGCTACTTCAGAGAGATAAG
67193728 GCTGGTGGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.03
38 31 0.47
39 2 0.03
40 3 0.05
42 1 0.02
43 27 0.41
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (38 bp):
ATCTTCCATCTGCTTTCTTGCTACTTCAGAGAGATAAG
Found at i:67194896 original size:20 final size:21
Alignment explanation
Indices: 67194873--67194913 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
67194863 CCTTGGCCTC
67194873 TCCTTTTT-CCTTTTTTATTT
1 TCCTTTTTACCTTTTTTATTT
67194893 TCCTTTTTACCCTTTTTTATT
1 TCCTTTTTA-CCTTTTTTATT
67194914 GAGTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCCTTTTTACCTTTTTTATTT
Found at i:67215126 original size:20 final size:21
Alignment explanation
Indices: 67215083--67215126 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
67215073 TATATTTGTT
**
67215083 TTAAATAATAAATAAATATTA
1 TTAAATAATAAATAAATAAAA
*
67215104 TTAAA-AATAAATAGATAAAA
1 TTAAATAATAAATAAATAAAA
67215124 TTA
1 TTA
67215127 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATAATAAATAAATAAAA
Found at i:67215126 original size:23 final size:23
Alignment explanation
Indices: 67215085--67215128 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
67215075 TATTTGTTTT
67215085 AAATAATAAATAAATATTATTAA
1 AAATAATAAATAAATATTATTAA
*
67215108 AAATAAATAGATAAA-ATTATT
1 AAAT-AATAAATAAATATTATT
67215129 TTCTTGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATAATAAATAAATATTATTAA
Found at i:67216434 original size:37 final size:39
Alignment explanation
Indices: 67216361--67216434 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
67216351 TAATTAATAT
*
67216361 ATAATTTGTAATAGAAAGTAAGAACTGAAATAATTTATC
1 ATAATTTGTAATAGAAAGTAAGAACTGAAAAAATTTATC
* *
67216400 ATAATTT-T-ATAGAAATTAAG-ATTGAAAAATATTTA
1 ATAATTTGTAATAGAAAGTAAGAACTGAAAAA-ATTTA
67216435 AGGAACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 7 0.23
37 16 0.52
38 1 0.03
39 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (39 bp):
ATAATTTGTAATAGAAAGTAAGAACTGAAAAAATTTATC
Found at i:67221175 original size:33 final size:33
Alignment explanation
Indices: 67221138--67221234 Score: 151
Period size: 33 Copynumber: 3.0 Consensus size: 33
67221128 CCATATGCTT
*
67221138 ATGTGGCCCCACACGCCCAACTTAGCCTAGCCC
1 ATGTGGCCCCACACGCCCAACTTGGCCTAGCCC
*
67221171 ATGTGGCCCCACATGCCCAACTTGGCCTAGCCC
1 ATGTGGCCCCACACGCCCAACTTGGCCTAGCCC
* *
67221204 GTGTGG-CCCACACGTCCAACTTGGCCTAGCC
1 ATGTGGCCCCACACGCCCAACTTGGCCTAGCC
67221235 TGTGTAGCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 23 0.39
33 36 0.61
ACGTcount: A:0.19, C:0.42, G:0.22, T:0.18
Consensus pattern (33 bp):
ATGTGGCCCCACACGCCCAACTTGGCCTAGCCC
Found at i:67221249 original size:32 final size:32
Alignment explanation
Indices: 67221148--67221258 Score: 105
Period size: 32 Copynumber: 3.4 Consensus size: 32
67221138 ATGTGGCCCC
* * * * *
67221148 ACACGCCCAACTTAGCCTAGCCCATGTGGCCCC
1 ACACGGCCAACTTGGCCTAGCCCGTGTAG-CCA
* * * *
67221181 ACATGCCCAACTTGGCCTAGCCCGTGTGGCCC
1 ACACGGCCAACTTGGCCTAGCCCGTGTAGCCA
* *
67221213 ACACGTCCAACTTGGCCTAGCCTGTGTAGCCA
1 ACACGGCCAACTTGGCCTAGCCCGTGTAGCCA
67221245 ACACGGCCACACTT
1 ACACGGCCA-ACTT
67221259 AAGCCACCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 38 0.56
33 30 0.44
ACGTcount: A:0.21, C:0.41, G:0.21, T:0.18
Consensus pattern (32 bp):
ACACGGCCAACTTGGCCTAGCCCGTGTAGCCA
Found at i:67224354 original size:33 final size:32
Alignment explanation
Indices: 67224317--67224394 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
67224307 TGGCCCTGCC
* * *
67224317 ATGGTCTTACACTTGTG-GTGCCATAATCCAGTT
1 ATGGTCTTACA-TT-TGAATGCCATAACCCAGCT
*
67224350 ATGGTCTTATCATTTGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTTGAATGCCATAACCCAGCT
67224383 ATGGTCTTACAT
1 ATGGTCTTACAT
67224395 ACAAATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 5 0.13
33 32 0.82
34 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (32 bp):
ATGGTCTTACATTTGAATGCCATAACCCAGCT
Found at i:67224387 original size:66 final size:66
Alignment explanation
Indices: 67224268--67224393 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
67224258 CGTTTTCTTT
* * *
67224268 GTGCCATAGTCCAATTATGGTCTTATACGTGAATTCCCATGGCCCTGCCATGGTCTTACACTTGT
1 GTGCCATAATCCAATTATGGTCTTATACGTGAATTCCCATAGCCCAGCCATGGTCTTACACTTGT
67224333 G
66 G
* ** * *
67224334 GTGCCATAATCCAGTTATGGTCTTATCATTTGAA-TGCCATAGCCCAGCTATGGTCTTACA
1 GTGCCATAATCCAATTATGGTCTTAT-ACGTGAATTCCCATAGCCCAGCCATGGTCTTACA
67224394 TACAAATACT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 46 0.90
67 5 0.10
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (66 bp):
GTGCCATAATCCAATTATGGTCTTATACGTGAATTCCCATAGCCCAGCCATGGTCTTACACTTGT
G
Found at i:67226511 original size:21 final size:20
Alignment explanation
Indices: 67226487--67226526 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67226477 AGAGAATGGA
67226487 AAAGAAAAAAAAAGAAAATTT
1 AAAGAAAAAAAAA-AAAATTT
* *
67226508 AAAGAACATAAAAAAAATT
1 AAAGAAAAAAAAAAAAATT
67226527 AAATTACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (20 bp):
AAAGAAAAAAAAAAAAATTT
Found at i:67233423 original size:137 final size:137
Alignment explanation
Indices: 67233177--67233463 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
67233167 CATTGGGCCT
** *
67233177 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
67233242 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
67233307 CATATGC
131 CATATGC
67233314 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
67233379 AGCCCCTTATTCAGATAATAGTATGGCCCATTGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
67233444 CATATGC
131 CATATGC
67233451 AAGCCCATTTGGG
1 AAGCCCATTTGGG
67233464 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:67235328 original size:26 final size:26
Alignment explanation
Indices: 67235248--67235331 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
67235238 CATGAAATTC
*
67235248 TTATCATGAAACATTTACCTAGCCCA
1 TTATCATGAAACATTTACCTAACCCA
*
67235274 TCATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
67235300 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
67235326 TTATCA
1 TTATCA
67235332 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:67237412 original size:22 final size:22
Alignment explanation
Indices: 67237358--67237435 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
67237348 GTTTGATTTA
67237358 TTTAT-TTATTTATTTTAAACT
1 TTTATATTATTTATTTTAAACT
* * **
67237379 ATTATTATTATTCATTTTAAGTT
1 TTTA-TATTATTTATTTTAAACT
67237402 TTTATATTATTTATTTTAAATCAT
1 TTTATATTATTTATTTTAAA-C-T
67237426 TTTATCATTA
1 TTTAT-ATTA
67237436 CTCTTTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 3 0.07
22 15 0.34
23 16 0.36
24 6 0.14
25 4 0.09
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (22 bp):
TTTATATTATTTATTTTAAACT
Found at i:67237554 original size:27 final size:25
Alignment explanation
Indices: 67237488--67237721 Score: 103
Period size: 26 Copynumber: 9.4 Consensus size: 25
67237478 AATATTTTAC
* *
67237488 ATATATTATTTATTTCAAACTA-TT
1 ATATATTATTTATTTTAAATTATTT
** *
67237512 ATACCTCATTTATTTTGAAATTATTT
1 ATATATTATTTATTTT-AAATTATTT
* *
67237538 ATATATCTTTTTATTTTAAACTATTAT
1 ATATAT-TATTTATTTTAAATTATT-T
* *
67237565 ATATATTATTCATTTTAAATTTCTTT
1 ATATATTATTTATTTTAAA-TTATTT
* * *
67237591 ATATAGTATTAATTTCAAACTGT-TTT
1 ATATATTATTTATTTTAAA-T-TATTT
* * *
67237617 A-ATA-CATATTATTCTGAATTATTTT
1 ATATATTAT-TTATTTTAAATTA-TTT
* * *
67237642 ATATATTAATTATTTTACATTA-CT
1 ATATATTATTTATTTTAAATTATTT
* *
67237666 -TAT-TTATTTAATTTAAACTCTTTTT
1 ATATATTATTTATTTTAAA-T-TATTT
*
67237691 ATATAATA-TT-TTTT-AATTATTT
1 ATATATTATTTATTTTAAATTATTT
67237713 -TATTATTAT
1 ATA-TATTAT
67237722 AAATTTATAT
Statistics
Matches: 154, Mismatches: 38, Indels: 37
0.67 0.17 0.16
Matches are distributed among these distances:
21 2 0.01
22 19 0.12
23 6 0.04
24 19 0.12
25 22 0.14
26 64 0.42
27 22 0.14
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
ATATATTATTTATTTTAAATTATTT
Found at i:67237700 original size:74 final size:76
Alignment explanation
Indices: 67237559--67237720 Score: 178
Period size: 77 Copynumber: 2.2 Consensus size: 76
67237549 TATTTTAAAC
* *
67237559 TATTATATATATT-ATTCATTTTAAATTTCTTTATATAGTATTAATTTCAAACTGTTTTAATACA
1 TATTTTATATATTAATTCATTTTAAATTACTTTATATAGTATTAATTTCAAACTGTTTTAATACA
67237623 TATTATTCTGAAT
66 TATT-TT-TGAAT
* * *
67237636 TATTTTATATATTAATT-ATTTTACATTAC-TTATTTA-T-TTAATTT-AAACTCTTTTTATATA
1 TATTTTATATATTAATTCATTTTAAATTACTTTATATAGTATTAATTTCAAACT-GTTTTA-ATA
*
67237696 -ATATTTTTTAAT
64 CATATTTTTGAAT
67237708 TATTTTAT-TATTA
1 TATTTTATATATTA
67237721 TAAATTTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
71 5 0.07
72 12 0.16
73 7 0.09
74 17 0.22
75 4 0.05
76 6 0.08
77 22 0.29
78 3 0.04
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (76 bp):
TATTTTATATATTAATTCATTTTAAATTACTTTATATAGTATTAATTTCAAACTGTTTTAATACA
TATTTTTGAAT
Found at i:67237808 original size:27 final size:27
Alignment explanation
Indices: 67237725--67237865 Score: 94
Period size: 27 Copynumber: 5.2 Consensus size: 27
67237715 TTATTATAAA
* * *
67237725 TTTATATACTGTTTATTCTTAAACTTCTT
1 TTTATATATTATTTA-TCTTAAA-TTATT
* *
67237754 TTTATATGGATTATTTATTTTCAA--ATT
1 TTTATAT--ATTATTTATCTTAAATTATT
*
67237781 TTTATATATTGTTTATCTTAAATTA-T
1 TTTATATATTATTTATCTTAAATTATT
* *
67237807 TTTATACATTATTTAT-TCTATATT-TT
1 TTTATATATTATTTATCT-TAAATTATT
* * *
67237833 TTATATATATTATTTATATTAAACTGTT
1 TT-TATATATTATTTATCTTAAATTATT
67237861 TTTAT
1 TTTAT
67237866 TTCATGTATA
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
25 13 0.15
26 23 0.26
27 30 0.34
28 5 0.06
29 7 0.08
30 5 0.06
31 6 0.07
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTATATATTATTTATCTTAAATTATT
Found at i:67237834 original size:51 final size:55
Alignment explanation
Indices: 67237725--67237840 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 55
67237715 TTATTATAAA
* * * *
67237725 TTTATATACTGTTTATTCTTAAACTTCTTTTTATATGGATTATTTATTTTCAAATT
1 TTTATATATTGTTTATTCTTAAACTTCATTTTATA-GCATTATTTATTCTCAAATT
*
67237781 TTTATATATTGTTTA-TCTTAAA-TT-ATTTTATA-CATTATTTATTCT-ATATTT
1 TTTATATATTGTTTATTCTTAAACTTCATTTTATAGCATTATTTATTCTCA-AATT
67237832 TTTATATAT
1 TTTATATAT
67237841 ATTATTTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
50 1 0.02
51 23 0.43
53 7 0.13
54 2 0.04
55 7 0.13
56 14 0.26
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.61
Consensus pattern (55 bp):
TTTATATATTGTTTATTCTTAAACTTCATTTTATAGCATTATTTATTCTCAAATT
Found at i:67237843 original size:13 final size:13
Alignment explanation
Indices: 67237778--67237851 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 13
67237768 TTATTTTCAA
*
67237778 ATTTTTATATATT
1 ATTTATATATATT
* * *
67237791 GTTTATCTTAAATT
1 ATTTAT-ATATATT
*
67237805 ATTT-TATACATT
1 ATTTATATATATT
*
67237817 ATTTATTCTATATT
1 ATTTA-TATATATT
*
67237831 TTTTATATATATT
1 ATTTATATATATT
67237844 ATTTATAT
1 ATTTATAT
67237852 TAAACTGTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 9 0.20
13 19 0.41
14 18 0.39
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:67243188 original size:23 final size:23
Alignment explanation
Indices: 67243157--67243200 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67243147 ATTCTGTACA
*
67243157 TGGGTTAGGATTATTGGGTTATT
1 TGGGCTAGGATTATTGGGTTATT
*
67243180 TGGGCTAGGTTTATTGGGTTA
1 TGGGCTAGGATTATTGGGTTA
67243201 AGGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.45
Consensus pattern (23 bp):
TGGGCTAGGATTATTGGGTTATT
Found at i:67243721 original size:25 final size:25
Alignment explanation
Indices: 67243687--67243737 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
67243677 AAGTTATAAC
67243687 CATTTTTTATAATAAATAAATTAAG
1 CATTTTTTATAATAAATAAATTAAG
**
67243712 CATTTTTTATAATATGTAAATTAAG
1 CATTTTTTATAATAAATAAATTAAG
67243737 C
1 C
67243738 CAAAAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (25 bp):
CATTTTTTATAATAAATAAATTAAG
Found at i:67246196 original size:3 final size:3
Alignment explanation
Indices: 67246190--67246409 Score: 133
Period size: 3 Copynumber: 72.7 Consensus size: 3
67246180 AATGAGAACG
* * * **
67246190 ATA ATA ATA ATA TTA ATA ATA ATA ATA GTA AAA ATA ATA ATA ATA CCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
67246238 ATG ACA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
67246286 ATG ATA ATA GTA ATA GAAA ATA AAA ATA AAA ATA AT- ATA GTG ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
67246331 GTA ATA A-A AGTA A-A AGTA ATA GTA ATA ATA ATG GTA ATA ATAA ATA
1 ATA ATA ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* *
67246377 GTA ATA ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA AT
67246410 CTAAAGTTGG
Statistics
Matches: 158, Mismatches: 49, Indels: 20
0.70 0.22 0.09
Matches are distributed among these distances:
2 7 0.04
3 138 0.87
4 13 0.08
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:67246569 original size:3 final size:3
Alignment explanation
Indices: 67246561--67246876 Score: 94
Period size: 3 Copynumber: 105.0 Consensus size: 3
67246551 TAAATACAAA
* * **
67246561 AAT AAT AAT AAT AAT AAT -AT AGT AAT AAT AAT -AT ATT AAAT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * ** * * *
67246605 AAA AAA AAT AGT AAC AAT AAT TTT AA- AAA AAT GAT AAT AGT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
67246651 AAT AA- GAT TAT AAT AAT AAT ATT AAT AAA AAT AAG AAT AAA AAG GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
67246698 AGT AAT AAT AGT AAT AAT AAT AGT AAT AGT AA- AAT GAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
** * ** ** * *
67246743 AGC AAT AAT AAG AGC GTT AAT GAT AGT AAT AAT -AT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * * *
67246788 -AT ATAT GTAT GAAA AAT AAT AAT AAT AGA- AGT AGT ACT AAT TAT AATT
1 AAT A-AT -AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T
*
67246836 AAT AGT AAT AAT AAAT GACA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT -A-AT AAT AAT AAT AAT AAT AAT AAT
67246877 TAATTTGAAA
Statistics
Matches: 221, Mismatches: 73, Indels: 38
0.67 0.22 0.11
Matches are distributed among these distances:
2 16 0.07
3 183 0.83
4 21 0.10
5 1 0.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:67246586 original size:14 final size:13
Alignment explanation
Indices: 67246561--67246596 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
67246551 TAAATACAAA
67246561 AATAATA-ATAAT
1 AATAATATATAAT
67246573 AATAATATAGTAAT
1 AATAATATA-TAAT
67246587 AATAATATAT
1 AATAATATAT
67246597 TAAATGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 2 0.09
14 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
AATAATATATAAT
Found at i:67248433 original size:44 final size:43
Alignment explanation
Indices: 67248297--67248442 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 43
67248287 TATTTATAGT
* * * * * *
67248297 TTCAATCTGTTCCACTGCAACGTCATGGAAATAAGATTTGCTATC
1 TTCAAT-TGCTCCACTGCAACTTCAAGGAGATAAGACTTG-TAAC
* * * * *
67248342 TTTAGTCTGCTCCACTGCAAGTTTAGGGAGATAAGACTTGTAAC
1 TTCAAT-TGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAAC
* * **
67248386 TTCAACTTGCTCCATTGCAACTTCAAGGAGATAAGGCTTGTGGC
1 TTCAA-TTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAAC
*
67248430 TTCAATCGCTCCA
1 TTCAATTGCTCCA
67248443 ATGCCATTTC
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 7 0.09
44 41 0.51
45 32 0.40
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
TTCAATTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAAC
Found at i:67248459 original size:43 final size:44
Alignment explanation
Indices: 67248350--67248459 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
67248340 TCTTTAGTCT
* * * *
67248350 GCTCCACTGCAAGTTTAGGGAGATAAGACTTGTAACTTCAACTT
1 GCTCCAATGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTC
* * * **
67248394 GCTCCATTGCAACTTCAAGGAGATAAGGCTTGTGGCTTCAA-TC
1 GCTCCAATGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTC
* *
67248437 GCTCCAATGCCATTTCAGGGAGA
1 GCTCCAATGCAACTTCAGGGAGA
67248460 AGAGATTTGT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 20 0.37
44 34 0.63
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
GCTCCAATGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTC
Found at i:67248561 original size:88 final size:88
Alignment explanation
Indices: 67248438--67248681 Score: 335
Period size: 88 Copynumber: 2.8 Consensus size: 88
67248428 GCTTCAATCG
* * * * *
67248438 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCTGCTGAGACTTCAAGGAG
1 CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
67248503 ATACAAAATGTGGCTTCGAGCCT
66 ATACAAAATGTGGCTTCGAGCCT
* * * **
67248526 CTCCAGTGTCATATCAAGGAGAAGATATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGTT
1 CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
* *
67248591 ATACGAATTGTGGCTTCGAGCCT
66 ATACAAAATGTGGCTTCGAGCCT
* * ** *
67248614 CTCCAGTGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCATTGGAACTTCAAGGAG
1 CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
67248679 ATA
66 ATA
67248682 GGGTTTGTTT
Statistics
Matches: 134, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 134 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (88 bp):
CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
ATACAAAATGTGGCTTCGAGCCT
Found at i:67248563 original size:44 final size:42
Alignment explanation
Indices: 67248515--67248650 Score: 98
Period size: 44 Copynumber: 3.1 Consensus size: 42
67248505 ACAAAATGTG
*
67248515 GCTTCGAGCCTCTCCAGTGTCATATCAAGGAGAAGATATTTGTA
1 GCTTCGAGCCTCTCCAGTGACAT-TCAAGGAGAAGA-ATTTGTA
* * * * *
67248559 GCTTCGA-TCTACTCC-GCTGAAACTTCAAGGTTATACGAA-TTGTG
1 GCTTCGAGCCT-CTCCAG-TGACA-TTCAAGG--AGAAGAATTTGTA
* *
67248603 GCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCTCTCCAGTGACA-TTCAAGGAGAAGA-ATTTGTA
67248647 GCTT
1 GCTT
67248651 TGATCTACTC
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
42 4 0.06
43 4 0.06
44 52 0.75
45 5 0.07
46 4 0.06
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (42 bp):
GCTTCGAGCCTCTCCAGTGACATTCAAGGAGAAGAATTTGTA
Found at i:67248712 original size:41 final size:41
Alignment explanation
Indices: 67248649--67248856 Score: 114
Period size: 41 Copynumber: 4.9 Consensus size: 41
67248639 GATTTGTAGC
* * * *
67248649 TTTGATCTACTCCATTGGAACTTCA-AGGAGATAGGGTTTGT
1 TTTGATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTGT
*
67248690 TTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTTAT
1 TTTGATCTACTCCACTGCAACTTCAGAGAGATAAGATTTG---T
* * * * * * * *
67248734 TTTTAGTCTGCTTCACTACAAATTCAGGGAGATAAGACTAGTGAC
1 TTTGA-TCTACTCCACTGCAACTTCAGAGAGATAAGA-T-TTG-T
** * ** * *
67248779 TTCAACCTGTTCCACTGCAACTTCAGGGAGGTAA-AGTTTGT
1 TTTGATCTACTCCACTGCAACTTCAGAGAGATAAGA-TTTGT
* * *
67248820 TTTGATATGCTCTACTGCAACTTCAGAGAGATAAGAT
1 TTTGATCTACTCCACTGCAACTTCAGAGAGATAAGAT
67248857 CTGTGATTTA
Statistics
Matches: 126, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
41 60 0.48
42 4 0.03
43 2 0.02
44 28 0.22
45 29 0.23
46 1 0.01
47 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (41 bp):
TTTGATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGT
Found at i:67248889 original size:92 final size:96
Alignment explanation
Indices: 67248777--67248951 Score: 234
Period size: 92 Copynumber: 1.9 Consensus size: 96
67248767 AAGACTAGTG
** * *
67248777 ACTTCAACCTGTTCCACTGCAACTTCAGGGAGGTAA-AGTTTG-T-T-TTGA-TATGCTCTACTG
1 ACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTTGCTATCTTCAGTATGCTCCACTG
67248837 CAACTTCAGAGAGATAAGATCTGTGATTTATA
65 CAACTTCAGAGAGATAAGATCTGTGATTTATA
** * *
67248869 ACTTCAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
1 ACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTATGCTCCACTGC
67248934 AACTTCAGAGAGATAAGA
66 AACTTCAGAGAGATAAGA
67248952 CTTGTAACTT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 35 0.50
93 2 0.03
94 1 0.01
95 3 0.04
96 29 0.41
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (96 bp):
ACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTATGCTCCACTGC
AACTTCAGAGAGATAAGATCTGTGATTTATA
Found at i:67248930 original size:45 final size:44
Alignment explanation
Indices: 67248867--67248984 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 44
67248857 CTGTGATTTA
* ** * * *
67248867 TAACTTCAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTG
1 TAACTTCAATCTACTCCACTGCAACTTCAGAGAAATAAGACTTG
* * * *
67248911 CTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTG
1 -TAACTTCAATCTACTCCACTGCAACTTCAGAGAAATAAGACTTG
* *
67248956 TAACTTCAATCTACTCCGCTGAAACTTCA
1 TAACTTCAATCTACTCCACTGCAACTTCA
67248985 AGGAGATCTA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 24 0.40
45 36 0.60
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TAACTTCAATCTACTCCACTGCAACTTCAGAGAAATAAGACTTG
Found at i:67249057 original size:47 final size:47
Alignment explanation
Indices: 67248987--67249091 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
67248977 AAACTTCAAG
* *
67248987 GAGATCTACTGTGGCTTCGAACCGCTCCAATGCCATTTCAGGGAGAA
1 GAGATCTGCTGTGGCTTCGAACCGCTCCAACGCCATTTCAGGGAGAA
*
67249034 GAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAA
1 GAGATCTGCTGTGGCTTCGAACCGCTCCAACGCCATTTCAGGGAGAA
*
67249081 GAGATCCGCTG
1 GAGATCTGCTG
67249092 AAACTTCAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGATCTGCTGTGGCTTCGAACCGCTCCAACGCCATTTCAGGGAGAA
Found at i:67249143 original size:68 final size:68
Alignment explanation
Indices: 67249032--67249289 Score: 356
Period size: 68 Copynumber: 3.8 Consensus size: 68
67249022 TTTCAGGGAG
67249032 AAGAGATCTGCTGTGGCTTCTAA-CCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAAC
1 AAGAGATCTGCTGTGGCTTC-AAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAAC
67249096 TTCA
65 TTCA
* * * *
67249100 AGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAAAGATCCGCTAAAAAT
1 AAGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
67249165 TCA
66 TCA
** * * * * *
67249168 AAGAGATCTATTGTGGCTTCTAGCCGTTCCAACGCTATTTCAGAGAGAAGAGATCTGCTGAAACT
1 AAGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
67249233 TCA
66 TCA
* * * * *
67249236 AAGAGATCTGTTGTGGCTTCTAGCCACTCCAACGCCATTTTATGGAGAAGAGAT
1 AAGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
67249290 TTGTAATTCC
Statistics
Matches: 167, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 2 0.01
68 165 0.99
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (68 bp):
AAGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
TCA
Found at i:67249409 original size:86 final size:86
Alignment explanation
Indices: 67249305--67249724 Score: 554
Period size: 86 Copynumber: 4.9 Consensus size: 86
67249295 ATTCCCAGCT
* * * * *
67249305 TGTTACCCTATTGCTTAGGGGGTTAAGGCTTACCGTATTTGATCTACTCCACTATTGCTTAGGGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
67249370 GACAAGATCTGTAATTCGGCC
66 GACAAGATCTGTAATTCGGCC
* * *
67249391 TATTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCTACAACTGCTTAGGGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
*
67249456 GACAAGATCTGTAATTCGACC
66 GACAAGATCTGTAATTCGGCC
** * * * *
67249477 TGTTACCCTACTGCTTAAAGGGTTAAGGCTCACTGTCTTCGATCTGCTTCACTACTACTTAGGGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
* *
67249542 GATAAGATCTATAATTCGGCC
66 GACAAGATCTGTAATTCGGCC
* * *
67249563 TGTTACCCTACTGTTTAGGGGGTTAAGGCTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
*
67249628 GACAAGATCTGTAATTCGGCT
66 GACAAGATCTGTAATTCGGCC
* * * * * * * *
67249649 TGTTTCCCTACT-TTTAAAGGGGTTAAAGCTCACCGTATTCGGTCTGCTCCACTATTGCTTAGGG
1 TGTTACCCTACTGCTT-AGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGG
*
67249713 AGTCAAGATCTG
65 AGACAAGATCTG
67249725 CGAATTCACC
Statistics
Matches: 290, Mismatches: 43, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
85 3 0.01
86 287 0.99
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (86 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
GACAAGATCTGTAATTCGGCC
Found at i:67254701 original size:93 final size:93
Alignment explanation
Indices: 67254593--67254763 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
67254583 GCCCCTAAGT
* * *
67254593 GAACTCTGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67254658 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
67254686 GAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67254751 CGAGTTCGGATGC
66 CGAGTTCGGATGC
67254764 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:67254760 original size:46 final size:46
Alignment explanation
Indices: 67254588--67254760 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
67254578 AACCCGCCCC
* * * *
67254588 TAAGTGAACTCTGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
67254634 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
67254682 TCA-CGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
67254727 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67254761 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:67261735 original size:137 final size:137
Alignment explanation
Indices: 67261489--67261775 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
67261479 CATTGGGCCT
** *
67261489 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
67261554 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
67261619 CATATGC
131 CATATGC
67261626 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
67261691 AGCCCCTTATTCAGATAATAGTATGGCCCATTGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
67261756 CATATGC
131 CATATGC
67261763 AAGCCCATTTGGG
1 AAGCCCATTTGGG
67261776 AGACTACTCA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:67263583 original size:26 final size:25
Alignment explanation
Indices: 67263526--67263607 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 25
67263516 CATGAAATTC
*
67263526 TTATCATGAACATTTACCT-AGCCA
1 TTATCATGAACATTTACCTAACCCA
*
67263550 TCATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
*
67263576 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
67263602 TTATCA
1 TTATCA
67263608 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.14
25 11 0.22
26 32 0.63
27 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:67265751 original size:25 final size:25
Alignment explanation
Indices: 67265723--67265773 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
67265713 TATTTCATAT
* *
67265723 TATACTATTTATTTTGAATTATTTA
1 TATACTATTTATTTTAAACTATTTA
* *
67265748 TATATTTTTTATTTTAAACTATTTA
1 TATACTATTTATTTTAAACTATTTA
67265773 T
1 T
67265774 TATTATTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TATACTATTTATTTTAAACTATTTA
Found at i:67265779 original size:35 final size:35
Alignment explanation
Indices: 67265680--67265796 Score: 92
Period size: 44 Copynumber: 3.0 Consensus size: 35
67265670 GTATTATGTA
*
67265680 TTTAAACTATTATATT-TTATTTTACATATTTTTTAT
1 TTTAAACTATT-TATTATTA-TTTATATATTTTTTAT
67265716 TTCATATTATACTATTTATTTTGAATTATTTATATATTTTTTAT
1 TT--TA--A-ACTATTTA--TT--ATTATTTATATATTTTTTAT
* *
67265760 TTTAAACTATTTATTATTATTCATTTATTTCTTTAT
1 TTTAAACTATTTATTATTATTTATATATTT-TTTAT
67265796 T
1 T
67265797 AGTATTAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
35 13 0.19
36 8 0.12
37 2 0.03
38 2 0.03
39 8 0.12
40 4 0.06
41 6 0.09
42 4 0.06
44 17 0.25
45 3 0.04
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (35 bp):
TTTAAACTATTTATTATTATTTATATATTTTTTAT
Found at i:67265994 original size:27 final size:26
Alignment explanation
Indices: 67265940--67266051 Score: 81
Period size: 26 Copynumber: 4.3 Consensus size: 26
67265930 TCTTAACTTC
*
67265940 TTTTTATATGGATTATTTATTT---TCA
1 TTTTTATAT--ATTATTTATTTAAATTA
*
67265965 TTTTTATATATTGTTTATCTTAAATTA
1 TTTTTATATATTATTTAT-TTAAATTA
* *
67265992 -TTTTATACATTATTTATTCTATATT-
1 TTTTTATATATTATTTATT-TAAATTA
* *
67266017 TTTTATATATATTATTTATATTAAACTG
1 TTTT-TATATATTATTTAT-TTAAATTA
67266045 TTTTTAT
1 TTTTTAT
67266052 TTCATGTATA
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
23 8 0.11
24 2 0.03
25 10 0.14
26 23 0.33
27 22 0.31
28 5 0.07
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTTATATATTATTTATTTAAATTA
Found at i:67266029 original size:13 final size:13
Alignment explanation
Indices: 67265964--67266037 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 13
67265954 ATTTATTTTC
*
67265964 ATTTTTATATATT
1 ATTTATATATATT
* * *
67265977 GTTTATCTTAAATT
1 ATTTAT-ATATATT
*
67265991 ATTT-TATACATT
1 ATTTATATATATT
*
67266003 ATTTATTCTATATT
1 ATTTA-TATATATT
*
67266017 TTTTATATATATT
1 ATTTATATATATT
67266030 ATTTATAT
1 ATTTATAT
67266038 TAAACTGTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 9 0.20
13 19 0.41
14 18 0.39
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:67279678 original size:92 final size:93
Alignment explanation
Indices: 67279511--67279680 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
67279501 CGCCCCTAAT
* * *
67279511 GAACTCTGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67279576 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
67279604 GAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67279668 CGAGTTCGGATGC
66 CGAGTTCGGATGC
67279681 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 35 0.49
93 37 0.51
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:67286510 original size:136 final size:136
Alignment explanation
Indices: 67286303--67286587 Score: 500
Period size: 136 Copynumber: 2.1 Consensus size: 136
67286293 CATTGGGCCT
** *
67286303 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
67286368 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTC-AAATACATGCAACATCAGTAAA
67286433 CATATGC
130 CATATGC
67286440 AAGCCCATTTGGGTAACAGTGGTACT-GGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
67286504 AGCCCCTTATTCAGATAATAGTATGGCCCATTGGCCCATTTCAAATACATGCAACATCAGTAAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAATACATGCAACATCAGTAAAC
67286569 ATATGC
131 ATATGC
67286575 AAGCCCATTTGGG
1 AAGCCCATTTGGG
67286588 GAGACTACTC
Statistics
Matches: 142, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
135 41 0.29
136 77 0.54
137 24 0.17
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:67288445 original size:26 final size:26
Alignment explanation
Indices: 67288365--67288448 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
67288355 CATGAAATTC
*
67288365 TTATCATGAAACATTTACCTAGCCCA
1 TTATCATGAAACATTTACCTAACCCA
*
67288391 TCATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
67288417 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
67288443 TTATCA
1 TTATCA
67288449 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:67290528 original size:22 final size:21
Alignment explanation
Indices: 67290469--67290544 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
67290459 GTTTGATTTA
67290469 TTTAT-TTATTTATTTAAACT
1 TTTATATTATTTATTTAAACT
* * **
67290489 ATTATTATTATTCATTTAAGTT
1 TTTA-TATTATTTATTTAAACT
67290511 TTTATATTATTTATTTTAAATCAT
1 TTTATATTATTTA-TTTAAA-C-T
67290535 TTTATCATTA
1 TTTAT-ATTA
67290545 CTCTTTTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
20 3 0.07
21 9 0.21
22 20 0.48
24 6 0.14
25 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (21 bp):
TTTATATTATTTATTTAAACT
Found at i:67290663 original size:27 final size:25
Alignment explanation
Indices: 67290597--67290788 Score: 104
Period size: 26 Copynumber: 7.5 Consensus size: 25
67290587 AATATTTTAC
* *
67290597 ATATATTATTTATTTCAAACTA-TT
1 ATATATTATTTATTTTAAATTATTT
** *
67290621 ATACCTCATTTATTTTGAAATTATTT
1 ATATATTATTTATTTT-AAATTATTT
* *
67290647 ATATATCTTTTTATTTTAAACTATTAT
1 ATATAT-TATTTATTTTAAATTATT-T
* *
67290674 ATATATTATTCATTTTAAATTTCTTT
1 ATATATTATTTATTTTAAA-TTATTT
* * *
67290700 ATATAGTATTAATTTCAAACTGT-TTT
1 ATATATTATTTATTTTAAA-T-TATTT
* * *
67290726 A-ATA-CATATTATTCTGAATTATTTT
1 ATATATTAT-TTATTTTAAATTA-TTT
* * *
67290751 ATATATTAATTATTTTACATTACTT
1 ATATATTATTTATTTTAAATTATTT
*
67290776 ATTTATTAATTTA
1 ATATATT-ATTTA
67290789 AACTCTTTTA
Statistics
Matches: 125, Mismatches: 31, Indels: 22
0.70 0.17 0.12
Matches are distributed among these distances:
23 1 0.01
24 15 0.12
25 26 0.21
26 63 0.50
27 20 0.16
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATATTATTTATTTTAAATTATTT
Found at i:67290928 original size:26 final size:25
Alignment explanation
Indices: 67290870--67290929 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
67290860 TTTTATATGG
* *
67290870 ATTATTTATTTTCAAATTTTTATAT
1 ATTATTTATCTTCAAATTTTTATAC
*
67290895 ATTGTTTATCTT-AAATTATTTTATAC
1 ATTATTTATCTTCAAA-T-TTTTATAC
67290921 ATTATTTAT
1 ATTATTTAT
67290930 TCTATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 11 0.38
26 15 0.52
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTATTTATCTTCAAATTTTTATAC
Found at i:67290942 original size:26 final size:26
Alignment explanation
Indices: 67290886--67290960 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
67290876 TATTTTCAAA
* *
67290886 TTTTTATATATTGTTTA-TCTTAAATT
1 TTTTTATATATTATTTATTC-TATATT
* *
67290912 ATTTTATACATTATTTATTCTATATT
1 TTTTTATATATTATTTATTCTATATT
67290938 TTTTTATATA-TA-TTATT-TATATT
1 TTTTTATATATTATTTATTCTATATT
67290961 AAACTGTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 6 0.14
24 5 0.12
25 2 0.05
26 27 0.64
27 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTTATATATTATTTATTCTATATT
Found at i:67296286 original size:23 final size:23
Alignment explanation
Indices: 67296255--67296298 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67296245 ATTCTGTACA
*
67296255 TGGGTTAGGATTATTGGGTTATT
1 TGGGCTAGGATTATTGGGTTATT
*
67296278 TGGGCTAGGTTTATTGGGTTA
1 TGGGCTAGGATTATTGGGTTA
67296299 AGGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.45
Consensus pattern (23 bp):
TGGGCTAGGATTATTGGGTTATT
Found at i:67296819 original size:25 final size:25
Alignment explanation
Indices: 67296785--67296835 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
67296775 AAGTTATAAC
67296785 CATTTTTTATAATAAATAAATTAAG
1 CATTTTTTATAATAAATAAATTAAG
**
67296810 CATTTTTTATAATATGTAAATTAAG
1 CATTTTTTATAATAAATAAATTAAG
67296835 C
1 C
67296836 CAAAAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (25 bp):
CATTTTTTATAATAAATAAATTAAG
Found at i:67299288 original size:3 final size:3
Alignment explanation
Indices: 67299282--67299500 Score: 133
Period size: 3 Copynumber: 72.7 Consensus size: 3
67299272 AATGAGAACG
* * * **
67299282 ATA ATA ATA ATA TTA ATA ATA ATA ATA GTA AAA ATA ATA ATA ATA CCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
67299330 ATG ACA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
67299378 ATG ATA ATA GTA ATA GAAA ATA AAA ATA A-A ATA AT- ATA GTG ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
67299422 GTA ATA A-A AGTA A-A AGTA ATA GTA ATA ATA ATG GTA ATA ATAA ATA
1 ATA ATA ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* *
67299468 GTA ATA ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA AT
67299501 CTAAAGTTGG
Statistics
Matches: 158, Mismatches: 47, Indels: 22
0.70 0.21 0.10
Matches are distributed among these distances:
2 9 0.06
3 136 0.86
4 13 0.08
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:67299422 original size:29 final size:29
Alignment explanation
Indices: 67299384--67299451 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
67299374 AATAATGATA
67299384 ATAGTAATAGAAAATAAAAATAAAA-TAAT
1 ATAGTAATAG-AAATAAAAATAAAAGTAAT
* * *
67299413 ATAGTGATAGTAATAAAAGTAAAAGTAAT
1 ATAGTAATAGAAATAAAAATAAAAGTAAT
*
67299442 AGTAATAATA
1 A-TAGTAATA
67299452 ATGGTAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 12 0.38
29 14 0.44
30 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (29 bp):
ATAGTAATAGAAATAAAAATAAAAGTAAT
Found at i:67299659 original size:3 final size:3
Alignment explanation
Indices: 67299651--67299964 Score: 94
Period size: 3 Copynumber: 105.0 Consensus size: 3
67299641 AAATACAAAA
* * **
67299651 AAT AAT AAT AAT AAT AAT -AT AGT AAT AAT AAT -AT ATT AAAT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * ** * * *
67299695 AA- AAA AAT AGT AAC AAT AAT TTT AA- AAA AAT GAT AAT AGT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
67299740 AAT AA- GAT TAT AAT AAT AAT ATT AAT AAA AAT AAG AAT AAA AAG GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
67299787 AGT AAT AAT AGT AAT AAT AAT AGT AAT AGT AA- AAT GAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
** * ** ** * *
67299832 AGC AAT AAT AAG AGC GTT AAT GAT AGT AAT AAT -AT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * *
67299877 -AT ATAT GTAT GAA- AAT AAT AAT AAT AGA- AGT AGT ACT AAT TAT AATT
1 AAT A-AT -AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T
*
67299924 AAT AGT AAT AAT AAAT GACA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT -A-AT AAT AAT AAT AAT AAT AAT AAT
67299965 TAATTTGAAA
Statistics
Matches: 220, Mismatches: 70, Indels: 42
0.66 0.21 0.13
Matches are distributed among these distances:
2 20 0.09
3 178 0.81
4 21 0.10
5 1 0.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:67299678 original size:14 final size:13
Alignment explanation
Indices: 67299651--67299686 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
67299641 AAATACAAAA
67299651 AATAATA-ATAAT
1 AATAATATATAAT
67299663 AATAATATAGTAAT
1 AATAATATA-TAAT
67299677 AATAATATAT
1 AATAATATAT
67299687 TAAATGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 2 0.09
14 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
AATAATATATAAT
Found at i:67301519 original size:44 final size:43
Alignment explanation
Indices: 67301383--67301528 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 43
67301373 TATTTATAGT
* * * * * *
67301383 TTCAATCTGTTCCACTGCAACGTCATGGAAATAAGATTTGCTATC
1 TTCAAT-TGCTCCACTGCAACTTCAAGGAGATAAGACTTG-TAAC
* * * * *
67301428 TTTAGTCTGCTCCACTGCAAGTTTAGGGAGATAAGACTTGTAAC
1 TTCAAT-TGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAAC
* * **
67301472 TTCAACTTGCTCCATTGCAACTTCAAGGAGATAAGGCTTGTGGC
1 TTCAA-TTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAAC
*
67301516 TTCAATCGCTCCA
1 TTCAATTGCTCCA
67301529 ATGCCATTTC
Statistics
Matches: 80, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 7 0.09
44 41 0.51
45 32 0.40
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
TTCAATTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAAC
Found at i:67301545 original size:43 final size:44
Alignment explanation
Indices: 67301436--67301545 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
67301426 TCTTTAGTCT
* * * *
67301436 GCTCCACTGCAAGTTTAGGGAGATAAGACTTGTAACTTCAACTT
1 GCTCCAATGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTC
* * * **
67301480 GCTCCATTGCAACTTCAAGGAGATAAGGCTTGTGGCTTCAA-TC
1 GCTCCAATGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTC
* *
67301523 GCTCCAATGCCATTTCAGGGAGA
1 GCTCCAATGCAACTTCAGGGAGA
67301546 AGAGATTTGT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 20 0.37
44 34 0.63
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
GCTCCAATGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTC
Found at i:67301647 original size:88 final size:88
Alignment explanation
Indices: 67301524--67301767 Score: 335
Period size: 88 Copynumber: 2.8 Consensus size: 88
67301514 GCTTCAATCG
* * * * *
67301524 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCTGCTGAGACTTCAAGGAG
1 CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
67301589 ATACAAAATGTGGCTTCGAGCCT
66 ATACAAAATGTGGCTTCGAGCCT
* * * **
67301612 CTCCAGTGTCATATCAAGGAGAAGATATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGTT
1 CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
* *
67301677 ATACGAATTGTGGCTTCGAGCCT
66 ATACAAAATGTGGCTTCGAGCCT
* * ** *
67301700 CTCCAGTGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCATTGGAACTTCAAGGAG
1 CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
67301765 ATA
66 ATA
67301768 GGGTTTGTTT
Statistics
Matches: 134, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 134 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (88 bp):
CTCCAGTGCCATATCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
ATACAAAATGTGGCTTCGAGCCT
Found at i:67301649 original size:44 final size:42
Alignment explanation
Indices: 67301601--67301736 Score: 98
Period size: 44 Copynumber: 3.1 Consensus size: 42
67301591 ACAAAATGTG
*
67301601 GCTTCGAGCCTCTCCAGTGTCATATCAAGGAGAAGATATTTGTA
1 GCTTCGAGCCTCTCCAGTGACAT-TCAAGGAGAAGA-ATTTGTA
* * * * *
67301645 GCTTCGA-TCTACTCC-GCTGAAACTTCAAGGTTATACGAA-TTGTG
1 GCTTCGAGCCT-CTCCAG-TGACA-TTCAAGG--AGAAGAATTTGTA
* *
67301689 GCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCTCTCCAGTGACA-TTCAAGGAGAAGA-ATTTGTA
67301733 GCTT
1 GCTT
67301737 TGATCTACTC
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
42 4 0.06
43 4 0.06
44 52 0.75
45 5 0.07
46 4 0.06
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (42 bp):
GCTTCGAGCCTCTCCAGTGACATTCAAGGAGAAGAATTTGTA
Found at i:67301797 original size:40 final size:40
Alignment explanation
Indices: 67301735--67301816 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
67301725 GATTTGTAGC
* * * *
67301735 TTTGATCTACTCCATTGGAACTTCA-AGGAGATAGGGTTTG
1 TTTGATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTG
*
67301775 TTTGATCTACTCTACTGCAACTTCAGAGAGATAAGATTTG
1 TTTGATCTACTCCACTGCAACTTCAGAGAGATAAGATTTG
67301815 TT
1 TT
67301817 ATTTTTAGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (40 bp):
TTTGATCTACTCCACTGCAACTTCAGAGAGATAAGATTTG
Found at i:67301974 original size:92 final size:96
Alignment explanation
Indices: 67301862--67302036 Score: 234
Period size: 92 Copynumber: 1.9 Consensus size: 96
67301852 AAGACTAGTG
** * *
67301862 ACTTCAACCTGTTCCACTGCAACTTCAGGGAGGTAA-AGTTTG-T-T-TTGA-TATGCTCTACTG
1 ACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTTGCTATCTTCAGTATGCTCCACTG
67301922 CAACTTCAGAGAGATAAGATCTGTGATTTATA
65 CAACTTCAGAGAGATAAGATCTGTGATTTATA
** * *
67301954 ACTTCAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
1 ACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTATGCTCCACTGC
67302019 AACTTCAGAGAGATAAGA
66 AACTTCAGAGAGATAAGA
67302037 CTTGTAACTT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 35 0.50
93 2 0.03
94 1 0.01
95 3 0.04
96 29 0.41
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (96 bp):
ACTTCAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTATGCTCCACTGC
AACTTCAGAGAGATAAGATCTGTGATTTATA
Found at i:67302015 original size:45 final size:44
Alignment explanation
Indices: 67301952--67302069 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 44
67301942 CTGTGATTTA
* ** * * *
67301952 TAACTTCAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTG
1 TAACTTCAATCTACTCCACTGCAACTTCAGAGAAATAAGACTTG
* * * *
67301996 CTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTG
1 -TAACTTCAATCTACTCCACTGCAACTTCAGAGAAATAAGACTTG
* *
67302041 TAACTTCAATCTACTCCGCTGAAACTTCA
1 TAACTTCAATCTACTCCACTGCAACTTCA
67302070 AGGAGATCTA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 24 0.40
45 36 0.60
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
TAACTTCAATCTACTCCACTGCAACTTCAGAGAAATAAGACTTG
Found at i:67302142 original size:47 final size:47
Alignment explanation
Indices: 67302072--67302176 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
67302062 AAACTTCAAG
* *
67302072 GAGATCTACTGTGGCTTCGAACCGCTCCAATGCCATTTCAGGGAGAA
1 GAGATCTGCTGTGGCTTCGAACCGCTCCAACGCCATTTCAGGGAGAA
*
67302119 GAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAA
1 GAGATCTGCTGTGGCTTCGAACCGCTCCAACGCCATTTCAGGGAGAA
*
67302166 GAGATCCGCTG
1 GAGATCTGCTG
67302177 AAACTTCAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGATCTGCTGTGGCTTCGAACCGCTCCAACGCCATTTCAGGGAGAA
Found at i:67302272 original size:135 final size:135
Alignment explanation
Indices: 67302117--67302373 Score: 388
Period size: 135 Copynumber: 1.9 Consensus size: 135
67302107 TTTCAGGGAG
* *
67302117 AAGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
1 AAGAGATCTACTGTGGCTTCTAACCGCTCCAACGCCATTTCAGAGAGAAGAGATCCGCTGAAACT
* *
67302182 TCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAAAGATCCGCTAAA
66 TCAAAGAGATCTGCTGTGGCTTCAAGCCACTCCAACGCCATTTCAGGGAGAAAAGATCCGCTAAA
67302247 ATTCA
131 ATTCA
* * * * *
67302252 AAGAGATCTATTGTGGCTTCTAGCCGTTCCAACGCTATTTCAGAGAGAAGAGATCTGCTGAAACT
1 AAGAGATCTACTGTGGCTTCTAACCGCTCCAACGCCATTTCAGAGAGAAGAGATCCGCTGAAACT
* * * * *
67302317 TCAAAGAGATCTGTTGTGGCTTCTAGCCACTCCAACGCCATTTTATGGAGAAGAGAT
66 TCAAAGAGATCTGCTGTGGCTTCAAGCCACTCCAACGCCATTTCAGGGAGAAAAGAT
67302374 TTGTAATTCC
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 108 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (135 bp):
AAGAGATCTACTGTGGCTTCTAACCGCTCCAACGCCATTTCAGAGAGAAGAGATCCGCTGAAACT
TCAAAGAGATCTGCTGTGGCTTCAAGCCACTCCAACGCCATTTCAGGGAGAAAAGATCCGCTAAA
ATTCA
Found at i:67302292 original size:67 final size:68
Alignment explanation
Indices: 67302117--67302373 Score: 372
Period size: 68 Copynumber: 3.8 Consensus size: 68
67302107 TTTCAGGGAG
*
67302117 AAGAGATCTGCTGTGGCTTCTAACCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
1 AAGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
67302182 TCA
66 TCA
* * * *
67302185 AGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAAAGATCCGCT-AAAAT
1 AAGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
67302249 TCA
66 TCA
** * * * *
67302252 AAGAGATCTATTGTGGCTTCTAGCCGTTCCAACGCTATTTCAGAGAGAAGAGATCTGCTGAAACT
1 AAGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
67302317 TCA
66 TCA
* * * *
67302320 AAGAGATCTGTTGTGGCTTCTAGCCACTCCAACGCCATTTTATGGAGAAGAGAT
1 AAGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
67302374 TTGTAATTCC
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 57 0.34
68 109 0.66
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (68 bp):
AAGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCCGCTGAAACT
TCA
Found at i:67302493 original size:86 final size:86
Alignment explanation
Indices: 67302389--67302806 Score: 543
Period size: 86 Copynumber: 4.9 Consensus size: 86
67302379 ATTCCCAGCT
* * * * * *
67302389 TGTTACCCTATTGCTTAGGGGGTTAAGGCTTACCGTATTTGATCTACTCCACTATTGCTTAGGGA
1 TGTTACCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
67302454 GACAAGATCTGTAATTCGGCC
66 GACAAGATCTGTAATTCGGCC
* * *
67302475 TATTACCCTACTGCTT-AGGGGTTAAGGCTCACCGTCTTTGATCTGCTCTACAACTGCTTAGGGA
1 TGTTACCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
*
67302539 GACAAGATCTGTAATTCGACC
66 GACAAGATCTGTAATTCGGCC
* * * * *
67302560 TGTTACCCTACTGCTTAAAGGGTTAAGGCTCACTGTCTTCGATCTGCTTCACTACTACTTAGGGA
1 TGTTACCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
* *
67302625 GATAAGATCTATAATTCGGCC
66 GACAAGATCTGTAATTCGGCC
* * * *
67302646 TGTTACCCTACTGTTTAGGGGGTTAAGGCTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGA
1 TGTTACCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
*
67302711 GACAAGATCTGTAATTCGGCT
66 GACAAGATCTGTAATTCGGCC
* * * * * * *
67302732 TGTTTCCCTACT-TTTAAAGGGGTTAAAGCTCACCGTATTCGGTCTGCTCCACTATTGCTTAGGG
1 TGTTACCCTACTGCTT-AAGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGG
*
67302796 AGTCAAGATCT
65 AGACAAGATCT
67302807 ACGAATTCAC
Statistics
Matches: 287, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
85 79 0.28
86 208 0.72
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (86 bp):
TGTTACCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGA
GACAAGATCTGTAATTCGGCC
Found at i:67307781 original size:93 final size:93
Alignment explanation
Indices: 67307673--67307843 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
67307663 GCCCCTAAGT
* * *
67307673 GAACTCTGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67307738 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
67307766 GAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67307831 CGAGTTCGGATGC
66 CGAGTTCGGATGC
67307844 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:67307840 original size:46 final size:46
Alignment explanation
Indices: 67307668--67307840 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
67307658 AACCCGCCCC
* * * *
67307668 TAAGTGAACTCTGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
67307714 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
67307762 TCA-CGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
67307807 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67307841 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:67310279 original size:30 final size:30
Alignment explanation
Indices: 67310235--67310323 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
67310225 CAAAGATAAC
67310235 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
67310264 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
67310294 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
67310324 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:67310283 original size:15 final size:15
Alignment explanation
Indices: 67310235--67310314 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
67310225 CAAAGATAAC
*
67310235 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
67310249 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
67310264 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
67310279 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
67310294 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
67310309 AAGAAA
1 AAGAAA
67310315 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:67310323 original size:15 final size:15
Alignment explanation
Indices: 67310246--67310323 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
67310236 AGAAAACCGA
67310246 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
67310261 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
67310275 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
67310290 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
67310306 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
67310321 ATA
1 ATA
67310324 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:67311346 original size:47 final size:47
Alignment explanation
Indices: 67311284--67311409 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
67311274 CTTTACATAA
* * * *
67311284 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
67311331 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* * *
67311378 CGATGCCATATCCTAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
67311410 AAATCACTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 66 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:67311425 original size:7 final size:7
Alignment explanation
Indices: 67311413--67311441 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
67311403 TATACAGAAA
67311413 TCACTTG
1 TCACTTG
67311420 TCACTTG
1 TCACTTG
67311427 TCACTTG
1 TCACTTG
67311434 TCACTTG
1 TCACTTG
67311441 T
1 T
67311442 AGCTGAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:67311577 original size:50 final size:50
Alignment explanation
Indices: 67311471--67311647 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
67311461 GACTGATCAG
* * * *
67311471 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
67311522 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
67311572 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
67311622 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
67311648 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:67313899 original size:93 final size:93
Alignment explanation
Indices: 67313792--67313962 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
67313782 ACCCCTAAGT
* *
67313792 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
67313857 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
67313885 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
67313950 TGAGTTCGGATGC
66 CGAGTTCGGATGC
67313963 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:67313959 original size:46 final size:46
Alignment explanation
Indices: 67313787--67313959 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
67313777 AACCCACCCC
* * *
67313787 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
67313833 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
67313881 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
67313926 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67313960 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Done.