Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 301 of 425
Found at i:93615984 original size:3 final size:3
Alignment explanation
Indices: 93615978--93616024 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
93615968 TTTTTCTCTT
93615978 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
93616025 TACTATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:93616262 original size:2 final size:2
Alignment explanation
Indices: 93616255--93616280 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93616245 TTTCACATTA
93616255 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
93616281 CAATGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93616414 original size:21 final size:22
Alignment explanation
Indices: 93616388--93616432 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
93616378 GGTACTTTTG
93616388 GATTTAGGGTTTAT-GGTTTAA
1 GATTTAGGGTTTATAGGTTTAA
*
93616409 GATTTAGGGTTTATAGTTTTAA
1 GATTTAGGGTTTATAGGTTTAA
93616431 GA
1 GA
93616433 CGTTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (22 bp):
GATTTAGGGTTTATAGGTTTAA
Found at i:93616597 original size:21 final size:21
Alignment explanation
Indices: 93616545--93616597 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
93616535 GGTTTTATGG
**
93616545 TTTAGGATCCAAGGTTTAATA
1 TTTAGGATTTAAGGTTTAATA
*
93616566 TTTAGGGTTTAAGGTTT-ATA
1 TTTAGGATTTAAGGTTTAATA
*
93616586 TTATATGATTTA
1 TT-TAGGATTTA
93616598 CGACCATAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (21 bp):
TTTAGGATTTAAGGTTTAATA
Found at i:93616654 original size:7 final size:7
Alignment explanation
Indices: 93616642--93616673 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
93616632 TATTGATTTA
93616642 AGGGGTT
1 AGGGGTT
93616649 AGGGGTT
1 AGGGGTT
93616656 AGGGGTT
1 AGGGGTT
93616663 AGGGGTT
1 AGGGGTT
93616670 AGGG
1 AGGG
93616674 TTTACCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.59, T:0.25
Consensus pattern (7 bp):
AGGGGTT
Found at i:93617462 original size:155 final size:155
Alignment explanation
Indices: 93617242--93617522 Score: 388
Period size: 155 Copynumber: 1.8 Consensus size: 155
93617232 TTTCTGAGGA
* * * *
93617242 AGCGCCGCTAATGCCATTGAAGCTGAAAATAAACGACGACGTTCCGTTTAATCTTTTAGCGGCAT
1 AGCGCCGCTAATGCCACTGAAGCTCAAAATAAACGACGACGTTCCGTTGAATCTTTTAGCAGCAT
* * * *
93617307 TTTTAGGAAAA-CGCCGCTATATATCGACCTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGTT
66 TTTTA-AAAAAGCGCCGCTATAGATCAACCTATAGCGGCGCTTCCTTAAAAACGCCGCTAATGTT
93617371 GGATCTATTGCGGCTTTTTTTTTGGT
130 GGATCTATTGCGGCTTTTTTTTTGGT
* *
93617397 AGCGCCGCTAATGCCACTGAAGCTCAGAAA-AAACGATGTCGTTCTC-TTGAATCTTTTAGCAGC
1 AGCGCCGCTAATGCCACTGAAGCTCA-AAATAAACGACGACGTTC-CGTTGAATCTTTTAGCAGC
* * * *
93617460 ATTTTTAAAAAAGCGCCGCTATAGGTCAATCTTTAGCGGCGCTTCCTTAAAAACGCCTCTAAT
64 ATTTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCGCTTCCTTAAAAACGCCGCTAAT
93617523 TCTCTATCTT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
154 4 0.04
155 101 0.93
156 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (155 bp):
AGCGCCGCTAATGCCACTGAAGCTCAAAATAAACGACGACGTTCCGTTGAATCTTTTAGCAGCAT
TTTTAAAAAAGCGCCGCTATAGATCAACCTATAGCGGCGCTTCCTTAAAAACGCCGCTAATGTTG
GATCTATTGCGGCTTTTTTTTTGGT
Found at i:93617554 original size:40 final size:40
Alignment explanation
Indices: 93617488--93617571 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
93617478 CTATAGGTCA
* * *
93617488 ATCTTTAGCGGCGCTTCCTTAAAAACGCCTCTAATTCTCT
1 ATCTTTAGCGGCGCTTCCTTAAAAACGCCGCTAATACTCG
* *
93617528 ATCTTTAGCGGCGCTT-TTCTAGAAACGCCGCTAATACTCG
1 ATCTTTAGCGGCGCTTCCT-TAAAAACGCCGCTAATACTCG
93617568 ATCT
1 ATCT
93617572 ATTCGATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (40 bp):
ATCTTTAGCGGCGCTTCCTTAAAAACGCCGCTAATACTCG
Found at i:93617853 original size:46 final size:49
Alignment explanation
Indices: 93617744--93617875 Score: 180
Period size: 46 Copynumber: 2.7 Consensus size: 49
93617734 TGCCAAATAA
* *
93617744 ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTG-CAATATATATATAT
*
93617794 ATAGCCGAAGCTATCTCGATCTCACACACTAAGTGC-A-A-ATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAATATATATATAT
* * *
93617840 ATAGTCGAAGCTATCTTGATTTCGCACACTAAGTGC
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGC
93617876 CCATAATTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 40 0.53
47 1 0.01
48 1 0.01
49 1 0.01
50 32 0.43
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (49 bp):
ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAATATATATATAT
Found at i:93621403 original size:40 final size:40
Alignment explanation
Indices: 93621339--93621580 Score: 280
Period size: 40 Copynumber: 6.1 Consensus size: 40
93621329 CGGATGATAA
*
93621339 CGAAGGCATTTGTGCTAGTGACTA-ATCCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATAT-CCGGGCTAAGTCC
* *
93621379 CGAAGGCATTTGTGCGAGTTACTA-ATCCGGACTAAGAT-C
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAG-TCC
*
93621418 CGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
* * *
93621458 CGAAGGCATTTTTGCTAGCGACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* * * *
93621498 CGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* ** *
93621538 CGAAGGC-CTTGTGCGAGTGGTTATATCC-GGCTAAATCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
93621576 CGAAG
1 CGAAG
93621581 ATACTTGGGT
Statistics
Matches: 175, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
38 13 0.07
39 47 0.27
40 115 0.66
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:93621525 original size:80 final size:79
Alignment explanation
Indices: 93621339--93621554 Score: 278
Period size: 79 Copynumber: 2.7 Consensus size: 79
93621329 CGGATGATAA
* **
93621339 CGAAGGCATTTGTGCTAGTGACTA-ATCCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CGAAGGCATTTGTGCTAGTGACTATAT-CCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACTA
93621403 ATCCGGACTAAGATC
65 ATCCGGACTAAGATC
* * *
93621418 CGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGACTA
1 CGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACTA
*
93621482 TATCCGGGCTAAG-TCC
65 -ATCCGGACTAAGAT-C
* * *
93621498 CGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAG
1 CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
93621555 TGGTTATATC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
79 62 0.52
80 57 0.48
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGCGACTAA
TCCGGACTAAGATC
Found at i:93621550 original size:119 final size:118
Alignment explanation
Indices: 93621339--93621580 Score: 328
Period size: 119 Copynumber: 2.0 Consensus size: 118
93621329 CGGATGATAA
* * * *
93621339 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 CGAAGGCATTTGTGCTAGCGACTAATCCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACCAA
* * *
93621404 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGA-CC
66 TCCGGACTAAGACCCGAAGGCACTTGTGCGAGTGGCTATATCC-GGCTAA-ATCC
* *
93621458 CGAAGGCATTTTTGCTAGCGACTATAT-CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCA
1 CGAAGGCATTTGTGCTAGCGACTA-ATCCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACCA
* *
93621522 TATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATATCCGGCTAAATCC
65 -ATCCGGACTAAGACCCGAAGGCACTTGTGCGAGTGGCTATATCCGGCTAAATCC
93621576 CGAAG
1 CGAAG
93621581 ATACTTGGGT
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
117 1 0.01
118 13 0.12
119 73 0.67
120 22 0.20
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (118 bp):
CGAAGGCATTTGTGCTAGCGACTAATCCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACCAA
TCCGGACTAAGACCCGAAGGCACTTGTGCGAGTGGCTATATCCGGCTAAATCC
Found at i:93624256 original size:59 final size:58
Alignment explanation
Indices: 93624170--93624300 Score: 228
Period size: 59 Copynumber: 2.3 Consensus size: 58
93624160 AAAATTGTAC
93624170 AGCACTAAGTGTGC-AACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
93624227 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
93624286 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
93624301 GATTCACTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
57 14 0.20
58 8 0.11
59 48 0.69
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:93624289 original size:88 final size:88
Alignment explanation
Indices: 93624140--93624300 Score: 252
Period size: 88 Copynumber: 1.8 Consensus size: 88
93624130 GACAAGATTG
* * *
93624140 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCAACTGAAAATATATAGCACTA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAACTGAAAATATATAGCACTA
93624205 AGTGTGCGAACTGAAAATATATA
66 AGTGTGCGAACTGAAAATATATA
* * *
93624228 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGC-AACTGAAAATATATAGCACT
93624292 AAGTGTGCG
65 AAGTGTGCG
93624301 GATTCACTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 23 0.35
88 43 0.65
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (88 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAACTGAAAATATATAGCACTA
AGTGTGCGAACTGAAAATATATA
Found at i:93624312 original size:29 final size:29
Alignment explanation
Indices: 93624170--93624300 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
93624160 AAAATTGTAC
*
93624170 AGCACTAAGTGTGC-AACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
93624198 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
93624227 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
93624257 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
93624286 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
93624301 GATTCACTAT
Statistics
Matches: 100, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
28 14 0.14
29 57 0.57
30 29 0.29
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:93632115 original size:59 final size:58
Alignment explanation
Indices: 93632019--93632150 Score: 228
Period size: 59 Copynumber: 2.3 Consensus size: 58
93632009 AAAATTGTAC
*
93632019 AGCACTAAGTGTGCAAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
93632077 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
93632136 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
93632151 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 22 0.31
59 48 0.69
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:93632139 original size:88 final size:89
Alignment explanation
Indices: 93631989--93632150 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 89
93631979 GACAAGATTG
* * *
93631989 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCAAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAAACTGAAAATATATAGCACT
93632054 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * * *
93632078 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAAACTGAAAATATATAGCACT
93632142 AAGTGTGCG
66 AAGTGTGCG
93632151 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
88 51 0.77
89 15 0.23
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCAAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:93632162 original size:29 final size:29
Alignment explanation
Indices: 93632019--93632150 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
93632009 AAAATTGTAC
* *
93632019 AGCACTAAGTGTGCAAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
93632048 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
93632077 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
93632107 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
93632136 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
93632151 GATTCACTAT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 71 0.71
30 29 0.29
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:93632976 original size:16 final size:18
Alignment explanation
Indices: 93632943--93632977 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
93632933 AAATCACTAA
93632943 AAATAGTAGAAGTAAATT
1 AAATAGTAGAAGTAAATT
93632961 AAATAGT-GAA-TAAATT
1 AAATAGTAGAAGTAAATT
93632977 A
1 A
93632978 TGAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (18 bp):
AAATAGTAGAAGTAAATT
Found at i:93634762 original size:30 final size:30
Alignment explanation
Indices: 93634707--93634837 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
93634697 ATAGTGAATC
*
93634707 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
93634736 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
93634766 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
93634794 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
93634824 CGCACACTTAGTGC
1 CGCACACTTAGTGC
93634838 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:93634817 original size:58 final size:58
Alignment explanation
Indices: 93634706--93634837 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
93634696 TATAGTGAAT
* * * * *
93634706 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
93634765 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
93634823 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
93634838 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:93640673 original size:21 final size:22
Alignment explanation
Indices: 93640635--93640681 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
93640625 AAAAATTACA
* *
93640635 AAAAGAATTCAAAGTAATTTTC
1 AAAAGAATTAAAAATAATTTTC
*
93640657 AAAA-AATTAAAAATAATTTTT
1 AAAAGAATTAAAAATAATTTTC
93640678 AAAA
1 AAAA
93640682 TTTAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAAGAATTAAAAATAATTTTC
Found at i:93640683 original size:19 final size:19
Alignment explanation
Indices: 93640659--93640722 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
93640649 TAATTTTCAA
93640659 AAAATTAAAAATAATTTTT
1 AAAATTAAAAATAATTTTT
* *
93640678 AAAATTTAAAAT-ATTTATA
1 AAAATTAAAAATAATTT-TT
*
93640697 AAAATTCTAAAATTATATTTTT
1 AAAA-T-TAAAAATA-ATTTTT
93640719 AAAA
1 AAAA
93640723 AAATTCTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 4 0.11
19 16 0.46
20 1 0.03
21 5 0.14
22 5 0.14
23 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTAAAAATAATTTTT
Found at i:93642764 original size:29 final size:29
Alignment explanation
Indices: 93642722--93642781 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
93642712 GATGAATATG
93642722 TAAATTCTAGGGTTACTAAGGCCCTTTTA
1 TAAATTCTAGGGTTACTAAGGCCCTTTTA
93642751 TAAATTCTAGGGTTACTAAGGCCCTTTTA
1 TAAATTCTAGGGTTACTAAGGCCCTTTTA
93642780 TA
1 TA
93642782 GGCTGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (29 bp):
TAAATTCTAGGGTTACTAAGGCCCTTTTA
Found at i:93653503 original size:49 final size:49
Alignment explanation
Indices: 93653450--93653627 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 49
93653440 CTGGTACGCA
*
93653450 TAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
* ** ** * *
93653499 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACG
* * * * *
93653549 TAGTA-CCTAG-ACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTACGCA
1 TAGTAGCCT-GCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTACACG
*
93653599 CAGTAGCCTGCACTTAGTACTACACATGC
1 TAGTAGCCTGCACTTAGTACTACACATGC
93653628 GACCTCACAA
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
49 51 0.50
50 32 0.31
51 19 0.19
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
Found at i:93656003 original size:25 final size:25
Alignment explanation
Indices: 93655974--93656021 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93655964 TTATAATATG
* * *
93655974 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93655999 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
93656022 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93656090 original size:20 final size:20
Alignment explanation
Indices: 93656065--93656123 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
93656055 TAAATATGGT
93656065 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
93656085 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
93656105 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
93656124 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:93656204 original size:23 final size:24
Alignment explanation
Indices: 93656174--93656268 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
93656164 GAGGAAGTGA
93656174 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
93656197 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93656221 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
93656245 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
93656269 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:93656242 original size:47 final size:49
Alignment explanation
Indices: 93656175--93656268 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
93656165 AGGAAGTGAA
*
93656175 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
93656222 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
93656269 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:93656513 original size:31 final size:31
Alignment explanation
Indices: 93656478--93656593 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
93656468 AGTATTACGA
93656478 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
93656509 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
93656545 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
93656578 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
93656594 TATGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:93656518 original size:38 final size:38
Alignment explanation
Indices: 93656463--93656616 Score: 207
Period size: 38 Copynumber: 4.2 Consensus size: 38
93656453 TACAGTAAAG
*
93656463 GGCCCAGTATTACGAAATATGAAACATGAAAAGGCTTC
1 GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTC
*
93656501 GGCCCAG-----T--AATATGAAATATGAAAAGGCTTC
1 GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTC
93656532 GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTC
1 GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTC
*
93656570 GGCCCAGTATTATGAAATATGAAATATGAAAAGGGCTAT-
1 GGCCCAGTATTATGAAATATGAAACATGAAAA-GGCT-TC
93656609 GGCCCAGT
1 GGCCCAGT
93656617 GCATGATGAG
Statistics
Matches: 103, Mismatches: 4, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
31 29 0.28
36 1 0.01
38 60 0.58
39 12 0.12
40 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (38 bp):
GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTC
Found at i:93656541 original size:69 final size:69
Alignment explanation
Indices: 93656463--93656593 Score: 244
Period size: 69 Copynumber: 1.9 Consensus size: 69
93656453 TACAGTAAAG
93656463 GGCCCAGTATTACGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGG
1 GGCCCAGTATTACGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGG
93656528 CTTC
66 CTTC
* *
93656532 GGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAATATGAAA
1 GGCCCAGTATTACGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATGAAA
93656594 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (69 bp):
GGCCCAGTATTACGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGG
CTTC
Found at i:93660185 original size:15 final size:16
Alignment explanation
Indices: 93660162--93660195 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
93660152 AATAGAGAAG
93660162 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
93660178 CCAA-AATAAAGAAAT
1 CCAAGAATAAAGAAAT
93660193 CCA
1 CCA
93660196 TGATACCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:93660185 original size:30 final size:29
Alignment explanation
Indices: 93660133--93660190 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
93660123 TCCAAAAAAA
* *
93660133 CCAAGATAGAGAAATCAGAAATAGAGAAG
1 CCAAGATAAAGAAATCAGAAATAAAGAAG
93660162 CCAAGAATAAAGAAATCCA-AAATAAAGAA
1 CCAAG-ATAAAGAAAT-CAGAAATAAAGAA
93660191 ATCCATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 18 0.72
31 2 0.08
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (29 bp):
CCAAGATAAAGAAATCAGAAATAAAGAAG
Found at i:93662977 original size:81 final size:81
Alignment explanation
Indices: 93662851--93663276 Score: 423
Period size: 81 Copynumber: 5.3 Consensus size: 81
93662841 TACTGAAATG
* **** * *
93662851 CCCTCGACTTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTC-AGTT
1 CCCTCGATTTGTAAAATTACCGTTTTAC-CCTCGATTTATAAAATTACCGTTTTACCCTCGA-TT
*
93662914 TATAGAATTACTATTTTA
64 TACAGAATTACTATTTTA
* *
93662932 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTGTAAAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTA
* **
93662997 TAGAATTACCGTTTTA
66 CAGAATTACTATTTTA
* *
93663013 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTT
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGA-TTT
93663077 ACAGAATTACTATTTTA
65 ACAGAATTACTATTTTA
* * * * * *
93663094 CCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CGATTT
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTC-GATTTATAAAATTACCGTTTTACCCTCGATTT
* *
93663157 ACATAATTA-TCGTTTTA
65 ACAGAATTACT-ATTTTA
** * * * * * *
93663174 CCCTCGATTTACAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTA
* ***
93663239 CAAAATTACTAAAATA
66 CAGAATTACTATTTTA
* * *
93663255 CCCTTGGTTTGTGAAATTACCG
1 CCCTCGATTTGTAAAATTACCG
93663277 CAATACCCTC
Statistics
Matches: 292, Mismatches: 44, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 70 0.24
81 219 0.75
82 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTA
CAGAATTACTATTTTA
Found at i:93663248 original size:27 final size:27
Alignment explanation
Indices: 93662882--93663247 Score: 443
Period size: 27 Copynumber: 13.6 Consensus size: 27
93662872 AAAGTACTCC
93662882 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
93662909 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
93662936 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
93662963 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93662990 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
93663017 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
93663044 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
93663071 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
93663098 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
93663124 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
93663151 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93663178 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
93663205 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
93663232 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
93663248 TAAAATACCC
Statistics
Matches: 299, Mismatches: 34, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
26 25 0.08
27 272 0.91
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:93664512 original size:25 final size:25
Alignment explanation
Indices: 93664483--93664530 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93664473 TTATAATATG
* * *
93664483 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93664508 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
93664531 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93664618 original size:20 final size:20
Alignment explanation
Indices: 93664573--93664631 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
93664563 ATAAATATGG
93664573 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
93664593 -ATGTATGCTATGCACATGA
1 TATGTATGATATGCACATGA
93664612 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
93664632 GGTAATCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:93664709 original size:24 final size:24
Alignment explanation
Indices: 93664682--93664824 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
93664672 GAGGAAGTGA
93664682 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
93664706 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
93664730 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
93664753 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
93664777 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
93664801 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
93664825 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:93664775 original size:47 final size:47
Alignment explanation
Indices: 93664682--93664824 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
93664672 GAGGAAGTGA
93664682 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
93664730 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
93664777 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
93664825 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:93664798 original size:71 final size:72
Alignment explanation
Indices: 93664682--93664825 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
93664672 GAGGAAGTGA
*
93664682 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
93664745 CCAGTTAT
65 CCAGTTAT
** * *
93664753 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
93664818 CAGTTAT
66 CAGTTAT
93664825 A
1 A
93664826 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:93668219 original size:27 final size:27
Alignment explanation
Indices: 93667854--93668218 Score: 439
Period size: 27 Copynumber: 13.6 Consensus size: 27
93667844 AAAGTACTCC
*
93667854 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * **
93667881 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
93667908 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
93667935 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
93667962 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
93667989 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
93668016 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * **
93668043 -TAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
93668070 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
93668097 -AATTTACATAATTACCATTTTACCC-
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
93668122 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
93668149 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
93668176 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
93668203 CGATTTACAAAATTAC
1 CGATTTATAGAATTAC
93668219 TAAAATACCC
Statistics
Matches: 298, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
26 44 0.15
27 253 0.85
28 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:93669485 original size:25 final size:25
Alignment explanation
Indices: 93669457--93669504 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93669447 TTATAATATG
* * *
93669457 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93669482 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
93669505 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93669573 original size:20 final size:20
Alignment explanation
Indices: 93669548--93669606 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
93669538 TAAATATGGT
93669548 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
93669568 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
93669588 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
93669607 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:93669684 original size:24 final size:24
Alignment explanation
Indices: 93669657--93669799 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
93669647 GAGGAAGTGA
93669657 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
93669681 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
93669705 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
93669728 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
93669752 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
93669776 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
93669800 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:93669750 original size:47 final size:47
Alignment explanation
Indices: 93669657--93669799 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
93669647 GAGGAAGTGA
93669657 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
93669705 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
93669752 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
93669800 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:93669773 original size:71 final size:72
Alignment explanation
Indices: 93669657--93669800 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
93669647 GAGGAAGTGA
*
93669657 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
93669720 CCAGTTAT
65 CCAGTTAT
** * *
93669728 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
93669793 CAGTTAT
66 CAGTTAT
93669800 A
1 A
93669801 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:93672001 original size:50 final size:49
Alignment explanation
Indices: 93671885--93672060 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 49
93671875 CTAGTACGCA
*** ** *
93671885 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
*
93671934 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGATACACG
* * * ** * * * *
93671984 TAGTAGCTTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCTGATACACG
*
93672035 CAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93672061 TGCGACCTCA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 30 0.29
50 43 0.41
51 31 0.30
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
Found at i:93677524 original size:33 final size:33
Alignment explanation
Indices: 93677487--93677552 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
93677477 TATGTGAGTC
93677487 TAGCTATACATGCCATATTTAACCTGTGATAGT
1 TAGCTATACATGCCATATTTAACCTGTGATAGT
*
93677520 TAGCTATACATGTCATATTTAACCTGTGATAGT
1 TAGCTATACATGCCATATTTAACCTGTGATAGT
93677553 GTGATATCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TAGCTATACATGCCATATTTAACCTGTGATAGT
Found at i:93680381 original size:40 final size:40
Alignment explanation
Indices: 93680313--93680388 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
93680303 CGGTACTTTA
* *
93680313 TGGTGTGTAGGGTTGGATGGGTCAATTTTATCCCCATATT
1 TGGTGTGTAGGGATGGATGGATCAATTTTATCCCCATATT
* *
93680353 TGGTGTGTAGGGATGGGTGGATCGATTTTATCCCCA
1 TGGTGTGTAGGGATGGATGGATCAATTTTATCCCCA
93680389 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGGATCAATTTTATCCCCATATT
Found at i:93689752 original size:26 final size:26
Alignment explanation
Indices: 93689723--93689830 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93689713 TGGTACAAAT
93689723 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93689749 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93689775 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93689801 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93689827 TGAT
1 TGAT
93689831 GGGCATTTCA
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:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93691524 original size:27 final size:27
Alignment explanation
Indices: 93691427--93691531 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
93691417 AGGAAGCGTC
*
93691427 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
93691454 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
93691481 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
93691508 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
93691532 GCAGCCTCGT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:93696115 original size:66 final size:68
Alignment explanation
Indices: 93696039--93696225 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
93696029 TAGTACCACT
*
93696039 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
93696101 CACG
65 CACG
93696105 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
93696170 ATCACG
63 ATCACG
93696176 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
93696226 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:93696150 original size:71 final size:71
Alignment explanation
Indices: 93696062--93696225 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
93696052 CGATTTGTCT
93696062 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
93696127 CTTTCA
66 CTTTCA
93696133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
93696198 CTTTCA
66 CTTTCA
93696204 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
93696226 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:93696263 original size:71 final size:70
Alignment explanation
Indices: 93696062--93696259 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
93696052 CGATTTGTCT
* * *
93696062 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
93696127 CTTTCA
65 CTTTCA
* * *
93696133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
93696198 CTTTCA
65 CTTTCA
* *
93696204 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
93696260 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:93705303 original size:40 final size:41
Alignment explanation
Indices: 93705242--93705491 Score: 239
Period size: 40 Copynumber: 6.3 Consensus size: 41
93705232 CTAACGGGGT
* * * * *
93705242 TAAGTCTCGAAGACATGTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
93705282 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
93705322 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
93705362 TAAGTCCCGAAGGCATTGGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAATATCCGGGC
* * * * *
93705402 TAAGACCTGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * *
93705442 TAAGACCCGAAGGC-CTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
93705480 TAAATCCCGAAG
1 TAAGTCCCGAAG
93705492 ATACTTGGGT
Statistics
Matches: 180, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
38 13 0.07
39 19 0.11
40 147 0.82
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:93718205 original size:19 final size:20
Alignment explanation
Indices: 93718181--93718218 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
93718171 TTTTTGTTTT
93718181 ATCAAA-TATAGAAAAATTA
1 ATCAAAGTATAGAAAAATTA
93718200 ATCAAAGTATAGAAAAATT
1 ATCAAAGTATAGAAAAATT
93718219 CTAAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (20 bp):
ATCAAAGTATAGAAAAATTA
Found at i:93719143 original size:14 final size:14
Alignment explanation
Indices: 93719124--93719151 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93719114 TATGAAATAC
93719124 GGAATATTATTATA
1 GGAATATTATTATA
93719138 GGAATATTATTATA
1 GGAATATTATTATA
93719152 ATTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
GGAATATTATTATA
Found at i:93720147 original size:10 final size:10
Alignment explanation
Indices: 93720134--93720165 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
93720124 GCATACATAC
93720134 ATACATATAT
1 ATACATATAT
93720144 ATACATATAT
1 ATACATATAT
*
93720154 ATATATATAT
1 ATACATATAT
93720164 AT
1 AT
93720166 TTACATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (10 bp):
ATACATATAT
Found at i:93720147 original size:14 final size:14
Alignment explanation
Indices: 93720130--93720160 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93720120 ACATGCATAC
93720130 ATACATACATATAT
1 ATACATACATATAT
*
93720144 ATACATATATATAT
1 ATACATACATATAT
93720158 ATA
1 ATA
93720161 TATATTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATACATACATATAT
Found at i:93721342 original size:11 final size:11
Alignment explanation
Indices: 93721328--93721353 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93721318 TCTTTATATA
93721328 TTTTTTAGAAT
1 TTTTTTAGAAT
93721339 TTTTTTAGAAT
1 TTTTTTAGAAT
93721350 TTTT
1 TTTT
93721354 ATAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTTTAGAAT
Found at i:93735843 original size:26 final size:27
Alignment explanation
Indices: 93735786--93735894 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
93735776 TTAGTTTACC
*
93735786 AAATTACTAAAAT-GCCCTCAATTTGTA
1 AAATTACTAAAATACCCCT-AATTTGTA
**
93735813 AAATTACTAAAATA-CCCTGGTTTGTA
1 AAATTACTAAAATACCCCTAATTTGTA
* *
93735839 AAATTAATAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCCTAATTTGTA
* *
93735866 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACTAAAATACCCCTAATTTGTA
93735893 AA
1 AA
93735895 TTGCCAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
26 19 0.26
27 53 0.74
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCCTAATTTGTA
Found at i:93735850 original size:53 final size:54
Alignment explanation
Indices: 93735786--93735894 Score: 150
Period size: 53 Copynumber: 2.0 Consensus size: 54
93735776 TTAGTTTACC
* * * *
93735786 AAATTACTAAAAT-GCCCTCAATTTGTAAAATTACTAAAATA-CCCTGGTTTGTA
1 AAATTAATAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTGATTTGTA
*
93735839 AAATTAATAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
1 AAATTAATAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGTA
93735893 AA
1 AA
93735895 TTGCCAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 32 0.65
54 17 0.35
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTAATAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGTA
Found at i:93735902 original size:26 final size:27
Alignment explanation
Indices: 93735806--93735905 Score: 125
Period size: 26 Copynumber: 3.8 Consensus size: 27
93735796 AATGCCCTCA
*
93735806 ATTTGTAAAATTACTAAAATA-CCCTG
1 ATTTGTAAAATTACCAAAATACCCCTG
* **
93735832 GTTTGTAAAATTAATAAAATACCCCT-
1 ATTTGTAAAATTACCAAAATACCCCTG
93735858 AGTTTGTAAAATTACCAAAATACCCCTG
1 A-TTTGTAAAATTACCAAAATACCCCTG
*
93735886 ATTTGT-AAATTGCCAAAATA
1 ATTTGTAAAATTACCAAAATA
93735906 TCCTTGGCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 32 0.49
27 32 0.49
28 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCTG
Found at i:93736428 original size:556 final size:557
Alignment explanation
Indices: 93735356--93736462 Score: 1975
Period size: 556 Copynumber: 2.0 Consensus size: 557
93735346 ATATTGGGAA
*
93735356 GCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACCATGAGGAGAGTAGAGGTAC
1 GCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACCATGAGGAGAGTAGAAGTAC
*
93735421 CTTTCTTGGCTGATCCCTTTTGCTTTATGGCGTGCTCGTTTGGGTTGGGCGTCGGCTAAGAGTGC
66 CTTTCTTGGCTGATCCCTTTTGCTTTATGGCGTGCTCGTTTGGGTTAGGCGTCGGCTAAGAGTGC
* *
93735486 TTGGAGCGTGGATTAACTCCAGTCGCCAATCAGGTGTGTATTTCTCACAACTCTAGCTATAGAAT
131 TCGGAGCGTGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACAACTCTAGCTATAGAAT
* *
93735551 GGCTACTTCGGGCCGCGATGGGCCAAAAGGGGTTATGTGGGCCCAATGGGCCTACGGGCCCAATT
196 GGCTACTTCGGGCCGCGATGGGCCAAAAGGGGTCATGTGGGCCCAATGGGCCTACAGGCCCAATT
*
93735616 GGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGCTAGGTGAATCTAATATTTGTGGCTA
261 GGATAAGTTGTTTGATTGTGTAGTAAATATTAGACTAGGCTAGGTGAATCTAATATTTGTGGCTA
*
93735681 GATTTGGGCTAAAAGGGCCACACAAGCGTGTGGGCCTATTTGGGCCGAGAAAAGGCTTTAGGCCC
326 GATTTGGGCTAAAAGGGCCACACAAGCGTGTGGGCCCATTTGGGCCGAGAAAAGGCTTTAGGCCC
93735746 ATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTG
391 ATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTG
* * * *
93735811 TAAAATTACTAAAATACCCTGGTTTGTAAAATTAATAAAATACCCCTAGTTTGTAAAATTACCAA
456 TAAAATTAATAAAATACCCTGGTTTGTAAAACTAACAAAATACCCCTAGCTTGTAAAATTACCAA
*
93735876 AATACCCCTGATTTGT-AAATTGCCAAAATATCCTTG
521 AATACCCCTGATTTGTGAAATTACCAAAATATCCTTG
*
93735912 GCTAACATAAGAGGGGATGCGAAGTTGGCTTTAAATAGAGAGAACCATGAGGAGAGTAGAAGTAC
1 GCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACCATGAGGAGAGTAGAAGTAC
93735977 CTTTCTTGGCTGATCCCTTTTGCTTTATGGCGTGCTCGTTTGGGTTAGGCGTCGGCTAAGAGTGC
66 CTTTCTTGGCTGATCCCTTTTGCTTTATGGCGTGCTCGTTTGGGTTAGGCGTCGGCTAAGAGTGC
* *
93736042 TCGGAGCGTGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACTACTCTAGCTATAGGAT
131 TCGGAGCGTGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACAACTCTAGCTATAGAAT
*
93736107 GGCTACTTCGGGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACAGGCCCAATT
196 GGCTACTTCGGGCCGCGATGGGCCAAAAGGGGTCATGTGGGCCCAATGGGCCTACAGGCCCAATT
*
93736172 GGATAAGTTGTTTGATTGTGTAGTAAATATTAGACTAGGCTAGGTGAATCTCATATTTGTGGCTA
261 GGATAAGTTGTTTGATTGTGTAGTAAATATTAGACTAGGCTAGGTGAATCTAATATTTGTGGCTA
*
93736237 GATTTGGGCTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCCGAGAAAAGGCTTTAGGCCC
326 GATTTGGGCTAAAAGGGCCACACAAGCGTGTGGGCCCATTTGGGCCGAGAAAAGGCTTTAGGCCC
93736302 ATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTG
391 ATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTG
* *
93736367 TAAAATTAATAAAATACCCCTGGTTTGTAAAACTACCAAAATACCCCTGGCTTGT-AAATTACCA
456 TAAAATTAATAAAATA-CCCTGGTTTGTAAAACTAACAAAATACCCCTAGCTTGTAAAATTACCA
** *
93736431 AAATACTTCTGATTTGTGAAATTATCAAAATA
520 AAATACCCCTGATTTGTGAAATTACCAAAATA
93736463 CTCTCGATTT
Statistics
Matches: 525, Mismatches: 24, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
556 480 0.91
557 45 0.09
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (557 bp):
GCTAACATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACCATGAGGAGAGTAGAAGTAC
CTTTCTTGGCTGATCCCTTTTGCTTTATGGCGTGCTCGTTTGGGTTAGGCGTCGGCTAAGAGTGC
TCGGAGCGTGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACAACTCTAGCTATAGAAT
GGCTACTTCGGGCCGCGATGGGCCAAAAGGGGTCATGTGGGCCCAATGGGCCTACAGGCCCAATT
GGATAAGTTGTTTGATTGTGTAGTAAATATTAGACTAGGCTAGGTGAATCTAATATTTGTGGCTA
GATTTGGGCTAAAAGGGCCACACAAGCGTGTGGGCCCATTTGGGCCGAGAAAAGGCTTTAGGCCC
ATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTG
TAAAATTAATAAAATACCCTGGTTTGTAAAACTAACAAAATACCCCTAGCTTGTAAAATTACCAA
AATACCCCTGATTTGTGAAATTACCAAAATATCCTTG
Found at i:93736436 original size:26 final size:27
Alignment explanation
Indices: 93736363--93736521 Score: 119
Period size: 27 Copynumber: 6.0 Consensus size: 27
93736353 ATGCCCTCAA
**
93736363 TTTGTAAAATTAATAAAATACCCCTGG
1 TTTGTAAAATTACCAAAATACCCCTGG
*
93736390 TTTGTAAAACTACCAAAATACCCCTGG
1 TTTGTAAAATTACCAAAATACCCCTGG
* ** *
93736417 CTTGT-AAATTACCAAAATACTTCTGA
1 TTTGTAAAATTACCAAAATACCCCTGG
* * * *
93736443 TTTGTGAAATTATCAAAATA-CTCTCGA
1 TTTGTAAAATTACCAAAATACCCCT-GG
* *
93736470 TTTGTAAAA-TATCGAAATACCCCT-G
1 TTTGTAAAATTACCAAAATACCCCTGG
** * *
93736495 TAGGGTAGAATTACCGAAATACCCCTG
1 T-TTGTAAAATTACCAAAATACCCCTG
93736522 TAGGGTAGAA
Statistics
Matches: 107, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 38 0.36
27 68 0.64
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTGG
Found at i:93736514 original size:27 final size:27
Alignment explanation
Indices: 93736482--93736643 Score: 209
Period size: 27 Copynumber: 6.0 Consensus size: 27
93736472 TGTAAAATAT
93736482 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
93736509 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
93736536 TAAAATA-CCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
93736562 CGAAATACCCTTATAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
93736589 TGAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
93736616 CGAGATACCCTTGTGGGGCAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
93736643 C
1 C
93736644 AGTTTGCCCC
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 24 0.21
27 93 0.79
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:93736547 original size:53 final size:54
Alignment explanation
Indices: 93736484--93736625 Score: 223
Period size: 53 Copynumber: 2.6 Consensus size: 54
93736474 TAAAATATCG
* *
93736484 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACTA
* *
93736538 AAATA-CCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACTA
* *
93736591 AAATACCCCTGTAGGGTAAAATTACCGAGATACCC
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCC
93736626 TTGTGGGGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 49 0.60
54 32 0.40
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACTA
Found at i:93736953 original size:24 final size:25
Alignment explanation
Indices: 93736846--93736940 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
93736836 AGGAAGTGCT
*
93736846 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
93736871 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
93736896 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
93736921 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
93736941 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:93745364 original size:17 final size:19
Alignment explanation
Indices: 93745328--93745365 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
93745318 ACCTAACATG
93745328 AATTAAATTTAAGTCATATT
1 AATTAAATTTAAG-CATATT
93745348 AATTAAA-TTAA-CATATT
1 AATTAAATTTAAGCATATT
93745365 A
1 A
93745366 GCATCACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
AATTAAATTTAAGCATATT
Found at i:93751164 original size:13 final size:13
Alignment explanation
Indices: 93751146--93751189 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
93751136 TAATTATTAT
93751146 AATAATATAATAA
1 AATAATATAATAA
93751159 AATAATATAATAA
1 AATAATATAATAA
**
93751172 TGTAATA-ACATAA
1 AATAATATA-ATAA
93751185 AATAA
1 AATAA
93751190 AAGAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 1 0.04
13 25 0.96
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AATAATATAATAA
Found at i:93751205 original size:14 final size:14
Alignment explanation
Indices: 93751183--93751214 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
93751173 GTAATAACAT
*
93751183 AAAATAAAAGAAAG
1 AAAACAAAAGAAAG
93751197 AAAACAAAAGAAAG
1 AAAACAAAAGAAAG
93751211 AAAA
1 AAAA
93751215 AGAAATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.03, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAACAAAAGAAAG
Found at i:93751284 original size:13 final size:14
Alignment explanation
Indices: 93751247--93751277 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
93751237 CAGGGGGAAA
93751247 AAAGA-AGAAAAAG
1 AAAGACAGAAAAAG
93751260 AAAGACAGAAAAAG
1 AAAGACAGAAAAAG
93751274 AAAG
1 AAAG
93751278 GGGAAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGACAGAAAAAG
Found at i:93754766 original size:17 final size:18
Alignment explanation
Indices: 93754746--93754782 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
93754736 ATTAGTATAA
*
93754746 AATTTT-AATAATTTAAT
1 AATTTTAAATAATTAAAT
93754763 AATTTTAAATAATTAAAT
1 AATTTTAAATAATTAAAT
93754781 AA
1 AA
93754783 AATTGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTAAATAATTAAAT
Found at i:93755286 original size:13 final size:14
Alignment explanation
Indices: 93755268--93755296 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
93755258 GTTGATAATA
93755268 ATTAATAT-ATTAT
1 ATTAATATAATTAT
93755281 ATTAATATAATTAT
1 ATTAATATAATTAT
93755295 AT
1 AT
93755297 ACTAGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTAATATAATTAT
Found at i:93755418 original size:30 final size:30
Alignment explanation
Indices: 93755361--93755419 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
93755351 GCCTTTTGAA
* *
93755361 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
93755391 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
93755420 GAGAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:93762936 original size:17 final size:17
Alignment explanation
Indices: 93762909--93762955 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
93762899 ATCTGTCGAA
*
93762909 AAAAATCAAAATTAATC
1 AAAATTCAAAATTAATC
* *
93762926 AAAATTTAAAATTAATT
1 AAAATTCAAAATTAATC
93762943 AAAATTCAAAATT
1 AAAATTCAAAATT
93762956 TTCATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTCAAAATTAATC
Found at i:93770851 original size:17 final size:19
Alignment explanation
Indices: 93770829--93770863 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93770819 TCAACTTAAA
93770829 TATAAT-CTT-TTTTTCTC
1 TATAATACTTATTTTTCTC
93770846 TATAATACTTATTTTTCT
1 TATAATACTTATTTTTCT
93770864 TATCCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (19 bp):
TATAATACTTATTTTTCTC
Found at i:93773512 original size:18 final size:17
Alignment explanation
Indices: 93773485--93773520 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
93773475 ATTAAGTCAC
*
93773485 ACATAAATAAGTTTAAA
1 ACATAAATAAATTTAAA
93773502 ACATCAAATAAATTTAAA
1 ACAT-AAATAAATTTAAA
93773520 A
1 A
93773521 TTTGAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (17 bp):
ACATAAATAAATTTAAA
Found at i:93774255 original size:16 final size:16
Alignment explanation
Indices: 93774218--93774257 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
93774208 TTTTGTTTTT
*
93774218 TAGATTTAGGGTTATT
1 TAGATTTAGGGTTATC
* *
93774234 TCGATTTAGGGTTGTC
1 TAGATTTAGGGTTATC
93774250 TAGATTTA
1 TAGATTTA
93774258 AAATTTGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (16 bp):
TAGATTTAGGGTTATC
Found at i:93780719 original size:9 final size:9
Alignment explanation
Indices: 93780701--93780744 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
93780691 TTGCAAGAAT
*
93780701 GATGATGAC
1 GATGAGGAC
*
93780710 GATGAAGAC
1 GATGAGGAC
*
93780719 GATGAGGAT
1 GATGAGGAC
93780728 GATGAGGAC
1 GATGAGGAC
93780737 GATGAGGA
1 GATGAGGA
93780745 TGATATTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.36, C:0.07, G:0.41, T:0.16
Consensus pattern (9 bp):
GATGAGGAC
Found at i:93780731 original size:18 final size:18
Alignment explanation
Indices: 93780710--93780748 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
93780700 TGATGATGAC
93780710 GATGAAGACGATGAGGAT
1 GATGAAGACGATGAGGAT
*
93780728 GATGAGGACGATGAGGAT
1 GATGAAGACGATGAGGAT
93780746 GAT
1 GAT
93780749 ATTTCTTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.41, T:0.18
Consensus pattern (18 bp):
GATGAAGACGATGAGGAT
Found at i:93780978 original size:22 final size:21
Alignment explanation
Indices: 93780953--93781033 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
93780943 TTGGTGGTGT
*
93780953 TTTTTGTGCTGTTTTGTTGCTA
1 TTTTGGTGCTGTTTTG-TGCTA
* * * *
93780975 TTTTGGAGCTGTTTTCATACTG
1 TTTTGGTGCTGTTTT-GTGCTA
*
93780997 TTTTGGTTCTGTTTTAGTGCTA
1 TTTTGGTGCTGTTTT-GTGCTA
*
93781019 CTTTT-GTGGTGTTTT
1 -TTTTGGTGCTGTTTT
93781034 ATTGTTCTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
22 40 0.91
23 4 0.09
ACGTcount: A:0.07, C:0.10, G:0.23, T:0.59
Consensus pattern (21 bp):
TTTTGGTGCTGTTTTGTGCTA
Found at i:93781630 original size:26 final size:25
Alignment explanation
Indices: 93781601--93781660 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
93781591 TTAAAAGTTT
93781601 ATAAAAATAGGGATAAATATATAAAA
1 ATAAAAATAGGGA-AAATATATAAAA
* * *
93781627 ATAAAATATATGTAAAATATCTAAAA
1 ATAAAA-ATAGGGAAAATATATAAAA
93781653 ATATAAAA
1 ATA-AAAA
93781661 AAATTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.27
Consensus pattern (25 bp):
ATAAAAATAGGGAAAATATATAAAA
Found at i:93784073 original size:71 final size:71
Alignment explanation
Indices: 93783987--93784150 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
93783977 CGATTTGTCT
93783987 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
93784052 CTTTCA
66 CTTTCA
93784058 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
93784123 CTTTCA
66 CTTTCA
93784129 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
93784151 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:93784188 original size:71 final size:70
Alignment explanation
Indices: 93783987--93784184 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
93783977 CGATTTGTCT
* * * *
93783987 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
93784052 CTTTCA
65 CTTTCA
* * * *
93784058 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
93784123 CTTTCA
65 CTTTCA
* *
93784129 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
93784185 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:93786214 original size:24 final size:24
Alignment explanation
Indices: 93786187--93786234 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93786177 AGGCTCAATA
93786187 TGAGAAGATTTATAAGTATTTTTT
1 TGAGAAGATTTATAAGTATTTTTT
93786211 TGAGAAGATTTATAAGTATTTTTT
1 TGAGAAGATTTATAAGTATTTTTT
93786235 AGAGGTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (24 bp):
TGAGAAGATTTATAAGTATTTTTT
Found at i:93788018 original size:21 final size:21
Alignment explanation
Indices: 93787976--93788023 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
93787966 GCGGTTGCTC
*
93787976 CAACTCAGCAACAGTCTACCT
1 CAACTCAGCAACAGGCTACCT
** *
93787997 CAACTCAGCAGGAGGCTGCCT
1 CAACTCAGCAACAGGCTACCT
93788018 CAACTC
1 CAACTC
93788024 CTTACGAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.38, G:0.17, T:0.17
Consensus pattern (21 bp):
CAACTCAGCAACAGGCTACCT
Found at i:93788322 original size:60 final size:59
Alignment explanation
Indices: 93788203--93788323 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 59
93788193 TTTGAACTTG
* * *
93788203 TGTAAATTTGCCTATACCTGCTACTGATTTATTAACTTAGGCATATTATTATTATTTTTT
1 TGTAAATTTGCCTATACCTGCTACTGA-TTATTAACTTAGGCATATTATCACTAATTTTT
*
93788263 TGTAAATTTGCCTATGA-TTGCTACTG-TTATCTAAACTTAGGCATA-TAGTCACTAATTTTT
1 TGTAAATTTGCCTAT-ACCTGCTACTGATTAT-T-AACTTAGGCATATTA-TCACTAATTTTT
93788323 T
1 T
93788324 TTTTATAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
58 4 0.08
59 3 0.06
60 45 0.85
61 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (59 bp):
TGTAAATTTGCCTATACCTGCTACTGATTATTAACTTAGGCATATTATCACTAATTTTT
Found at i:93802825 original size:24 final size:26
Alignment explanation
Indices: 93802796--93802845 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
93802786 TCTTGTTTTA
*
93802796 ATATTTG-TTT-TTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTAAAAT
93802820 ATATTTGATTTATTATATTTTAAAAT
1 ATATTTGATTTATTATATTTTAAAAT
93802846 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTAAAAT
Found at i:93805222 original size:27 final size:26
Alignment explanation
Indices: 93805184--93805404 Score: 289
Period size: 27 Copynumber: 8.2 Consensus size: 26
93805174 CAGCATGGCT
* *
93805184 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
93805210 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
93805238 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
*
93805265 ACCAGATCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
93805292 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
93805319 ACCAGATCAGTTAATCGTGGTAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
93805346 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
93805373 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
93805400 ACCAG
1 ACCAG
93805405 GACGCTTCCT
Statistics
Matches: 175, Mismatches: 13, Indels: 13
0.87 0.06 0.06
Matches are distributed among these distances:
26 10 0.06
27 144 0.82
28 21 0.12
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:93805248 original size:54 final size:54
Alignment explanation
Indices: 93805184--93805404 Score: 363
Period size: 54 Copynumber: 4.1 Consensus size: 54
93805174 CAGCATGGCT
* *
93805184 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
93805238 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
* *
93805292 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGTTAATCGTGGTAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
* * *
93805346 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
93805400 ACCAG
1 ACCAG
93805405 GACGCTTCCT
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
54 139 0.89
55 18 0.11
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:93806052 original size:26 final size:26
Alignment explanation
Indices: 93806023--93806156 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
93806013 TACAAAAGAC
*
93806023 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93806049 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
93806075 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93806101 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93806127 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93806153 ATCA
1 ATCA
93806157 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93811451 original size:27 final size:27
Alignment explanation
Indices: 93811413--93811578 Score: 189
Period size: 27 Copynumber: 6.1 Consensus size: 27
93811403 AGCATGGCTG
** *
93811413 CCAGA-ACAGATAATGTAACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
93811439 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
93811467 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
93811494 CCAGAT-CAGATAATCGTGGTAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
93811521 CCAGA-ACAGATATATATGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
93811548 CCAGAT-CAGATAATCGTGGCATAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
93811575 CCAG
1 CCAG
93811579 GACGCTTCCT
Statistics
Matches: 121, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.07
27 94 0.78
28 18 0.15
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:93811472 original size:54 final size:54
Alignment explanation
Indices: 93811413--93811578 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
93811403 AGCATGGCTG
** * *
93811413 CCAGAACAGATA-ATGTAACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
*
93811467 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* *
93811521 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
93811575 CCAG
1 CCAG
93811579 GACGCTTCCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 86 0.83
55 17 0.17
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:93812274 original size:26 final size:26
Alignment explanation
Indices: 93812244--93812351 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
93812234 TGAAATTCCC
*
93812244 ATCATGGAACATTTACCGAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93812270 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93812296 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93812322 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93812348 ATCA
1 ATCA
93812352 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93815258 original size:30 final size:25
Alignment explanation
Indices: 93815199--93815275 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 25
93815189 TTATACAATT
*
93815199 AAATAATAATAATACATAATTTAAAA
1 AAATAATAATAA-AAATAATTTAAAA
93815225 AAATATATAATAAAATATAATTTATAAGCA
1 AAATA-ATAATAAAA-ATAATTTA-AA--A
93815255 AAATAGAATAATAAAAATAAT
1 AAAT--AATAATAAAAATAAT
93815276 ATGATAGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 2 0.05
30 10 0.23
31 9 0.21
32 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
AAATAATAATAAAAATAATTTAAAA
Found at i:93815311 original size:20 final size:21
Alignment explanation
Indices: 93815257--93815314 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
93815247 TATAAGCAAA
93815257 ATAGAATAATAAAAATAATATG
1 ATAG-ATAATAAAAATAATATG
93815279 ATAGATAAT-AAAATAATAT-
1 ATAGATAATAAAAATAATATG
93815298 ATA-ACTAATAAAAATAA
1 ATAGA-TAATAAAAATAA
93815315 ATAATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.03
19 7 0.21
20 17 0.50
21 5 0.15
22 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
ATAGATAATAAAAATAATATG
Found at i:93815320 original size:24 final size:25
Alignment explanation
Indices: 93815289--93815352 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
93815279 ATAGATAATA
93815289 AAATAATATATAA-CTAATAAAAAT
1 AAATAATATATAAGCTAATAAAAAT
* * *
93815313 AAATAATATATAAGGTATTTAAAAT
1 AAATAATATATAAGCTAATAAAAAT
93815338 AAATTAAATATATAA
1 AAA-T-AATATATAA
93815353 AAAGGATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.38
25 11 0.32
26 1 0.03
27 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
AAATAATATATAAGCTAATAAAAAT
Found at i:93816945 original size:44 final size:44
Alignment explanation
Indices: 93816895--93817024 Score: 179
Period size: 44 Copynumber: 3.0 Consensus size: 44
93816885 GCCATGTTGA
* *
93816895 TATCTTCGATTTGCTCTCTGACAATACAAAGATGCCAAATCTAC
1 TATCTTCGATATGCTCTCTGACAATACAGAGATGCCAAATCTAC
* * * **
93816939 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCTAAATCTGT
1 TATCTTCGATATGCTCTCTGACAATACAGAGATGCCAAATCTAC
* *
93816983 TGTCTTCGGTATGCTCTCTGACAATACAGAGATGCCAAATCT
1 TATCTTCGATATGCTCTCTGACAATACAGAGATGCCAAATCT
93817025 TGGATCTGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
TATCTTCGATATGCTCTCTGACAATACAGAGATGCCAAATCTAC
Found at i:93817269 original size:44 final size:44
Alignment explanation
Indices: 93817148--93817374 Score: 237
Period size: 44 Copynumber: 5.1 Consensus size: 44
93817138 CGAAGGTTAG
* ** *
93817148 ATCTGCTATGTCTTCGATCTGCTCTCC-GTCGAATATGGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCT-TCCTGAC-AATACAGAGACGCCAA
* * *
93817195 ATCTGTTATCTTCGATCTGC-TCTTTGACAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTTC-CTGACAATACAGAGACGCCAA
* * * * * *
93817239 ATCTGCTATCTTTGATTTACTTCCTAACAATACAAAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTTCCTGACAATACAGAGACGCCAA
93817283 ATCTGCTATCTTCGATCTGC-TCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTTC-CTGACAATACAGAGACGCCAA
*
93817327 ATCTGCTATCTTCGATCTGCTAT-CTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCT-TCCTGACAATACAGAGACGCCAA
93817371 ATCT
1 ATCT
93817375 TGGATCTGCT
Statistics
Matches: 151, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.03
44 123 0.81
45 16 0.11
46 1 0.01
47 7 0.05
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTTCCTGACAATACAGAGACGCCAA
Found at i:93817284 original size:88 final size:88
Alignment explanation
Indices: 93817186--93817374 Score: 290
Period size: 88 Copynumber: 2.1 Consensus size: 88
93817176 TCGAATATGG
* * *
93817186 AGATGCCAAATCTGTTATCTTCGATCTGCTCTTTGACAATACAGAGACGTCAAATCTGCTATCTT
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
* *
93817251 TGATTTACT-TCCTAACAATACAA
66 CGATCTACTAT-CTAACAATACAA
93817274 AGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
1 AGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
* * *
93817339 CGATCTGCTATCTGACAATACAG
66 CGATCTACTATCTAACAATACAA
93817362 AGATGCCAAATCT
1 AGATGCCAAATCT
93817375 TGGATCTGCT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 91 0.99
89 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (88 bp):
AGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTT
CGATCTACTATCTAACAATACAA
Found at i:93817556 original size:350 final size:350
Alignment explanation
Indices: 93816915--93817635 Score: 1183
Period size: 350 Copynumber: 2.1 Consensus size: 350
93816905 TTGCTCTCTG
*
93816915 ACAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCTAAATC
1 ACAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
* * * * * *
93816980 TGTTGTCTTCGGTATGCTCTCTGACAATACAGAGATGCCAAATCTTGGATCTGTTTCAACGTGAA
66 TGCTATCTTCGATATGCTATCTGACAATACAGAGATGCCAAATCTTGGATCTGCTTCAACGTAAA
* *
93817045 CACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCAT
131 CACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCAT
93817110 CTTAGATCTACTTCGATGTGAAAATATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCC
196 CTTAGATCTACTTCGATGTGAAAATATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCC
* * * *
93817175 GTCGAATATGGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTTGACAATACAGAGACGTCAAA
261 GTCAAATATGGAGATGCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAA
*
93817240 TCTGCTATCTTTGAT-TTACTTCCTA
326 TCTGCTATCTTTGATCTT-CTCCCTA
*
93817265 ACAATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
1 ACAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
* *
93817330 TGCTATCTTCGATCTGCTATCTGACAATACAGAGATGCCAAATCTTGGATCTGCTTCAGCGTAAA
66 TGCTATCTTCGATATGCTATCTGACAATACAGAGATGCCAAATCTTGGATCTGCTTCAACGTAAA
93817395 CACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCAT
131 CACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCAT
* * * *
93817460 CTTGGATCTACTTTGATGTGAAAATATCTGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCT
196 CTTAGATCTACTTCGATGTGAAAATATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCC
* *
93817525 GTCAAATATGGAGATGCCAAATCTGTTATCTTCAATTTGCTCTCTGATAATACAGAGACGCCAAA
261 GTCAAATATGGAGATGCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAA
*
93817590 TCTGCTATCTTTGATCTTCTCCCTG
326 TCTGCTATCTTTGATCTTCTCCCTA
* * *
93817615 ATAATACAGAGACGCCAAATC
1 ACAATACAAAGATGCCAAATC
93817636 ATCTTAGATC
Statistics
Matches: 343, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
350 341 0.99
351 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (350 bp):
ACAATACAAAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
TGCTATCTTCGATATGCTATCTGACAATACAGAGATGCCAAATCTTGGATCTGCTTCAACGTAAA
CACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCAT
CTTAGATCTACTTCGATGTGAAAATATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCC
GTCAAATATGGAGATGCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAA
TCTGCTATCTTTGATCTTCTCCCTA
Found at i:93817567 original size:45 final size:44
Alignment explanation
Indices: 93817498--93817635 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 44
93817488 TGAAGGTTAG
* ** *
93817498 ATCTGCTATGTCTTCGATCTGCTCTCTG-TCAAATATGGAGATGCCAA
1 ATCTGCTA--TCTTCAATCTGCTCTCTGAT--AATACAGAGACGCCAA
* *
93817545 ATCTGTTATCTTCAATTTGCTCTCTGATAATACAGAGACGCCAA
1 ATCTGCTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAA
** * *
93817589 ATCTGCTATCTTTGATCTTCTCCCTGATAATACAGAGACGCCAA
1 ATCTGCTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAA
93817633 ATC
1 ATC
93817636 ATCTTAGATC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
44 54 0.69
45 16 0.21
46 1 0.01
47 7 0.09
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAA
Found at i:93829459 original size:2 final size:2
Alignment explanation
Indices: 93829454--93829482 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93829444 AAAATGATTA
93829454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93829483 AACCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93829725 original size:21 final size:19
Alignment explanation
Indices: 93829679--93829736 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
93829669 ATTTGTAAAC
*
93829679 AAAATATATAATAATATGA
1 AAAATATATAATAATATAA
**
93829698 ATCATATGATAAGTAATATAA
1 AAAATAT-ATAA-TAATATAA
93829719 AAAATATAATAA-AATATA
1 AAAATAT-ATAATAATATA
93829737 TATAATGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 11 0.35
20 4 0.13
21 16 0.52
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAATATATAATAATATAA
Found at i:93829959 original size:30 final size:25
Alignment explanation
Indices: 93829900--93829976 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 25
93829890 TTATACAATT
*
93829900 AAATAATAATAATACATAATTTAAAA
1 AAATAATAATAA-AAATAATTTAAAA
93829926 AAATATATAATAAAATATAATTTATAAGCA
1 AAATA-ATAATAAAA-ATAATTTA-AA--A
93829956 AAATAGAATAATAAAAATAAT
1 AAAT--AATAATAAAAATAAT
93829977 ATGATGGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 2 0.05
30 10 0.23
31 9 0.21
32 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
AAATAATAATAAAAATAATTTAAAA
Found at i:93830012 original size:20 final size:21
Alignment explanation
Indices: 93829961--93830015 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
93829951 AAGCAAAATA
93829961 GAATAATAAAAATAATATGAT
1 GAATAATAAAAATAATATGAT
*
93829982 GGATAAT-AAAATAATAT-AT
1 GAATAATAAAAATAATATGAT
93830001 -AACTAATAAAAATAA
1 GAA-TAATAAAAATAA
93830016 ATAATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 17 0.57
21 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (21 bp):
GAATAATAAAAATAATATGAT
Found at i:93830021 original size:24 final size:25
Alignment explanation
Indices: 93829990--93830053 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
93829980 ATGGATAATA
93829990 AAATAATATATAA-CTAATAAAAAT
1 AAATAATATATAAGCTAATAAAAAT
* * *
93830014 AAATAATATATAAGGTATTTAAAAT
1 AAATAATATATAAGCTAATAAAAAT
93830039 AAATTAAATATATAA
1 AAA-T-AATATATAA
93830054 AAAGGATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.38
25 11 0.32
26 1 0.03
27 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
AAATAATATATAAGCTAATAAAAAT
Found at i:93832208 original size:396 final size:396
Alignment explanation
Indices: 93831476--93832665 Score: 2299
Period size: 396 Copynumber: 3.0 Consensus size: 396
93831466 GATAATAATC
* * *
93831476 GGCTTAGGGGTGGAGGAGGATACTCCAGCAGTGGTAGAGGTTCATTAGTCCATAAGTCCTACGCC
1 GGCTTAGGGGTGCAGGAGGATACTCCAGCGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGCGCC
93831541 AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
66 AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
* *
93831606 CCTTTCCTAGTGGAGTTTTGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAACTGTGAT
131 CCTTTCCCAGTGGAGTTTCGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAACTGTGAT
93831671 AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
196 AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
93831736 TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAAGTA
261 TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAAGTA
*
93831801 GTCTCAAAATAAAATAAAAGTAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
326 GTCTTAAAATAAAATAAAAGTAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
93831866 CTAAAT
391 CTAAAT
93831872 GGCTTAGGGGTGCAGGAGGATACTCCAGCGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGCGCC
1 GGCTTAGGGGTGCAGGAGGATACTCCAGCGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGCGCC
93831937 AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
66 AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
93832002 CCTTTCCCAGTGGAGTTTCGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAACTGTGAT
131 CCTTTCCCAGTGGAGTTTCGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAACTGTGAT
93832067 AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
196 AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
93832132 TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAAGTA
261 TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAAGTA
93832197 GTCTTAAAATAAAATAAAAGTAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
326 GTCTTAAAATAAAATAAAAGTAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
93832262 CTAAAT
391 CTAAAT
93832268 GGCTTAGGGGTGCAGGAGGATACTCCAGCGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGCGCC
1 GGCTTAGGGGTGCAGGAGGATACTCCAGCGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGCGCC
93832333 AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
66 AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
*
93832398 CCTTTCCCAGTGGAGTTTCGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAATTGTGAT
131 CCTTTCCCAGTGGAGTTTCGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAACTGTGAT
93832463 AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
196 AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
*
93832528 TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAATTA
261 TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAAGTA
*
93832593 GTCTTAAAATAAAATAAAAATAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
326 GTCTTAAAATAAAATAAAAGTAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
93832658 CTAAAT
391 CTAAAT
93832664 GG
1 GG
93832666 TTGGCAAGGT
Statistics
Matches: 785, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
396 785 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (396 bp):
GGCTTAGGGGTGCAGGAGGATACTCCAGCGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGCGCC
AAAAGAATATTATATTTGAAGTTGGTTATGGTCGTGGTCGAGTAGGACATGGCAGTCGTGGAGAA
CCTTTCCCAGTGGAGTTTCGAGTCCCTGAGTAATAGTGAGCTTTGGAGCTCTTTATAACTGTGAT
AGAATCAGGAGCTCTTTTAGGAAATATATAAGGAAGGGTAAGTACTCAATATGAATTAGCCAAAA
TTAAAAATTGTAAAATAATAATTATAAGTCCTAATAAAAATAAGGTGAAAGAAAAATAAAAAGTA
GTCTTAAAATAAAATAAAAGTAAAAACATAAAATAATAAATAAAAGTTTTTAAACATCTTCATCG
CTAAAT
Found at i:93837383 original size:40 final size:40
Alignment explanation
Indices: 93837317--93837483 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
93837307 AAATTGAATG
* * *
93837317 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
93837356 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
93837396 ATATCCGGGTTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
93837436 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
93837476 ATATCCGG
1 ATATCCGG
93837484 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93840462 original size:14 final size:13
Alignment explanation
Indices: 93840439--93840470 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
93840429 GGAATATCAA
93840439 AACAATAATTAAG
1 AACAATAATTAAG
93840452 AACACATAATTAAG
1 AACA-ATAATTAAG
93840466 AACAA
1 AACAA
93840471 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:93841277 original size:53 final size:48
Alignment explanation
Indices: 93841164--93841309 Score: 168
Period size: 53 Copynumber: 2.9 Consensus size: 48
93841154 TGATTTATCA
* * *
93841164 ATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACA-CCG
1 ATGCCATATCCCAGATATGGTCTTATACGGAAGCACATATCACATCCG
*
93841211 ATGTCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTCCG
1 ATGCCATATCCCAGATATGGTCTTATACGGAAGCACAT-ATCACA----TCCG
* * *
93841264 ATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCACAT
1 ATGCCATATCCCAGATATGGTCTTATACGG-AAGCACATATCACAT
93841310 GTTGCCATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
47 34 0.40
48 6 0.07
49 1 0.01
53 36 0.43
54 7 0.08
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (48 bp):
ATGCCATATCCCAGATATGGTCTTATACGGAAGCACATATCACATCCG
Found at i:93842684 original size:10 final size:10
Alignment explanation
Indices: 93842669--93842699 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
93842659 CTGATGAAAA
93842669 TGAAGAGAAT
1 TGAAGAGAAT
93842679 TGAAGAGAAT
1 TGAAGAGAAT
93842689 TGAAGAGAAT
1 TGAAGAGAAT
93842699 T
1 T
93842700 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (10 bp):
TGAAGAGAAT
Found at i:93846795 original size:28 final size:28
Alignment explanation
Indices: 93846763--93846820 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
93846753 CGTAGATCAA
93846763 GAAATTACCCCTAAAGAGCAAAATTACC
1 GAAATTACCCCTAAAGAGCAAAATTACC
93846791 GAAATTACCCCTAAAGAGCAAAATTACC
1 GAAATTACCCCTAAAGAGCAAAATTACC
93846819 GA
1 GA
93846821 TATACTCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.17
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACC
Found at i:93857717 original size:20 final size:19
Alignment explanation
Indices: 93857690--93857731 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
93857680 AGGGACTAAG
93857690 TTGGTCAAAACATA-AAATT
1 TTGGTCAAAA-ATATAAATT
93857709 TTGGTTCAAAAATATAAATT
1 TTGG-TCAAAAATATAAATT
93857729 TTG
1 TTG
93857732 AAAAATAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (19 bp):
TTGGTCAAAAATATAAATT
Found at i:93857747 original size:28 final size:28
Alignment explanation
Indices: 93857715--93857823 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
93857705 AATTTTGGTT
* *
93857715 CAAAAATATAAATTTTGAAAAATAGGGG
1 CAAAACTATAAAATTTGAAAAATAGGGG
* * *
93857743 CAAAACTGTAAAATATGAAAAATAAGGG
1 CAAAACTATAAAATTTGAAAAATAGGGG
* *
93857771 -AAAATTGTAAAATTTGAAAAAATAGGGG
1 CAAAACTATAAAATTTG-AAAAATAGGGG
* *
93857799 CAAAACTATAAAATCTAAAAAATAG
1 CAAAACTATAAAATTTGAAAAATAG
93857824 AGGATACATG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 14 0.21
28 41 0.61
29 12 0.18
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.22
Consensus pattern (28 bp):
CAAAACTATAAAATTTGAAAAATAGGGG
Found at i:93862413 original size:29 final size:28
Alignment explanation
Indices: 93862381--93862698 Score: 237
Period size: 29 Copynumber: 11.0 Consensus size: 28
93862371 GGCTATTGAT
93862381 TATGAAAAGGGATGGTGACGACCATCAA
1 TATGAAAAGGGATGGTGACGACCATCAA
*
93862409 CTATGAAAAGGGACGGTGACGACCATCGAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
* * * *
93862439 TATTAAAAGGGATAGCT-TCAACCATCAA
1 TATGAAAAGGGAT-GGTGACGACCATCAA
93862467 TTATGAAAAGGGATGGTGACGACCATCAA
1 -TATGAAAAGGGATGGTGACGACCATCAA
93862496 CTATGAAAAGGGATGGTGACGACCATCGAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
* * * * ** *
93862526 TGTAAAAAAGGAT-ATCTTCGACTATCGAA
1 TATGAAAAGGGATGGT-GACGACCATC-AA
* ** * * * *
93862555 TATGAAAAAGGATTACT-TCGGCTATCGAT
1 TATGAAAAGGGA-TGGTGACGACCATC-AA
*
93862584 TAATGAAAAGGGATGGTAACGACCATCAA
1 T-ATGAAAAGGGATGGTGACGACCATCAA
*
93862613 CTATGAAAAGGGATGGTGACGATCATCAAA
1 -TATGAAAAGGGATGGTGACGACCATC-AA
* * * *
93862643 TATGAAAAGGGACGGTTACAAGCATCAAA
1 TATGAAAAGGGATGGTGACGACCATC-AA
* * *
93862672 TATGAAAAGGGACGGTTACAACCATCA
1 TATGAAAAGGGATGGTGACGACCATCA
93862699 TTTAGCACAC
Statistics
Matches: 240, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
28 6 0.03
29 207 0.86
30 26 0.11
31 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACGACCATCAA
Found at i:93862502 original size:87 final size:87
Alignment explanation
Indices: 93862356--93862697 Score: 305
Period size: 87 Copynumber: 3.9 Consensus size: 87
93862346 TCGATGAGTG
* * * **
93862356 AAAAGGGATAGCTTTGGCTATTGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGG
1 AAAAGGGATAGCTTCGACCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGG
*
93862421 ACGGTGACGACCATCGAATATT
66 ACGGTGACGACCATCGAATATA
*
93862443 AAAAGGGATAGCTTCAACCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGG
1 AAAAGGGATAGCTTCGACCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGG
* *
93862508 ATGGTGACGACCATCGAATGTA
66 ACGGTGACGACCATCGAATATA
* * * * ** * * * * *
93862530 AAAAAGGATATCTTCGACTATCGAA-TATGAAAAAGGATTACT-TCGGCTATCGATTAATGAAAA
1 AAAAGGGATAGCTTCGACCATC-AATTATGAAAAGGGA-TGGTGACGACCATCAACT-ATGAAAA
* * *
93862593 GGGATGGTAACGACCATC-AACTATG
63 GGGACGGTGACGACCATCGAA-TATA
* * * * * * * * *
93862618 AAAAGGGAT-GGTGACGATCATCAAATATGAAAAGGGACGGTTACAAGCATCAAATATGAAAAGG
1 AAAAGGGATAGCT-TCGACCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGG
* *
93862682 GACGGTTACAACCATC
65 GACGGTGACGACCATC
93862698 ATTTAGCACA
Statistics
Matches: 204, Mismatches: 44, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
87 143 0.70
88 61 0.30
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (87 bp):
AAAAGGGATAGCTTCGACCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGG
ACGGTGACGACCATCGAATATA
Found at i:93865526 original size:28 final size:28
Alignment explanation
Indices: 93865478--93865546 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
93865468 ATTTAAACCC
*
93865478 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
93865505 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
93865533 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
93865547 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:93866197 original size:27 final size:27
Alignment explanation
Indices: 93866167--93866228 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
93866157 GGGCAAAATG
93866167 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
93866194 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
93866221 GTAATTTT
1 GTAATTTT
93866229 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Done.