Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 295 of 333
Found at i:97413476 original size:36 final size:35
Alignment explanation
Indices: 97413391--97413463 Score: 137
Period size: 36 Copynumber: 2.1 Consensus size: 35
97413381 AATATTGGAT
97413391 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
97413426 ATCATATCTAAGATTGCATATCATATCTAAGATTGC
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTGC
97413462 AT
1 AT
97413464 ATCATTGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 18 0.49
36 19 0.51
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGC
Found at i:97413625 original size:21 final size:20
Alignment explanation
Indices: 97413587--97413626 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
97413577 TTGGACTTCG
**
97413587 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
97413607 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
97413627 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:97419528 original size:22 final size:21
Alignment explanation
Indices: 97419500--97419548 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
97419490 ATTTTCAATA
* *
97419500 AAAAAAATACATAAGATTTTAT
1 AAAAAAACACATAA-ATATTAT
*
97419522 AAAAAAACACATTAATATTAT
1 AAAAAAACACATAAATATTAT
97419543 AAAAAA
1 AAAAAA
97419549 TATTTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAAACACATAAATATTAT
Found at i:97419548 original size:23 final size:22
Alignment explanation
Indices: 97419499--97419548 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
97419489 CATTTTCAAT
* *
97419499 AAAAAAAATACATAAGATTTTA
1 AAAAAAAACACATAAGATTATA
* *
97419521 TAAAAAAACACATTAATATTATA
1 AAAAAAAACACA-TAAGATTATA
97419544 AAAAA
1 AAAAA
97419549 TATTTATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAAAACACATAAGATTATA
Found at i:97423724 original size:24 final size:25
Alignment explanation
Indices: 97423697--97423746 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
97423687 AAAATTTTAA
97423697 TAAATAAAAAAT-ATATTAAAT-TAT
1 TAAATAAAAAATAATA-TAAATATAT
*
97423721 TAAATTAAAAATAATATAAATATAT
1 TAAATAAAAAATAATATAAATATAT
97423746 T
1 T
97423747 TTTCAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAATAAAAAATAATATAAATATAT
Found at i:97424518 original size:38 final size:38
Alignment explanation
Indices: 97424475--97424549 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
97424465 GAATTTAAAT
97424475 TAATGTAATATATCTTATTATTGCATTTAATACTTTAC
1 TAATGTAATATATCTTATTATTGCATTTAATACTTTAC
97424513 TAATGTAATATATCTTATTATTGCATTTAATACTTTA
1 TAATGTAATATATCTTATTATTGCATTTAATACTTTA
97424550 TCTCTGAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (38 bp):
TAATGTAATATATCTTATTATTGCATTTAATACTTTAC
Found at i:97429566 original size:38 final size:38
Alignment explanation
Indices: 97429515--97429645 Score: 163
Period size: 38 Copynumber: 3.4 Consensus size: 38
97429505 TGTATTACCG
* * *
97429515 AATACATGTTAAGCATGCCTACTGCTATTGTTGAACCA
1 AATACATGTTAAGCATGCCTACTGTTACTGTTGAACTA
* * * *
97429553 AATACATGTTAAGCATACCTACTATTACTGTTAAACTG
1 AATACATGTTAAGCATGCCTACTGTTACTGTTGAACTA
* * *
97429591 AATACATGATAAGCATGTCTAATGTTACTGTTGAACTA
1 AATACATGTTAAGCATGCCTACTGTTACTGTTGAACTA
*
97429629 AAAACATGTTAAGCATG
1 AATACATGTTAAGCATG
97429646 TCTAATATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (38 bp):
AATACATGTTAAGCATGCCTACTGTTACTGTTGAACTA
Found at i:97438574 original size:22 final size:22
Alignment explanation
Indices: 97438524--97438579 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
97438514 TTTTCATAAC
*
97438524 ATTCTCTC-AAAAATCTCTCAA
1 ATTCTCTCTAAAAATATCTCAA
* *
97438545 A-CCACTCTAAAAATATCTCAA
1 ATTCTCTCTAAAAATATCTCAA
*
97438566 ATTCTCTCTTAAAA
1 ATTCTCTCTAAAAA
97438580 CTTTTACTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 4 0.15
21 14 0.52
22 9 0.33
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTCTCTCTAAAAATATCTCAA
Found at i:97466940 original size:75 final size:75
Alignment explanation
Indices: 97466818--97467645 Score: 1004
Period size: 75 Copynumber: 11.1 Consensus size: 75
97466808 TATGTGGATG
* *
97466818 TTTC-ATTTCTGTTT-TCAAAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
97466881 CGCTAAGGTAT
65 CGCTGAGGTAT
* *
97466892 TTTCAATTACTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
97466957 ACTGAGGTAT
66 GCTGAGGTAT
* * * *
97466967 TTTTAATTAT-TGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCT-TGGAGC
1 TTTCAATT-TCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-C
97467030 ACGCTGAGGTAT
64 ACGCTGAGGTAT
97467042 TTTCAATTAT-TGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACA
1 TTTCAATT-TCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
97467105 CACTGAGGTAA
65 CGCTGAGGTAT
* *
97467116 TTTCAATTTCTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAT
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
97467178 GCTGAGGTAT
66 GCTGAGGTAT
* * * ***
97467188 TGTCAATTTTTTGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAA-TTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
97467253 CGCTGAGGTAA
65 CGCTGAGGTAT
97467264 TTTCAATTTCTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
97467326 GCCGAGGTAT
66 GCTGAGGTAT
* * ** * *
97467336 TTTCAATTTCTGTTTTTTCAAAAAGATCAACTCACGTTGCGAGAGGTAAGTTGAGCCTCGGGTCA
1 TTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
97467401 CACGCCGAGGTAT
63 CACGCTGAGGTAT
* * ** *
97467414 TTTCAATTTCTGTTTTTTCAAAAAGATCAACTCACGTTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
97467479 CGCTGAGGTAA
65 CGCTGAGGTAT
* * * *
97467490 TTTCAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAT
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
97467553 GCTGAGGTAT
66 GCTGAGGTAT
* * * * * *
97467563 TTTTAATTAATGTGTTTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTCGAGCCTCGGGTC
1 TTTCAATT--TCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* *
97467626 ACATGTTGAGGTAT
62 ACACGCTGAGGTAT
97467640 TTTCAA
1 TTTCAA
97467646 AATCTAATTT
Statistics
Matches: 672, Mismatches: 62, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
71 36 0.05
72 82 0.12
73 70 0.10
74 33 0.05
75 229 0.34
76 132 0.20
77 17 0.03
78 73 0.11
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (75 bp):
TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAT
Found at i:97467294 original size:148 final size:147
Alignment explanation
Indices: 97466837--97467645 Score: 937
Period size: 148 Copynumber: 5.4 Consensus size: 147
97466827 TGTTTTCAAA
* * * **
97466837 AAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTCAATTAC
1 AAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
* *** * *
97466902 TGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTAT
65 TGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
* *
97466967 TTTTAATTAT-TGTTTGTAAAA
130 TTTCAATT-TCTGTTTGT---C
* * *
97466988 AAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCT-TGGAGCACGCTGAGGTATTTTCAATTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCAATTTT
* *** * *
97467052 TGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACACTGAGGTAA
65 TGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
97467116 TTTCAATTTCTGTTTGTC
130 TTTCAATTTCTGTTTGTC
* * *
97467134 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTGTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTT
*
97467199 TGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
65 TGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
97467264 TTTCAATTTCTGTTTGTC
130 TTTCAATTTCTGTTTGTC
* *
97467282 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* ** * * *
97467347 GT-TTTTTCAAAAAGATCAACTCACGTTGCGAGAGGTAAGTTGAGCCTCGGGTCACACGCCGAGG
66 GTATGTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGG
*
97467411 TATTTTCAATTTCTGTTTTTTC
127 TATTTTCAATTTCTG-TTTGTC
** * *
97467433 AAAAAGATCAACTCACGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA--
1 --AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* * * *
97467496 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGT
63 TTTGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
* * *
97467561 ATTTTTAATTAATGTGTTTTTC
128 ATTTTCAATT--TCTGTTTGTC
* * * * *
97467583 AAAAATCAACTCATATTACGAGAGGTGAGTCGAGCCTCGGGTCACATGTTGAGGTATTTTCAA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAA
97467646 AATCTAATTT
Statistics
Matches: 582, Mismatches: 58, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
146 57 0.10
147 58 0.10
148 155 0.27
149 53 0.09
150 137 0.24
151 54 0.09
152 7 0.01
153 9 0.02
154 52 0.09
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
GTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
TTCAATTTCTGTTTGTC
Found at i:97467467 original size:226 final size:221
Alignment explanation
Indices: 97466818--97467645 Score: 1030
Period size: 226 Copynumber: 3.7 Consensus size: 221
97466808 TATGTGGATG
* *
97466818 TTTC-ATTTCTGTTT-TCAAAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGTTTGTC--AAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
97466881 CGCTAAGGTATTTTCAATTACTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
63 CGCTGAGGTATTTTCAATTACTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * ** *
97466946 CCTCAGGGCACA--CTGAGGTATTTTTAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGG
126 CCTC-GGGCACATGCTGAGGTATTTTCAATT-TTGTTTTTTCAAAAAATCAACTCATATTGCGAG
* *
97467009 AGGTGAGTTGAGCCT-TGGAGCACGCTGAGGTAT
189 AGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTAA
97467042 TTTCAATTAT-TGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACA
1 TTTCAATT-TCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
97467105 CACTGAGGTAATTTCAATTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
63 CGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
** * *
97467169 TCAAG-ACATGCTGAGGTATTGTCAATTTTTTGTATGTTTC-AAAAATCAACTCATATTGCGAGA
128 TCGGGCACATGCTGAGGTATTTTCAA--TTTTGT-TTTTTCAAAAAATCAACTCATATTGCGAGA
97467232 GGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
190 GGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
97467264 TTTCAATTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * ** *
97467328 CGAGGTATTTTCAATTTCTGTTTTTTCAAAAAGATCAACTCACGTTGCGAGAGGTAAGTTGAGCC
66 TGAGGTATTTTCAATTACTG-TTTGTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * **
97467393 TCGGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTTCAAAAAGATCAACTCACGTTGCGAGA
128 TCGGG-CACATGCTGAGGTATTTTCAATTT-TGTTTTTTCAAAAA-ATCAACTCATATTGCGAGA
*
97467458 GGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
190 GGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * * *
97467490 TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * *
97467555 TGAGGTATTTTTAATTAATGTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTCGAGCCT
66 TGAGGTATTTTCAATT-A-CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
97467620 CGGGTCACATGTTGAGGTATTTTCAA
129 CGGG-CACATGCTGAGGTATTTTCAA
97467646 AATCTAATTT
Statistics
Matches: 532, Mismatches: 49, Indels: 44
0.85 0.08 0.07
Matches are distributed among these distances:
219 39 0.07
220 27 0.05
221 56 0.11
222 68 0.13
223 10 0.02
224 73 0.14
225 38 0.07
226 151 0.28
227 62 0.12
228 6 0.01
229 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (221 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGCACATGCTGAGGTATTTTCAATTTTGTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTAA
Found at i:97472784 original size:30 final size:32
Alignment explanation
Indices: 97472724--97472787 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
97472714 CACTTATTTT
97472724 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
97472757 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
97472788 ATACATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:97483282 original size:20 final size:20
Alignment explanation
Indices: 97483254--97483303 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
97483244 TGTATTGCTA
*
97483254 TACATGCCATACTTAAGTTT
1 TACAAGCCATACTTAAGTTT
97483274 TACAAGCCATACTTAAGTTT
1 TACAAGCCATACTTAAGTTT
97483294 TACAAGCCAT
1 TACAAGCCAT
97483304 TTACCAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
TACAAGCCATACTTAAGTTT
Found at i:97484530 original size:30 final size:32
Alignment explanation
Indices: 97484470--97484533 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
97484460 CACTTATTTT
97484470 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
97484503 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
97484534 ATACATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:97484796 original size:41 final size:41
Alignment explanation
Indices: 97484750--97484905 Score: 276
Period size: 41 Copynumber: 3.8 Consensus size: 41
97484740 ACCGGCTCTT
* *
97484750 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGACATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
97484791 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
97484832 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
97484873 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
97484906 TAATGATAAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:97486633 original size:17 final size:18
Alignment explanation
Indices: 97486608--97486651 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
97486598 AACCAAATTG
97486608 GGCGTGTGGG-CCACACA
1 GGCGTGTGGGCCCACACA
*
97486625 GGTGTGTGGGCCCACACA
1 GGCGTGTGGGCCCACACA
97486643 GGCGTGTGG
1 GGCGTGTGG
97486652 ATTCTTGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.14, C:0.25, G:0.45, T:0.16
Consensus pattern (18 bp):
GGCGTGTGGGCCCACACA
Found at i:97487145 original size:24 final size:24
Alignment explanation
Indices: 97487113--97487172 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
97487103 CCCACATGAA
*
97487113 GTGT-AGGGATGGTCGGAGATGGT
1 GTGTAAGGGATGGTCAGAGATGGT
97487136 GTGTAAGGGATGGTCAGAGATGGT
1 GTGTAAGGGATGGTCAGAGATGGT
*
97487160 GTGTAAAGGATGG
1 GTGTAAGGGATGG
97487173 GGGTAGGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.25
Consensus pattern (24 bp):
GTGTAAGGGATGGTCAGAGATGGT
Found at i:97491473 original size:18 final size:18
Alignment explanation
Indices: 97491436--97491480 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
97491426 CTTAGAATTT
* *
97491436 TGGGCCCACATGTCCTTG
1 TGGGCCCACATGCCCATG
*
97491454 TGGGCGCACATGCCCATG
1 TGGGCCCACATGCCCATG
97491472 T-GGCCCACA
1 TGGGCCCACA
97491481 CAGCCTGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.16, C:0.36, G:0.29, T:0.20
Consensus pattern (18 bp):
TGGGCCCACATGCCCATG
Found at i:97493751 original size:27 final size:26
Alignment explanation
Indices: 97493715--97493852 Score: 106
Period size: 27 Copynumber: 5.2 Consensus size: 26
97493705 TGGAAATAAA
*
97493715 TATATGAAATGATTATATGAATTGGT
1 TATATGAAATGATTATATGAAATGGT
97493741 TATATGAAAATAGA-TATATGAAATGGT
1 TATATG-AAAT-GATTATATGAAATGGT
97493768 TATATGAAAAATGA-TATAT-ATAATGGT
1 TATATG--AAATGATTATATGA-AATGGT
* * *
97493795 TACATG-AATCAATTATATGAAAAAT-GA
1 TATATGAAAT-GATTATATG--AAATGGT
* * *
97493822 TATATGAAATGGTTATATGAATTAGT
1 TATATGAAATGATTATATGAAATGGT
97493848 TATAT
1 TATAT
97493853 ATAAACAGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
24 3 0.03
25 4 0.04
26 18 0.20
27 53 0.58
28 13 0.14
29 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.16, T:0.38
Consensus pattern (26 bp):
TATATGAAATGATTATATGAAATGGT
Found at i:97493802 original size:40 final size:40
Alignment explanation
Indices: 97493758--97493868 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
97493748 AAATAGATAT
*
97493758 ATGAAATGGTTATATGAAAAATGATATAT-ATAATGGTTAC
1 ATGAAATAGTTATATGAAAAATGATATATGA-AATGGTTAC
* *
97493798 ATG-AATCAATTATATGAAAAATGATATATGAAATGGTTAT
1 ATGAAAT-AGTTATATGAAAAATGATATATGAAATGGTTAC
*
97493838 ATGAATTAGTTATAT-ATAAACA-GATATATGA
1 ATGAAATAGTTATATGA-AAA-ATGATATATGA
97493869 TAACCGATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
39 4 0.07
40 53 0.87
41 4 0.07
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (40 bp):
ATGAAATAGTTATATGAAAAATGATATATGAAATGGTTAC
Found at i:97493849 original size:13 final size:13
Alignment explanation
Indices: 97493701--97493901 Score: 93
Period size: 13 Copynumber: 14.8 Consensus size: 13
97493691 GATAAATATC
**
97493701 TATATGGAAATAAA
1 TATAT-GAAATAGT
97493715 TATATGAAAT-GAT
1 TATATGAAATAG-T
* *
97493728 TATATGAATTGGT
1 TATATGAAATAGT
*
97493741 TATATGAAAATAGA
1 TATATG-AAATAGT
*
97493755 TATATGAAATGGT
1 TATATGAAATAGT
* *
97493768 TATATGAAAAATGA
1 TATATGAAATA-GT
*
97493782 TATAT-ATAATGGT
1 TATATGA-AATAGT
* *
97493795 TACATG-AATCAAT
1 TATATGAAAT-AGT
* *
97493808 TATATGAAAAATGA
1 TATATGAAATA-GT
*
97493822 TATATGAAATGGT
1 TATATGAAATAGT
*
97493835 TATATGAATTAGT
1 TATATGAAATAGT
* * *
97493848 TATATATAAACAGA
1 TATAT-GAAATAGT
**
97493862 TATATGATAACCGAT
1 TATATGA-AATAG-T
*
97493877 TATATGGAAATAGA
1 TATAT-GAAATAGT
97493891 TATATGAAATA
1 TATATGAAATA
97493902 AAACATTGGA
Statistics
Matches: 138, Mismatches: 36, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
12 3 0.02
13 72 0.52
14 53 0.38
15 8 0.06
16 2 0.01
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.35
Consensus pattern (13 bp):
TATATGAAATAGT
Found at i:97495874 original size:42 final size:41
Alignment explanation
Indices: 97495766--97495874 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 41
97495756 TTTCAGTACG
* * * *
97495766 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
1 TGATTTCGTGTAAGACCATGTCTCGGACATTGGCATCAATA
*
97495807 TGATATTTACGCGTAAGACCATGTCTCGGACATTGGCATCATATA
1 TG--ATTT-CGTGTAAGACCATGTCTCGGACATTGGCATCA-ATA
*
97495852 TGATTTCGTGTAAGACCTTGTCT
1 TGATTTCGTGTAAGACCATGTCT
97495875 GGGATAGTGG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 15 0.26
43 8 0.14
44 28 0.49
45 4 0.07
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTCGGACATTGGCATCAATA
Found at i:97495886 original size:42 final size:43
Alignment explanation
Indices: 97495766--97495929 Score: 142
Period size: 42 Copynumber: 3.9 Consensus size: 43
97495756 TTTCAGTACG
*
97495766 TGATTTCGTGTAAGACCACGTCTGGGA-CGTTGGCATCA-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGATAGTTGGCATCATATT
* * * * *
97495807 TGATATTTACGCGTAAGACCATGTCTCGGACA-TTGGCATCATATA
1 TG--ATTT-CGTGTAAGACCACGTCTGGGATAGTTGGCATCATATT
** *
97495852 TGATTTCGTGTAAGACCTTGTCTGGGATAG-TGGCATTGATATT
1 TGATTTCGTGTAAGACCACGTCTGGGATAGTTGGCA-TCATATT
* * *
97495895 TGATTAC-AGTAAGACCTCGTCTGGGAT-GTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGATAGTTGGCAT
97495930 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.04
42 47 0.47
43 19 0.19
44 27 0.27
45 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACGTCTGGGATAGTTGGCATCATATT
Found at i:97500933 original size:20 final size:19
Alignment explanation
Indices: 97500895--97500936 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
97500885 TTTATTTTAC
97500895 TATAAATATTATGTATATA
1 TATAAATATTATGTATATA
97500914 TATAAATGATTTAT-TATATA
1 TATAAAT-A-TTATGTATATA
97500934 TAT
1 TAT
97500937 TAATTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TATAAATATTATGTATATA
Found at i:97501014 original size:20 final size:22
Alignment explanation
Indices: 97500985--97501052 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
97500975 TAAGTTTTAT
97500985 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
97501004 TTATATCATTTTACTATATATA
1 TTATATCATTTTACTATATATA
* * * *
97501026 TTAT-TCATTATATTATTTTTA
1 TTATATCATTTTACTATATATA
97501047 TTATAT
1 TTATAT
97501053 TTTATATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:97501049 original size:14 final size:14
Alignment explanation
Indices: 97501002--97501053 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
97500992 TTTTATAATA
*
97501002 TATTATATCA-TTT
1 TATTATATTATTTT
*
97501015 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
97501031 CATTATATTATTTT
1 TATTATATTATTTT
97501045 TATTATATT
1 TATTATATT
97501054 TTATATTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:97501075 original size:33 final size:34
Alignment explanation
Indices: 97501022--97501085 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
97501012 TTTTACTATA
* *
97501022 TATATTATTCATTATATTATTTTTAT-TATATTT
1 TATATTATTCAGTATATTATTATTATGTATATTT
97501055 TATATTACTTCAGTAT-TTATTATTATGTATA
1 TATATTA-TTCAGTATATTATTATTATGTATA
97501086 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 16 0.59
34 11 0.41
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (34 bp):
TATATTATTCAGTATATTATTATTATGTATATTT
Found at i:97502729 original size:31 final size:31
Alignment explanation
Indices: 97502664--97502746 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
97502654 CTTCCTGCAT
* **
97502664 TAAAATCCAACCAAATACAACAAATATATTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * *
97502695 TAAAATGCAGCCAAAAACAACAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
97502726 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
97502747 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:97508629 original size:9 final size:9
Alignment explanation
Indices: 97508615--97508736 Score: 102
Period size: 9 Copynumber: 12.9 Consensus size: 9
97508605 ATGTATTAGT
97508615 TAAGTTATG
1 TAAGTTATG
97508624 TAAGTTGTTATG
1 TAA---GTTATG
97508636 TACA-TTATG
1 TA-AGTTATG
* *
97508645 TGAGCTATG
1 TAAGTTATG
*
97508654 TAAATTATG
1 TAAGTTATG
97508663 TAAGTTATG
1 TAAGTTATG
*
97508672 TAAATTATG
1 TAAGTTATG
97508681 TAAGTTGTTATG
1 TAA---GTTATG
*
97508693 TAAATTATG
1 TAAGTTATG
*
97508702 TAAGTTATA
1 TAAGTTATG
*
97508711 TGAGTTATG
1 TAAGTTATG
97508720 TAAGTTATG
1 TAAGTTATG
*
97508729 TAATTTAT
1 TAAGTTAT
97508737 TGAAGTAATG
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
8 1 0.01
9 72 0.80
12 16 0.18
13 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:97508680 original size:57 final size:57
Alignment explanation
Indices: 97508619--97508736 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
97508609 ATTAGTTAAG
* * *
97508619 TTATGTAAGTTGTTATGTACATTATGTGAGCTATGTAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTATGTAAGCTATATAAATTATGTAAGTTATGTAAA
* * * *
97508676 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGCTATATAAATTATGTAAGTTATGTAAA
97508733 TTAT
1 TTAT
97508737 TGAAGTAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTATGTAAGCTATATAAATTATGTAAGTTATGTAAA
Found at i:97508692 original size:48 final size:48
Alignment explanation
Indices: 97508640--97508731 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
97508630 GTTATGTACA
* * *
97508640 TTATGTGAGCTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTTG
1 TTATGTAAACTATGTAAATTATATAAGTTATGTAAATTATGTAAGTTG
* * * *
97508688 TTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAA
1 TTATGTAAACTATGTAAATTATATAAGTTATGTAAATTATGTAA
97508732 TTTATTGAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.45
Consensus pattern (48 bp):
TTATGTAAACTATGTAAATTATATAAGTTATGTAAATTATGTAAGTTG
Found at i:97508693 original size:39 final size:39
Alignment explanation
Indices: 97508650--97508725 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
97508640 TTATGTGAGC
*
97508650 TATGTAAATTATGTAAGTTATGTAAATTATGTAAGTTGT
1 TATGTAAATTATGTAAGTTATATAAATTATGTAAGTTGT
* *
97508689 TATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 TATGTAAATTATGTAAGTTATATAAATTATGTAAGTT
97508726 ATGTAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (39 bp):
TATGTAAATTATGTAAGTTATATAAATTATGTAAGTTGT
Found at i:97512386 original size:25 final size:25
Alignment explanation
Indices: 97512352--97512412 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
97512342 TGCGGAAGCG
* *
97512352 GAGAGCGACGGTGAAGGGACGCAGAA
1 GAGA-CGACGGTGAAGAGACGCAAAA
97512378 GAGACGACGGTGAAGAGACGCAAAA
1 GAGACGACGGTGAAGAGACGCAAAA
97512403 GAGACGACGG
1 GAGACGACGG
97512413 CGAACGACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.38, C:0.16, G:0.43, T:0.03
Consensus pattern (25 bp):
GAGACGACGGTGAAGAGACGCAAAA
Found at i:97512945 original size:158 final size:157
Alignment explanation
Indices: 97512718--97513008 Score: 365
Period size: 158 Copynumber: 1.8 Consensus size: 157
97512708 CATTTATTTA
* * *
97512718 AAAAACGCCGCTAATCCCTATATACTCAACTAAAACGACGACGTGTACTATAAACTTGAATTATT
1 AAAAACGCCGCAAATCCCTATATACTCAACTAAAACGACGACGTGTACCATAAACTTGAATTATG
* * *
97512783 TTGCGGCATTTTTGAAAGCGCCACTAATACTCGT-AT-ATACTAAAACGGCGCCGTTTTCGTTAA
66 TTGCGGCATTTTTAAAAACGCCACTAATACTC-TAATAAT-CTAAAACGACGCCGTTTTCGTTAA
97512846 ACTAATCTGTATTTTGTGGCGTTTTCTAT
129 ACTAATCTGTATTTTGTGGCGTTTTCTAT
* * * * *
97512875 AAAAACGCCGCAAATCCCCTATATATTGAACTAAAACGACGACGCT-T-CCAGTACACTTTACTT
1 AAAAACGCCGCAAAT-CCCTATATACTCAACTAAAACGACGACG-TGTACCA-TAAACTTGAATT
* * *
97512938 CTGTTGCGGCATTTTTAAAAACGCCACTAGTACTCTAATCAATCTAAAACGACGCCGTTTTCTTT
63 ATGTTGCGGCATTTTTAAAAACGCCACTAATACTCTAAT-AATCTAAAACGACGCCGTTTTCGTT
*
97513003 CAACTA
127 AAACTA
97513009 TACTATTTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
157 17 0.15
158 68 0.60
159 26 0.23
160 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (157 bp):
AAAAACGCCGCAAATCCCTATATACTCAACTAAAACGACGACGTGTACCATAAACTTGAATTATG
TTGCGGCATTTTTAAAAACGCCACTAATACTCTAATAATCTAAAACGACGCCGTTTTCGTTAAAC
TAATCTGTATTTTGTGGCGTTTTCTAT
Found at i:97513036 original size:158 final size:158
Alignment explanation
Indices: 97512716--97513042 Score: 362
Period size: 158 Copynumber: 2.1 Consensus size: 158
97512706 GGCATTTATT
* *
97512716 TAAAAAACGCCGCTAATCCCTATATACTCAACTAAAACGACGACGTGTACTATAAACTTGAATTA
1 TAAAAAACGCCGCAAATCCCTATATACTCAACTAAAACGACGACGTGTACCATAAACTTGAATTA
* * * *
97512781 TTTTGCGGCATTTTTGAAAGCGCCACTAATACTCGTATATACTAAAACGGCGCCGTTTTCGTTAA
66 TGTTGCGGCATTTTTAAAAACGCCACTAATACTCGTATATACTAAAACGACGCCGTTTTCGTTAA
* *
97512846 ACTAATCTGTATTTTGTGGCGTTTTCTA
131 ACTAATCTATATTTTGCGGCGTTTTCTA
* * * * *
97512874 T-AAAAACGCCGCAAATCCCCTATATATTGAACTAAAACGACGACGCT-T-CCAGTACACTTTAC
1 TAAAAAACGCCGCAAAT-CCCTATATACTCAACTAAAACGACGACG-TGTACCA-TAAACTTGAA
* *
97512936 TTCTGTTGCGGCATTTTTAAAAACGCCACTAGTACTC-TA-ATCAATCTAAAACGACGCCGTTTT
63 TTATGTTGCGGCATTTTTAAAAACGCCACTAATACTCGTATAT--A-CTAAAACGACGCCGTTTT
* * * * *
97512999 CTTTCAACT-ATACTATTTTTTGCGGTGTTTT-TT
125 CGTTAAACTAAT-CTATATTTTGCGGCGTTTTCTA
97513032 TAAAAAACGCC
1 TAAAAAACGCC
97513043 ACTAATCTCT
Statistics
Matches: 141, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
156 2 0.01
157 18 0.13
158 72 0.51
159 49 0.35
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (158 bp):
TAAAAAACGCCGCAAATCCCTATATACTCAACTAAAACGACGACGTGTACCATAAACTTGAATTA
TGTTGCGGCATTTTTAAAAACGCCACTAATACTCGTATATACTAAAACGACGCCGTTTTCGTTAA
ACTAATCTATATTTTGCGGCGTTTTCTA
Found at i:97514037 original size:14 final size:14
Alignment explanation
Indices: 97514017--97514060 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
97514007 TCCTACACCT
97514017 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
97514031 TATACCCTAAAC-A
1 TAAACCCTAAACTA
97514044 TAAACCCTAAACTA
1 TAAACCCTAAACTA
97514058 TAA
1 TAA
97514061 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:97514566 original size:41 final size:40
Alignment explanation
Indices: 97514520--97514611 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
97514510 TTTCCCCAAT
* *
97514520 GCGCCGCTAATAGTCAAGC-TATAGTGGCGTTTCTCATATAA
1 GCGCCGCTAATACTCAA-CATATAGCGGCGTTTC-CATATAA
* *
97514561 GCGCCGCTAATTCTCAACATATAGCGGCGTTTCCTTATAA
1 GCGCCGCTAATACTCAACATATAGCGGCGTTTCCATATAA
* *
97514601 GGGCCGATAAT
1 GCGCCGCTAAT
97514612 GCTCGTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 16 0.36
41 28 0.64
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (40 bp):
GCGCCGCTAATACTCAACATATAGCGGCGTTTCCATATAA
Found at i:97514630 original size:40 final size:38
Alignment explanation
Indices: 97514586--97514671 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 38
97514576 AACATATAGC
* *
97514586 GGCGTTTCCTTATAAGGGCCGATAATGCTCGTTTTTTAGT
1 GGCGTTTCCTT-GAAGCGCCGATAATGCTC-TTTTTTAGT
** *
97514626 GGCGTTGTTGTTGAAGCGCCGCTAATGCTCTTTTTTAGT
1 GGCGTT-TCCTTGAAGCGCCGATAATGCTCTTTTTTAGT
97514665 GGCGTTT
1 GGCGTTT
97514672 TTTGTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.03
39 15 0.38
40 21 0.52
41 3 0.08
ACGTcount: A:0.14, C:0.17, G:0.28, T:0.41
Consensus pattern (38 bp):
GGCGTTTCCTTGAAGCGCCGATAATGCTCTTTTTTAGT
Found at i:97514677 original size:40 final size:40
Alignment explanation
Indices: 97514603--97514690 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
97514593 CCTTATAAGG
* * *
97514603 GCCGATAATGCTCGTTTTTTAGTGGCGTTGTTGTTGAAGC
1 GCCGCTAATGCTCGTTTTTTAGTGGCGTTGTTGTTAAAAC
*
97514643 GCCGCTAATGCTC-TTTTTTAGTGGCGTTTTTTGTTAAAAC
1 GCCGCTAATGCTCGTTTTTTAGTGGCG-TTGTTGTTAAAAC
97514683 GCCGCTAA
1 GCCGCTAA
97514691 AAGCGCCGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.30
40 30 0.70
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (40 bp):
GCCGCTAATGCTCGTTTTTTAGTGGCGTTGTTGTTAAAAC
Found at i:97525495 original size:44 final size:44
Alignment explanation
Indices: 97525437--97526338 Score: 835
Period size: 44 Copynumber: 20.6 Consensus size: 44
97525427 ATAGATCACC
* * * *
97525437 GATAGCAGATTTGGCGTCTCTATATTATCAGAAAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * **
97525481 GATAATAGGTTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * * * * * *
97525525 AATAACAAATTTGGCGTCTCTATATTAACAAAAAGCA-AAC--C
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
97525566 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAT
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * *
97525610 GATAACAGGTTTGGCGTCTCTATATTGAT-AGAGAGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * *
97525654 AATAACAAATTTGGTGTCTCTATATTGA-CAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * *
97525698 GATGACAGATTTGGCATCTCTGTATTGAT-AGAGAGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * * * *
97525742 GATGACAGATTTGGCGTCTTTATATT-TCAGAAAGTAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * * *
97525785 GATAGCCGATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
** * *
97525829 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * **
97525873 GATAACAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
97525917 GATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
97525961 GATAGCAGATTTGGCATTTCTGTATTGA-CAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* **
97526005 GATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* * * *
97526049 GATAGCAGATTTGGTGTCTCTGTATTGA-CAAAAAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * *
97526093 GATAACAGATTTGTCGTCTCTGTATTGA-CAAAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* ** *
97526137 GATAACATATTTGTTGTC-CTGTATTGA-CAAAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * * *
97526180 GATAACAGATTTAGCGTTTCTATATTGA-CAGAGGGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAGCAGATCGAA
* * * * *
97526224 GATGACAGGTTTGGCATCTCTGTATTAACAGAGAACAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
* *
97526268 GATAACATATTTGGTGTCTCTGTATTGA-CAGAG-GACAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-ATCAGAGAG-CAGATCGAA
* * *
97526312 GATGACAGATTTGGCTTCTCCGTATTA
1 GATAACAGATTTGGCGTCTCTGTATTA
97526339 GGCAAGGAGT
Statistics
Matches: 712, Mismatches: 131, Indels: 31
0.81 0.15 0.04
Matches are distributed among these distances:
41 29 0.04
42 3 0.00
43 71 0.10
44 607 0.85
45 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTATTATCAGAGAGCAGATCGAA
Found at i:97525696 original size:88 final size:88
Alignment explanation
Indices: 97525437--97526337 Score: 961
Period size: 88 Copynumber: 10.3 Consensus size: 88
97525427 ATAGATCACC
* * * * * * *
97525437 GATAGCAGATTTGGCGTCTCTATATT-ATCAGAAAGTAGATCGAAGATAATAGGTTTGGCGTCTC
1 GATAACAGATTTGGCATCTCTGTATTGA-CAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
*
97525501 TGTATTGGCAGAGAGCAGATCGAA
65 TGTATTGACAGAGAGCAGATCGAA
* * * * * * * * * *
97525525 AATAACAAATTTGGCGTCTCTATATTAACAAAAAGCA-AAC--CGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * *
97525587 GTATTGTCAGAGAGCAAATCGAT
66 GTATTGACAGAGAGCAGATCGAA
* * * * * * * *
97525610 GATAACAGGTTTGGCGTCTCTATATTGATAGAGAGCAGATTGAAAATAACAAATTTGGTGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
97525675 ATATTGACAGAGAGCAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * *
97525698 GATGACAGATTTGGCATCTCTGTATTGATAGAGAGCAGATTGAAGATGACAGATTTGGCGTCTTT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * * * *
97525763 ATATT-TCAGAAAGTAGATCAAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * **
97525785 GATAGCCGATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
97525850 GTATTGTCAGAGAGCAGATCAAA
66 GTATTGACAGAGAGCAGATCGAA
* * * *
97525873 GATAACAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
97525938 GTATTGTCAGAGAGCAGATCAAA
66 GTATTGACAGAGAGCAGATCGAA
* * * *
97525961 GATAGCAGATTTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
*
97526026 GTATTGGCAGAGAGCAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* ** * * *
97526049 GATAGCAGATTTGGTGTCTCTGTATTGACAAAAAGCAGATCGAAGATAACAGATTTGTCGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* *
97526114 GTATTGACAAAGAGTAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* *** * * *
97526137 GATAACATATTTGTTGTC-CTGTATTGACAAAGAGCAGATCGAAGATAACAGATTTAGCGTTTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
* * *
97526201 ATATTGACAGAGGGCAGATTGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * * * *
97526224 GATGACAGGTTTGGCATCTCTGTATTAACAGAGAACAGATCGAAGATAACATATTTGGTGTCTCT
1 GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
97526289 GTATTGACAGAG-GACAGATCGAA
66 GTATTGACAGAGAG-CAGATCGAA
* * *
97526312 GATGACAGATTTGGCTTCTCCGTATT
1 GATAACAGATTTGGCATCTCTGTATT
97526338 AGGCAAGGAG
Statistics
Matches: 694, Mismatches: 112, Indels: 14
0.85 0.14 0.02
Matches are distributed among these distances:
85 68 0.10
86 1 0.00
87 146 0.21
88 478 0.69
89 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (88 bp):
GATAACAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
GTATTGACAGAGAGCAGATCGAA
Found at i:97527871 original size:20 final size:19
Alignment explanation
Indices: 97527833--97527874 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
97527823 TTTATTTTAC
97527833 TATAAATATTATGTATATA
1 TATAAATATTATGTATATA
97527852 TATAAATGATTTAT-TATATA
1 TATAAAT-A-TTATGTATATA
97527872 TAT
1 TAT
97527875 TATTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TATAAATATTATGTATATA
Found at i:97527952 original size:20 final size:21
Alignment explanation
Indices: 97527923--97527967 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
97527913 TAAGTTTTAT
97527923 TTATATATTTTA-TA-ATATA
1 TTATATATTTTACTATATATA
97527942 TTATATCATTTTACTATATATA
1 TTATAT-ATTTTACTATATATA
97527964 TTAT
1 TTAT
97527968 TTTTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATATATTTTACTATATATA
Found at i:97535770 original size:14 final size:15
Alignment explanation
Indices: 97535751--97535781 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
97535741 TATAATTTTC
97535751 TTAAAATATTAT-TT
1 TTAAAATATTATGTT
97535765 TTAAAATATTATGTT
1 TTAAAATATTATGTT
97535780 TT
1 TT
97535782 TAATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTAAAATATTATGTT
Found at i:97538174 original size:22 final size:22
Alignment explanation
Indices: 97538148--97538191 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
97538138 GAAAATGACC
*
97538148 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
97538170 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
97538192 GTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:97540828 original size:80 final size:80
Alignment explanation
Indices: 97540729--97540914 Score: 273
Period size: 80 Copynumber: 2.3 Consensus size: 80
97540719 TAGAGCATTC
* * * *
97540729 TTTCAATAGATTCAGTAGGTCTGGCTTGAAAGCGCATACGTTTTAGTAGATTCATTAGGCATGGC
1 TTTCAATAGATTCACTAGGTATGGCTTGAAAGCGCATACGTTTCAGTAGATTCACTAGGCATGGC
* *
97540794 TCGAAAGCGCATATG
66 TCGAAAGCACATACG
* * *
97540809 TTTCAATAGATTCACTAGGTATGGCTTGAAAGTGCATATGTTTCAGTAGATTCACTAGGTATGGC
1 TTTCAATAGATTCACTAGGTATGGCTTGAAAGCGCATACGTTTCAGTAGATTCACTAGGCATGGC
97540874 TCGAAAGCACATACG
66 TCGAAAGCACATACG
* *
97540889 TTTCAATAGATTCACTAAGTTTGGCT
1 TTTCAATAGATTCACTAGGTATGGCT
97540915 CGTCTAAGCA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 95 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (80 bp):
TTTCAATAGATTCACTAGGTATGGCTTGAAAGCGCATACGTTTCAGTAGATTCACTAGGCATGGC
TCGAAAGCACATACG
Found at i:97540914 original size:40 final size:40
Alignment explanation
Indices: 97540729--97540916 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 40
97540719 TAGAGCATTC
* * *
97540729 TTTCAATAGATTCAGTAGGTCTGGCTTGAAAGCGCATACG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* * * * *
97540769 TTTTAGTAGATTCATTAGGCATGGCTCGAAAGCGCATATG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* * *
97540809 TTTCAATAGATTCACTAGGTATGGCTTGAAAGTGCATATG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* *
97540849 TTTCAGTAGATTCACTAGGTATGGCTCGAAAGCACATACG
1 TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
* *
97540889 TTTCAATAGATTCACTAAGTTTGGCTCG
1 TTTCAATAGATTCACTAGGTATGGCTCG
97540917 TCTAAGCACC
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (40 bp):
TTTCAATAGATTCACTAGGTATGGCTCGAAAGCGCATACG
Found at i:97542291 original size:25 final size:27
Alignment explanation
Indices: 97542254--97542306 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
97542244 TCAAACATGC
97542254 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
97542280 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
97542306 A
1 A
97542307 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:97543834 original size:26 final size:26
Alignment explanation
Indices: 97543796--97543853 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
97543786 CATGAAATTC
97543796 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
97543822 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
97543848 TTATCA
1 TTATCA
97543854 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:97547336 original size:27 final size:27
Alignment explanation
Indices: 97547270--97547327 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
97547260 ACAATCATAC
*
97547270 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGTATAACAGTCATTTT
97547297 ATCACATAGGGGTATAACAGTCATTTT
1 ATCACATAGGGGTATAACAGTCATTTT
97547324 ATCA
1 ATCA
97547328 ATTGGGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGTATAACAGTCATTTT
Found at i:97548980 original size:36 final size:37
Alignment explanation
Indices: 97548938--97549036 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 37
97548928 TTTTTAACCT
* *
97548938 TCTTTTTTATTTAAACCTTAAACAAAGTCATCTAAT-C
1 TCTTTTTTATTTAAACCCTAAACAAA-CCATCTAATAC
* * * *
97548975 TTTTTTTTGTTTAAACCCTAAACAAACCTTTTAATAC
1 TCTTTTTTATTTAAACCCTAAACAAACCATCTAATAC
*
97549012 -CTTTTTTATTCAAACCCTAAACAAA
1 TCTTTTTTATTTAAACCCTAAACAAA
97549037 ATCCTCTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 28 0.54
37 24 0.46
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.42
Consensus pattern (37 bp):
TCTTTTTTATTTAAACCCTAAACAAACCATCTAATAC
Found at i:97553605 original size:17 final size:17
Alignment explanation
Indices: 97553574--97553631 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
97553564 TAATAGATTT
*
97553574 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
97553592 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
97553609 ATAATA-A-TTAT-AT-
1 AAAATATATTTATAATA
97553622 AAAATATATT
1 AAAATATATT
97553632 GGTTTAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:97553932 original size:3 final size:3
Alignment explanation
Indices: 97553924--97554147 Score: 51
Period size: 3 Copynumber: 72.3 Consensus size: 3
97553914 AAAAAATGAC
*
97553924 ATA ATA AT- ATA A-A ATA ATT ATA ATA TATA AT- ATGA A-A ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA -ATA
* *
97553968 TGTA AAA ATA ATA CATA AT- ATA TATAA ATA ATTA ATAA ATA TATA ATA
1 -ATA ATA ATA ATA -ATA ATA ATA -AT-A ATA A-TA AT-A ATA -ATA ATA
* * * *
97554016 CA-A GTA AAA AT- ATA ATA ATA ATA TATAA ATA ATG AT- GTA A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
* * * *
97554060 ATA ATA ATTT GTGA AAA ATA ATA TATA ATAA ATA ATA ATA A-C ATAA
1 ATA ATA A-TA AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA ATA AT-A
* * *
97554106 ATA ATA TATA A-A GTA ATT AT- ATA ATA TATA AT- ATA AAA ATA A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A
97554148 GGTTAAAAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 64
0.64 0.10 0.25
Matches are distributed among these distances:
2 21 0.13
3 94 0.58
4 46 0.28
5 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:97553947 original size:59 final size:59
Alignment explanation
Indices: 97553882--97554146 Score: 201
Period size: 59 Copynumber: 4.4 Consensus size: 59
97553872 ACTTAAATGA
97553882 TAATAATATATAGATA-AAAAATATA-ATAGTATAAAA-AATGACATAATA-ATATAAAATAAT
1 TAATAATATATA-ATATAAAAATATATAT-GTA-AAAATAAT-ACATAATATATAT-AAATAAT
*
97553942 T-ATAATATATAATATGAAAATATATATGTAAAAATAATACATAATATATATAAATAAT
1 TAATAATATATAATATAAAAATATATATGTAAAAATAATACATAATATATATAAATAAT
* * * * * *
97554000 TAATAAATATATAATACAAGTAAAAATATA-ATAATAATATATAAATAATGATGTA-AAATAA-
1 TAAT-AATATATAATATAA--AAATATATATGTAAAAATA-ATACATAAT-ATATATAAATAAT
* * * *
97554061 TAATAATTTGTGAA-A-AATAATATATA-ATAAATAATAATAACATAAATAATATATAAAGTAAT
1 TAATAATATAT-AATATAAAAATATATATGTAAA-AATAAT-ACAT-AAT-ATATATAAA-TAAT
97554123 TATATAATATATAATATAAAAATA
1 TA-ATAATATATAATATAAAAATA
97554147 AGGTTAAAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
57 13 0.08
58 30 0.18
59 39 0.23
60 24 0.14
61 16 0.10
62 26 0.16
63 12 0.07
64 6 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (59 bp):
TAATAATATATAATATAAAAATATATATGTAAAAATAATACATAATATATATAAATAAT
Found at i:97553964 original size:13 final size:12
Alignment explanation
Indices: 97553927--97554047 Score: 56
Period size: 13 Copynumber: 9.8 Consensus size: 12
97553917 AAATGACATA
97553927 ATAATATAAAAT
1 ATAATATAAAAT
* *
97553939 A-ATTATAATAT
1 ATAATATAAAAT
97553950 ATAATATGAAAAT
1 ATAATAT-AAAAT
*
97553963 ATATATGTAAAA-
1 ATA-ATATAAAAT
97553975 ATAATACATAATATAT
1 ATAAT--ATAA-A-AT
97553991 ATAA-ATAATTAAT
1 ATAATATAA--AAT
*
97554004 A-AATATATAAT
1 ATAATATAAAAT
*
97554015 ACAAGTA-AAAAT
1 ATAA-TATAAAAT
*
97554027 ATAATAATAATAT
1 ATAAT-ATAAAAT
97554040 ATAA-ATAA
1 ATAATATAA
97554048 TGATGTAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
11 20 0.24
12 20 0.24
13 34 0.40
14 6 0.07
15 1 0.01
16 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:97553996 original size:20 final size:19
Alignment explanation
Indices: 97553875--97554211 Score: 107
Period size: 20 Copynumber: 17.3 Consensus size: 19
97553865 AGTTAAAACT
*
97553875 TAAATGATAATAATATATAGA
1 TAAATAATAATAATATAT--A
*
97553896 TAAAAAAT-ATAATAGTATA
1 TAAATAATAATAATA-TATA
97553915 -AAA-AATGACATAATA-ATA
1 TAAATAAT-A-ATAATATATA
*
97553933 TAAAATAATTATAATATATA
1 T-AAATAATAATAATATATA
* *
97553953 -ATATGAA-AATATATATGTA
1 TAAAT-AATAATA-ATATATA
*
97553972 AAAATAATACATAATATATA
1 TAAATAATA-ATAATATATA
97553992 TAAATAATTAATAA-ATATA
1 TAAATAA-TAATAATATATA
* *
97554011 TAATACAAGTAAAAATATA-A
1 TAA-ATAA-TAATAATATATA
*
97554031 T-AATAATATATAAATAATGATG
1 TAAATAATA-AT-AAT-AT-ATA
* *
97554053 TAAAATAATAATAATTTGTGA
1 T-AAATAATAATAATATAT-A
*
97554074 AAAATAATATATAATA-A-A
1 TAAATAATA-ATAATATATA
97554092 T-AATAATAACATAAATAATATA
1 TAAATAAT-A-AT-AAT-ATATA
97554114 TAAAGTAATTATATAATATATA
1 TAAA-TAA-TA-ATAATATATA
* * **
97554136 -ATATAAAAATAAGGT-TA
1 TAAATAATAATAATATATA
* *
97554153 AAAATAA-AACAA-ATA-A
1 TAAATAATAATAATATATA
* * *
97554169 CAAATAA-AAAAATTTATA
1 TAAATAATAATAATATATA
* *
97554187 TATATAATAATAATATAAA
1 TAAATAATAATAATATATA
97554206 TAAATA
1 TAAATA
97554212 TATAGGGTTA
Statistics
Matches: 238, Mismatches: 40, Indels: 78
0.67 0.11 0.22
Matches are distributed among these distances:
16 12 0.05
17 19 0.08
18 36 0.15
19 46 0.19
20 63 0.26
21 30 0.13
22 11 0.05
23 7 0.03
24 13 0.05
25 1 0.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAATAATAATAATATATA
Found at i:97554008 original size:45 final size:46
Alignment explanation
Indices: 97553929--97554147 Score: 119
Period size: 49 Copynumber: 4.5 Consensus size: 46
97553919 ATGACATAAT
* *
97553929 AATATAA-AATAATTATAATATATAATATGA-AAATATAT-AT-GTAAA
1 AATATAATAATAA-TAT-ATAAATAAT-TAATAAATATATAATAGTAAA
97553974 AATAATACATAAT-ATATATAAATAATTAATAAATATATAATACAAGTAAA
1 AAT-ATA-ATAATAATATATAAATAATTAATAAATATATAAT---AGTAAA
* * * *
97554024 AATATAATAATAATATATAAATAATGATGTAAAATAATAATAATTTGTGAA
1 AATATAATAATAATATATAAATAATTA-AT-AAAT-AT-ATAA-TAGTAAA
* * * *
97554075 AA-ATAATATATAATAAAT-AATAATAACATAAATAATATATAAAGTAAT
1 AATATAATA-ATAATATATAAATAATTA-ATAAAT-ATATA-ATAGTAAA
* *
97554123 TATATAATATATAATATAAAAATAA
1 AATATAATA-ATAATATATAAATAA
97554148 GGTTAAAAAT
Statistics
Matches: 138, Mismatches: 17, Indels: 33
0.73 0.09 0.18
Matches are distributed among these distances:
44 2 0.01
45 19 0.14
46 8 0.06
47 2 0.01
48 15 0.11
49 39 0.28
50 28 0.20
51 18 0.13
52 2 0.01
53 4 0.03
54 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (46 bp):
AATATAATAATAATATATAAATAATTAATAAATATATAATAGTAAA
Found at i:97554036 original size:58 final size:57
Alignment explanation
Indices: 97553884--97554143 Score: 149
Period size: 58 Copynumber: 4.3 Consensus size: 57
97553874 TTAAATGATA
* *
97553884 ATAATATATAGATAAAAAAT-ATAATAGTATAAAA-AATGACATAATAATATAAAATAATT
1 ATAATATATA-ATAGAAAATAAAAATA-TA-AAAATAAT-ACATAATAATATAAAATAATT
* * *
97553943 ATAATATATAATATGAAAATATATATGTAAAAATAATACATAAT-ATATATAAATAATT
1 ATAATATATAATA-GAAAATAAAAATATAAAAATAATACATAATAATATA-AAATAATT
* * * * *
97554001 AATAAATATATAATA-CAAGTAAAAATATAATAATAATATATAAATAATGATGTAAAATAATA
1 -AT-AATATATAATAGAAAATAAAAATATAAAAATAATACAT-AATAAT-A--TAAAATAATT
* *
97554063 ATAAT-T-T-GT-GAAAAATAATATATAATAAATAATAATAACATAAATAATATATAAAGTAATT
1 ATAATATATAATAG-AAAATAA-AAAT-ATAAA-AATAAT-ACAT-AATAATATA-AAA-TAA-T
97554124 AT
57 -T
*
97554126 ATAATATATAATATAAAA
1 ATAATATATAATAGAAAA
97554144 ATAAGGTTAA
Statistics
Matches: 154, Mismatches: 22, Indels: 43
0.70 0.10 0.20
Matches are distributed among these distances:
57 6 0.04
58 47 0.31
59 31 0.20
60 25 0.16
61 13 0.08
62 18 0.12
63 7 0.05
64 1 0.01
65 1 0.01
66 5 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (57 bp):
ATAATATATAATAGAAAATAAAAATATAAAAATAATACATAATAATATAAAATAATT
Found at i:97554048 original size:17 final size:17
Alignment explanation
Indices: 97553881--97554147 Score: 87
Period size: 17 Copynumber: 15.2 Consensus size: 17
97553871 AACTTAAATG
*
97553881 ATAATAATATATAGATAA
1 ATAATAATA-ATATATAA
*
97553899 AAAAT-ATAATAGTATAA
1 ATAATAATAATA-TATAA
*
97553916 AAAATGACATAATAATATAAA
1 ATAAT-A-ATAAT-ATAT-AA
*
97553937 ATAATTATAATATATAA
1 ATAATAATAATATATAA
*
97553954 TATGAA-AATATATATGTAA
1 -AT-AATAATA-ATATATAA
*
97553973 A-AATAATACATA-ATAT
1 ATAATAATA-ATATATAA
97553989 AT-ATAAATAAT-TAATAA
1 ATAAT-AATAATAT-ATAA
*
97554006 ATATATAATACA-AGTAAAA
1 ATA-ATAATA-ATA-TATAA
*
97554025 AT-ATAATAATA-ATAT
1 ATAATAATAATATATAA
* *
97554040 ATAAATAATGATGTA-AA
1 AT-AATAATAATATATAA
* *
97554057 ATAATAATAATTTGTGAA
1 ATAATAATAATATAT-AA
97554075 A-AATAAT-ATATAATAA
1 ATAATAATAATAT-ATAA
*
97554091 ATAATAAT-A-ACATAA
1 ATAATAATAATATATAA
*
97554106 ATAATATATAA-AGTAATTAT
1 ATAATA-ATAATA-T-A-TAA
*
97554126 ATAATATATAATATAAAA
1 ATAATA-ATAATATATAA
97554144 ATAA
1 ATAA
97554148 GGTTAAAAAT
Statistics
Matches: 190, Mismatches: 26, Indels: 66
0.67 0.09 0.23
Matches are distributed among these distances:
15 14 0.07
16 31 0.16
17 63 0.33
18 27 0.14
19 24 0.13
20 23 0.12
21 8 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
ATAATAATAATATATAA
Found at i:97554112 original size:27 final size:27
Alignment explanation
Indices: 97553977--97554147 Score: 99
Period size: 27 Copynumber: 6.2 Consensus size: 27
97553967 ATGTAAAAAT
97553977 AATACATAATATATATAAATAAT-TAATA
1 AATA-ATAATATA-ATAAATAATATAATA
*
97554005 AATATATAATACAAGTAAA-AATATAAT-
1 AATA-ATAATATAA-TAAATAATATAATA
* * *
97554032 AATAAT-ATATAA-ATAATGATGTAAAA
1 AATAATAATATAATA-AATAATATAATA
*
97554058 TAATAATAATTTGTGAA-AAATAATATATAATA
1 -AATAATAA--TAT-AATAAAT-A-ATATAATA
97554090 AATAATAATA-ACATAAATAATAT-ATA
1 AATAATAATATA-ATAAATAATATAATA
* *
97554116 AAGTAATTATATAATATATAATATAA-A
1 AA-TAATAATATAATAAATAATATAATA
97554143 AATAA
1 AATAA
97554148 GGTTAAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 10 0.09
26 10 0.09
27 39 0.35
28 24 0.21
29 5 0.04
30 5 0.04
31 11 0.10
32 6 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
AATAATAATATAATAAATAATATAATA
Found at i:97554137 original size:15 final size:15
Alignment explanation
Indices: 97553995--97554137 Score: 56
Period size: 14 Copynumber: 9.8 Consensus size: 15
97553985 ATATATATAA
* *
97553995 ATAATTAATAAATAT
1 ATAATAAATAATTAT
**
97554010 ATAATACAAGTAAAAAT
1 ATAATA-AA-TAATTAT
97554027 ATAAT-AATAA-TAT
1 ATAATAAATAATTAT
* *
97554040 ATAA-ATAATGATGTAAA
1 ATAATA-AATAAT-T-AT
97554057 ATAAT-AATAATT-T
1 ATAATAAATAATTAT
*
97554070 GTGAA-AAATAA-TAT
1 AT-AATAAATAATTAT
*
97554084 ATAATAAATAATAAT
1 ATAATAAATAATTAT
97554099 A-ACATAAATAA-TAT
1 ATA-ATAAATAATTAT
*
97554113 AT-A-AAGTAATTAT
1 ATAATAAATAATTAT
*
97554126 ATAATATATAAT
1 ATAATAAATAAT
97554138 ATAAAAATAA
Statistics
Matches: 96, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
12 5 0.05
13 16 0.17
14 27 0.28
15 24 0.25
16 8 0.08
17 16 0.17
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (15 bp):
ATAATAAATAATTAT
Found at i:97554420 original size:30 final size:31
Alignment explanation
Indices: 97554380--97554440 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
97554370 ATAGCTATTG
**
97554380 TAGGGACTAAATCA-AAACTGCAACAAAATAT
1 TAGGGACTAAATCATAAA-TAAAACAAAATAT
97554411 TAGGG-CTAAATCATAAATAAAACAAAATAT
1 TAGGGACTAAATCATAAATAAAACAAAATAT
97554441 AATTGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.21
Consensus pattern (31 bp):
TAGGGACTAAATCATAAATAAAACAAAATAT
Found at i:97554757 original size:9 final size:9
Alignment explanation
Indices: 97554745--97554772 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
97554735 GCAGTACCTG
97554745 CACACGCGC
1 CACACGCGC
97554754 CACACGCGC
1 CACACGCGC
97554763 CACACGCGC
1 CACACGCGC
97554772 C
1 C
97554773 GTCGTACACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.57, G:0.21, T:0.00
Consensus pattern (9 bp):
CACACGCGC
Found at i:97558497 original size:32 final size:32
Alignment explanation
Indices: 97558445--97558525 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
97558435 TGAAATTAGT
* *
97558445 TTGTTAGATTTTAAAATTATTATGTTTTAAAG-
1 TTGTTAGATATTGAAATTATTATGTTTT-AAGC
*
97558477 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATGTTTTAAGC
*
97558509 TTGTTGGATATTGAAAT
1 TTGTTAGATATTGAAAT
97558526 GATTGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 3 0.07
32 40 0.93
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (32 bp):
TTGTTAGATATTGAAATTATTATGTTTTAAGC
Found at i:97563030 original size:21 final size:19
Alignment explanation
Indices: 97562993--97563038 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
97562983 ACCCAGAATG
97562993 AAATAAAATAACAATAAAA
1 AAATAAAATAACAATAAAA
*
97563012 AAATAAATATAACCAATAACA
1 AAATAAA-ATAA-CAATAAAA
97563033 AAATAA
1 AAATAA
97563039 TTACTCACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAATAACAATAAAA
Found at i:97563683 original size:11 final size:11
Alignment explanation
Indices: 97563664--97563709 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
97563654 GAAGATATTA
97563664 TTTTATTTTAT
1 TTTTATTTTAT
*
97563675 TTTTGTTTT-T
1 TTTTATTTTAT
*
97563685 ATTTA-TTTAT
1 TTTTATTTTAT
97563695 TATTTATTTTAT
1 T-TTTATTTTAT
97563707 TTT
1 TTT
97563710 ATTAAGTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
9 3 0.11
10 5 0.18
11 14 0.50
12 6 0.21
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:97563838 original size:36 final size:36
Alignment explanation
Indices: 97563796--97563869 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
97563786 TACTCTTGTA
97563796 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
1 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
97563832 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
1 TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
97563868 TT
1 TT
97563870 AGAAGATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (36 bp):
TTCCTACTTCAATTTGGAATTGGATTATTCTCTCTT
Found at i:97563888 original size:5 final size:5
Alignment explanation
Indices: 97563878--97563929 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
97563868 TTAGAAGATA
* *
97563878 TTATT TTATT TTATT TT-TGT TTTTAT TTATT TTTTAT TTATT TTATT
1 TTATT TTATT TTATT TTAT-T TTAT-T TTATT TTAT-T TTATT TTATT
97563925 TTATT
1 TTATT
97563930 AAATTAGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 1 0.03
5 30 0.75
6 9 0.22
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:97563900 original size:11 final size:10
Alignment explanation
Indices: 97563881--97563929 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
97563871 GAAGATATTA
97563881 TTTTATTTTAT
1 TTTTATTTT-T
*
97563892 TTTTGTTTTT
1 TTTTATTTTT
*
97563902 ATTTATTTTT
1 TTTTATTTTT
*
97563912 TATTTATTTTA
1 T-TTTATTTTT
97563923 TTTTATT
1 TTTTATT
97563930 AAATTAGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:97563906 original size:16 final size:16
Alignment explanation
Indices: 97563881--97563926 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
97563871 GAAGATATTA
97563881 TTTTATTTTATTTTTGT
1 TTTTATTTTATTTTT-T
97563898 TTTTA-TTTATTTTTT
1 TTTTATTTTATTTTTT
*
97563913 ATTTATTTTATTTT
1 TTTTATTTTATTTT
97563927 ATTAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTATTTTATTTTTT
Found at i:97564028 original size:217 final size:216
Alignment explanation
Indices: 97563653--97564069 Score: 798
Period size: 217 Copynumber: 1.9 Consensus size: 216
97563643 GCCAAAAATA
*
97563653 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAGTT
1 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
97563718 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
66 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
97563783 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTTCCTACTTCAATTTG
131 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTTCCTACTTCAA-TTG
97563848 GAATTGGATTATTCTCTCTTTT
195 GAATTGGATTATTCTCTCTTTT
*
97563870 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTTTTATTTATTTTATTTTATTAAATT
1 AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
97563935 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
66 AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
*
97564000 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTTCCTACTTCCATTGG
131 AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTTCCTACTTCAATTGG
97564065 AATTG
196 AATTG
97564070 AATTTTTTTT
Statistics
Matches: 197, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
216 9 0.05
217 188 0.95
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.52
Consensus pattern (216 bp):
AGAAGATATTATTTTATTTTATTTTTGTTTTTATTTATTTATTATTTATTTTATTTTATTAAATT
AGTTAGGCTATTTTTAGTAAACCCCATGTATATAAATAGAGGTATTTTGTTCTTTGAAAAGGGTC
AATTACTCTTGTATTCCTACTTCAATTTGGAATTGGATTATTCTCTCTTTTCCTACTTCAATTGG
AATTGGATTATTCTCTCTTTT
Found at i:97564520 original size:3 final size:3
Alignment explanation
Indices: 97564492--97564619 Score: 62
Period size: 3 Copynumber: 43.3 Consensus size: 3
97564482 CTGTTACTAC
* * * * * * *
97564492 TAT TTT TAT TAG TAT TGT TCT TAT TAT TAT TAT TAC CAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
97564540 T-T TAT CAC TAC TGT CAT TAT TAT T-C TAG TAT TAT TAG TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
97564586 TAT TAT TAT TAC TAC TAT TTT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
97564620 TTTTTTTAAA
Statistics
Matches: 91, Mismatches: 32, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
2 3 0.03
3 88 0.97
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:97564595 original size:15 final size:15
Alignment explanation
Indices: 97564463--97564611 Score: 57
Period size: 15 Copynumber: 9.7 Consensus size: 15
97564453 TTTTTTTAGC
* *
97564463 ATTATTATTTCTGTT
1 ATTATTATTACTATT
* * *
97564478 ATTACTGTTACTACT
1 ATTATTATTACTATT
* *
97564493 ATTTTTATTAGTATT
1 ATTATTATTACTATT
* * *
97564508 GTTCTTATTATTATT
1 ATTATTATTACTATT
** * *
97564523 ATTACCACTATTATT
1 ATTATTATTACTATT
*
97564538 ATT-TTATCACTACTGT
1 ATTATTATTACTA-T-T
*
97564554 CATTATTATTCTAGTATT
1 -ATTATTA-T-TACTATT
* * *
97564572 ATTAGTATTATTAGT
1 ATTATTATTACTATT
*
97564587 ATTATTATTACTACT
1 ATTATTATTACTATT
*
97564602 ATTTTTATTA
1 ATTATTATTA
97564612 TCATTATTTT
Statistics
Matches: 96, Mismatches: 32, Indels: 12
0.69 0.23 0.09
Matches are distributed among these distances:
14 4 0.04
15 72 0.75
16 2 0.02
17 9 0.09
18 4 0.04
19 2 0.02
20 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTATTATTACTATT
Found at i:97564769 original size:15 final size:14
Alignment explanation
Indices: 97564760--97564798 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
97564750 TTTATTCTTG
97564760 TCTTCATTATTATTA
1 TCTT-ATTATTATTA
97564775 TCTTATTATATATTA
1 TCTTATTAT-TATTA
*
97564790 TCCTATTAT
1 TCTTATTAT
97564799 GTACCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (14 bp):
TCTTATTATTATTA
Found at i:97564773 original size:23 final size:20
Alignment explanation
Indices: 97564710--97564755 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
97564700 TAGAATTTCC
97564710 TTTA-TTATTTCATTAATTAT
1 TTTATTTATTTCATT-ATTAT
*
97564730 TTTATTTATTTCATTTTTAT
1 TTTATTTATTTCATTATTAT
97564750 TTTATT
1 TTTATT
97564756 CTTGTCTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTTATTTCATTATTAT
Found at i:97566589 original size:19 final size:20
Alignment explanation
Indices: 97566546--97566590 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
97566536 CGTCTCCTTT
*
97566546 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCATGCATA
*
97566565 TACATTGCATTTCAT-CATA
1 TGCATTGCATTTCATGCATA
97566584 TGCATTG
1 TGCATTG
97566591 AATGTCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (20 bp):
TGCATTGCATTTCATGCATA
Found at i:97568528 original size:19 final size:19
Alignment explanation
Indices: 97568504--97568540 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
97568494 TTTTGAGAAA
97568504 ATATTCTTTTATTCTTTAT
1 ATATTCTTTTATTCTTTAT
*
97568523 ATATTCTTTTGTTCTTTA
1 ATATTCTTTTATTCTTTA
97568541 GACTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
ATATTCTTTTATTCTTTAT
Found at i:97571540 original size:134 final size:134
Alignment explanation
Indices: 97571402--97571709 Score: 474
Period size: 134 Copynumber: 2.3 Consensus size: 134
97571392 CAAACTGAAT
* *
97571402 ATTGTAGATTTTATCTCCCTGAGATAGAAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
1 ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
* *
97571467 AAAGTAGCAGGGGAGCAGATTTAAGTCACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
66 AAAGTAGCAGGGGAGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
97571532 AAAG
131 AAAG
* *
97571536 ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCATATCAAAGACGATAAATCTTATCTTCCC
1 ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
* * * *
97571601 GAGGTAGCAGGGGAGTAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGTT
66 AAAGTAGCAGGGGAGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
*
97571666 GAAG
131 AAAG
* * *
97571670 ATTGTATATCATATCTCCTTGA-AGTAGCAGTGGAGCAGAT
1 ATTGTAGATCTTATCTCCCTGAGA-TAGCAGTGGAGCAGAT
97571710 TGAAGATGGT
Statistics
Matches: 158, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
133 1 0.01
134 157 0.99
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (134 bp):
ATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCC
AAAGTAGCAGGGGAGCAGATTTAAGCCACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGTAGGCT
AAAG
Found at i:97572077 original size:89 final size:88
Alignment explanation
Indices: 97571861--97572077 Score: 211
Period size: 89 Copynumber: 2.4 Consensus size: 88
97571851 AAGATTTTAT
* * * ** * *
97571861 CTCCCTAAAGTTGCAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTTTGAAGTTGTAGTAGA
1 CTCCCTAAAGTTACAGCGGAGTAGATCGAAGCTA-CAAACCTTATCTCCCTGAAGTTGCAATAGA
* * *
97571926 GCAGGTTGAAGTAGCAAGTCTTAT
65 GCAAGTTGAAGTAGCAACTCTTAC
* * * * *
97571950 CTCCCTGAAGTTACAGTGGAGCA-AACTGAAGACCACAAACCTTATCTCCCTGAAGTTGCAATAG
1 CTCCCTAAAGTTACAGCGGAGTAGATC-GAAG-CTACAAACCTTATCTCCCTGAAGTTGCAATAG
* *
97572014 AGCAAGTTGAAATTATCAACTCTTAC
64 AGCAAGTTG-AAGTAGCAACTCTTAC
* * *
97572040 CTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTACAAA
1 CTCCCTAAAGTTACAGCGGAGTAGATCGAAGCTACAAA
97572078 TCTCTTTTCC
Statistics
Matches: 99, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
88 2 0.02
89 61 0.62
90 34 0.34
91 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (88 bp):
CTCCCTAAAGTTACAGCGGAGTAGATCGAAGCTACAAACCTTATCTCCCTGAAGTTGCAATAGAG
CAAGTTGAAGTAGCAACTCTTAC
Found at i:97572490 original size:4 final size:5
Alignment explanation
Indices: 97572471--97572505 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
97572461 TAGGAAGATA
97572471 TTATT TTATT TT-TAT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT
97572506 AAATTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.04
5 26 0.93
6 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:97572505 original size:15 final size:15
Alignment explanation
Indices: 97572471--97572501 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
97572461 TAGGAAGATA
97572471 TTATTTTATTTTTAT
1 TTATTTTATTTTTAT
97572486 TTATTTTA-TTTTAT
1 TTATTTTATTTTTAT
97572500 TT
1 TT
97572502 TATTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTATTTTTAT
Found at i:97573022 original size:3 final size:3
Alignment explanation
Indices: 97573009--97573171 Score: 66
Period size: 3 Copynumber: 54.3 Consensus size: 3
97572999 TTGAGTTTTA
* *
97573009 TAT TCAT TAT TAT TA- TATT TATT TAT T-T TTT TAG TAT TAT TAT T-T
1 TAT T-AT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
97573054 ATGT TAT TAC TGT TAC TACT AAT T-T TAT TAG TAT TGT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
97573100 TAT TAC CAC TAT TAT TAT TAT TAT TA- TAG TAT TGT TAG TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
97573147 TAC TAT TGT TTT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
97573172 TTTTTTAAAA
Statistics
Matches: 117, Mismatches: 34, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
2 9 0.08
3 97 0.83
4 11 0.09
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:97573286 original size:20 final size:19
Alignment explanation
Indices: 97573261--97573306 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
97573251 TAGAATTTCC
97573261 TTTATTATTTCATTAATTAT
1 TTTATTATTTCATT-ATTAT
*
97573281 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTATTAT
97573301 TTTATT
1 TTTATT
97573307 CTTGTCCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATTTCATTATTAT
Found at i:97578324 original size:43 final size:43
Alignment explanation
Indices: 97578235--97578341 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
97578225 AACACTAAGG
** **
97578235 GACACACGGCCGTGTAACAAGACTGTGTGTCACACACGGTTAA
1 GACACACGGCCGTGTAACAAGACCATGTGTCACACACGACTAA
* *
97578278 GACACACGGCCGTGTAACAAGACCATGTGTCACATACGACTGA
1 GACACACGGCCGTGTAACAAGACCATGTGTCACACACGACTAA
97578321 GACACAC-GCCTGTGTAGACAA
1 GACACACGGCC-GTGTA-ACAA
97578342 AAATAGGCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.05
43 49 0.88
44 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (43 bp):
GACACACGGCCGTGTAACAAGACCATGTGTCACACACGACTAA
Found at i:97579309 original size:40 final size:40
Alignment explanation
Indices: 97579210--97579400 Score: 267
Period size: 40 Copynumber: 4.7 Consensus size: 40
97579200 ACTCGAATTC
* * **
97579210 TCGCACACTAAGTGCCAATACAGAGCCGGAGCTAT-TTTAA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAAA
97579250 TCTTGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TC--GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* ** *
97579292 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAG
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
*
97579332 TCGCACACTAAGTGCAATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
97579372 TCGCACACTAAGTGCCATACATAGCCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
97579401 TTGTCATTAA
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 99 0.74
41 16 0.12
42 19 0.14
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
Found at i:97579352 original size:80 final size:80
Alignment explanation
Indices: 97579210--97579398 Score: 299
Period size: 80 Copynumber: 2.3 Consensus size: 80
97579200 ACTCGAATTC
* * *
97579210 TCGCACACTAAGTGCCAATACAGAGCCGGAGCTATTTTAATCTTGCACACTAAGTGCCATACATA
1 TCGCACACTAAGTGCC-ATACATAGCCGGAGCTATTTGAATC-TGCACACTAAGTGCAATACATA
97579275 GCCGAAGCTATCTCAAA
64 GCCGAAGCTATCTCAAA
* *
97579292 TCGCACACTAAGTGCCATACATAGCCGTAGCTATCTTGAGTC-GCACACTAAGTGCAATACATAG
1 TCGCACACTAAGTGCCATACATAGCCGGAGCTAT-TTGAATCTGCACACTAAGTGCAATACATAG
97579356 CCGAAGCTATCTCAAA
65 CCGAAGCTATCTCAAA
97579372 TCGCACACTAAGTGCCATACATAGCCG
1 TCGCACACTAAGTGCCATACATAGCCG
97579399 AATTGTCATT
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
80 64 0.63
81 16 0.16
82 21 0.21
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (80 bp):
TCGCACACTAAGTGCCATACATAGCCGGAGCTATTTGAATCTGCACACTAAGTGCAATACATAGC
CGAAGCTATCTCAAA
Found at i:97580192 original size:12 final size:12
Alignment explanation
Indices: 97580175--97580202 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
97580165 GTTTTGTTTT
97580175 ATTTTAATTATC
1 ATTTTAATTATC
97580187 ATTTTAATTATC
1 ATTTTAATTATC
97580199 ATTT
1 ATTT
97580203 ACAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTTAATTATC
Found at i:97583894 original size:19 final size:21
Alignment explanation
Indices: 97583870--97583912 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
97583860 TTTAACCAAT
*
97583870 TAATTTTTAT-AATTA-ATTA
1 TAATTTTTATCAATAATATTA
97583889 TAATTTTTATCAATAATATTA
1 TAATTTTTATCAATAATATTA
97583910 TAA
1 TAA
97583913 AAATAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTTTATCAATAATATTA
Found at i:97603116 original size:22 final size:21
Alignment explanation
Indices: 97603091--97603146 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
97603081 ATATTAGAAT
97603091 GAATTATAATAAATAACTAAAG
1 GAATTATAATAAAT-ACTAAAG
*
97603113 GAATAATATAA-AAATACTAATG
1 GAAT--TATAATAAATACTAAAG
*
97603135 TAATTATAATAA
1 GAATTATAATAA
97603147 CAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 13 0.45
23 4 0.14
24 5 0.17
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
GAATTATAATAAATACTAAAG
Found at i:97603222 original size:13 final size:13
Alignment explanation
Indices: 97603204--97603228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97603194 AAGGTAACTT
97603204 AAAATAAAAAATA
1 AAAATAAAAAATA
97603217 AAAATAAAAAAT
1 AAAATAAAAAAT
97603229 GCATAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:97603452 original size:61 final size:60
Alignment explanation
Indices: 97603379--97603577 Score: 252
Period size: 61 Copynumber: 3.4 Consensus size: 60
97603369 AGGCAACAAT
97603379 AAATAAATAAGTAAATAATAGTAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
1 AAATAAATAAGTAAATAATA-TAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
* * *
97603440 AAATAAATAAGTAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGCAATAAA
1 AAATAAATAAGTAAATAATATAAAATA-AAAAAATTCATGAAAGACTGAAATTGCAATAAA
* * * *
97603501 AAATAAATAAG----TAA-AT--AATAAAAAAATT-ATGAAAGTCTGGAGTTGCAATAAT
1 AAATAAATAAGTAAATAATATAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
*
97603553 AAATAAATAAGTAAATAATAAAAAA
1 AAATAAATAAGTAAATAATATAAAA
97603578 ATCATGAAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
52 30 0.25
53 8 0.07
54 4 0.03
56 4 0.03
57 4 0.03
59 2 0.02
60 6 0.05
61 62 0.52
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.24
Consensus pattern (60 bp):
AAATAAATAAGTAAATAATATAAAATAAAAAAATTCATGAAAGACTGAAATTGCAATAAA
Found at i:97603609 original size:104 final size:102
Alignment explanation
Indices: 97603445--97603636 Score: 255
Period size: 100 Copynumber: 1.9 Consensus size: 102
97603435 ATAAAAAATA
*
97603445 AATAAGTAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGCAATAAAAAATAAATA
1 AATAAATAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTG---T-AAAAATAAATA
*
97603510 AGTAAATAAT-AAAAAAATTATGAAAGTCTGGAGTTGCAAT
62 AGTAAATAATAAAAAAAATCATGAAAGTCTGGAGTTGCAAT
* * * * *
97603550 AATAAATAAATAAGTAAATAATA-AAAAAA-TCATGAAATGCTGAAGTTGTAATAATAAATAAGT
1 AATAAATAAATAA-TAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGTAAAAATAAATAAGT
97603613 AAATAATAAAAAAAATCATGAAAG
65 AAATAATAAAAAAAATCATGAAAG
97603637 GCTAAAATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
100 20 0.26
101 16 0.21
104 16 0.21
105 18 0.23
106 8 0.10
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.24
Consensus pattern (102 bp):
AATAAATAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGTAAAAATAAATAAGTA
AATAATAAAAAAAATCATGAAAGTCTGGAGTTGCAAT
Found at i:97603655 original size:52 final size:52
Alignment explanation
Indices: 97603440--97603656 Score: 232
Period size: 52 Copynumber: 4.2 Consensus size: 52
97603430 TTGCAATAAA
*
97603440 AAATAAATAAGTAAATAA-TAAAAAATATAAAAAATTCATGAAAGGCTAAAATTG
1 AAATAAATAA-TAAATAAGTAAATAATA-AAAAAA-TCATGAAAGGCTAAAATTG
* * * * ** *
97603494 CAATAAAAAATAAATAAGTAAATAATAAAAAAATTATGAAAGTCTGGAGTTG
1 AAATAAATAATAAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATTG
* * * *
97603546 CAAT-AATAAATAAATAAGTAAATAATAAAAAAATCATGAAATGCTGAAGTTG
1 AAATAAAT-AATAAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATTG
97603598 ---T-AATAATAAATAAGTAAATAATAAAAAAAATCATGAAAGGCTAAAATT-
1 AAATAAATAATAAATAAGTAAATAAT-AAAAAAATCATGAAAGGCTAAAATTG
97603646 AAATAAATAAT
1 AAATAAATAAT
97603657 GGACTGAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
48 18 0.13
49 26 0.19
51 3 0.02
52 64 0.46
53 13 0.09
54 16 0.11
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (52 bp):
AAATAAATAATAAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATTG
Found at i:97603655 original size:104 final size:102
Alignment explanation
Indices: 97603440--97603656 Score: 228
Period size: 100 Copynumber: 2.1 Consensus size: 102
97603430 TTGCAATAAA
*
97603440 AAATAAATAAGTAAATAATAAAAAATATAAAAAATTCATGAAAGGCTAAAATTGCAATAAAAAAT
1 AAATAAATAA-TAAATAATAAAAAATATAAAAAAATCATGAAAGGCTAAAATTG--ATAAAAAAT
* * ** *
97603505 AAATAAGTAAATAATAAAAAAATTATGAAAGTCTGGAGTT
63 AAATAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATT
* * * * * *
97603545 GCAAT-AATAAATAAATAAGT-AAATA-ATAAAAAAATCATGAAATGCTGAAGTTG-T-AATAAT
1 -AAATAAAT-AATAAATAA-TAAAAAATATAAAAAAATCATGAAAGGCTAAAATTGATAAAAAAT
97603605 AAATAAGTAAATAATAAAAAAAATCATGAAAGGCTAAAATT
63 AAATAAGTAAATAAT-AAAAAAATCATGAAAGGCTAAAATT
97603646 AAATAAATAAT
1 AAATAAATAAT
97603657 GGACTGAATC
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
100 26 0.28
101 24 0.26
104 24 0.26
105 14 0.15
106 6 0.06
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (102 bp):
AAATAAATAATAAATAATAAAAAATATAAAAAAATCATGAAAGGCTAAAATTGATAAAAAATAAA
TAAGTAAATAATAAAAAAATCATGAAAGGCTAAAATT
Found at i:97604770 original size:11 final size:11
Alignment explanation
Indices: 97604754--97604780 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
97604744 ACGGTGGGAA
97604754 GAGGCGCTCCC
1 GAGGCGCTCCC
97604765 GAGGCGCTCCC
1 GAGGCGCTCCC
97604776 GAGGC
1 GAGGC
97604781 ATCAAACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.41, G:0.41, T:0.07
Consensus pattern (11 bp):
GAGGCGCTCCC
Found at i:97632514 original size:21 final size:21
Alignment explanation
Indices: 97632444--97632515 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
97632434 TTTTTTGAGC
*
97632444 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGGGT
* * * *
97632465 TTTTGTTCAGCTCTTATGAGCT
1 TTCTGTTTAACTCTTATG-GGT
97632487 TT-TGTTTAACTCTTATGGGT
1 TTCTGTTTAACTCTTATGGGT
97632507 TTCTGTTTA
1 TTCTGTTTA
97632516 GCATTTATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.14, C:0.15, G:0.18, T:0.53
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGGGT
Found at i:97632524 original size:42 final size:42
Alignment explanation
Indices: 97632379--97632509 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
97632369 TCATGTTTAC
* * *
97632379 TTTCCGTTTAGCTCTTATGAGCTTCTGTTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTCTG-TTTAACTCTTATGGG
* * * * *
97632422 TTTCCCTTCCGCTTTTTTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTTAACTCTTATGGG
** *
97632464 TTTTTGTTCAGCTCTTATGAGCTTTTGTTTAACTCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTTAACTCTTATGGG
97632506 TTTC
1 TTTC
97632510 TGTTTAGCAT
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 49 0.69
43 22 0.31
ACGTcount: A:0.14, C:0.20, G:0.17, T:0.50
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTATGAGCTTCTGTTTAACTCTTATGGG
Found at i:97634682 original size:44 final size:45
Alignment explanation
Indices: 97634594--97634720 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 45
97634584 AGAACAGAAG
* *
97634594 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAA
*
97634640 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAA
* ** * * *
97634684 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
97634721 CAGGATATTG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 36 0.52
45 1 0.01
46 32 0.46
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAA
Found at i:97643583 original size:62 final size:62
Alignment explanation
Indices: 97643486--97643607 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 62
97643476 AAACCGATAG
* * * *
97643486 CATTCGCAAACTTTGAAATACATAGAAAATTTTTCCAACATTTCAGGGTCATACGCCCGTAA
1 CATTCGCAAACTTTGAAATACATAAAAAAATTTTCCAACATTTCAGGGTCACACACCCGTAA
* *
97643548 CATTCGTAAACTTTGAAATACATAAAAAAATTTTCCAACATTTTAGGGTCACACACCCGT
1 CATTCGCAAACTTTGAAATACATAAAAAAATTTTCCAACATTTCAGGGTCACACACCCGT
97643608 GTGAACAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (62 bp):
CATTCGCAAACTTTGAAATACATAAAAAAATTTTCCAACATTTCAGGGTCACACACCCGTAA
Found at i:97644965 original size:43 final size:43
Alignment explanation
Indices: 97644900--97645072 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
97644890 AGCTCATACA
* * *
97644900 ATGCC-ATATCCCAGATATGGTCTTACACGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
97644942 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ACATATCG
* * * * *
97644985 ATGTCAATGTCCTAGACATGGTCTTACATGTAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
97645028 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
97645071 AT
1 AT
97645073 AACCTCATGC
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
42 6 0.06
43 95 0.92
44 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:97647062 original size:21 final size:21
Alignment explanation
Indices: 97647038--97647081 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
97647028 ATACCTATCA
97647038 ACTTAAACCATGCAAATTTCT
1 ACTTAAACCATGCAAATTTCT
97647059 ACTTAAACCATGCAAATTTCT
1 ACTTAAACCATGCAAATTTCT
97647080 AC
1 AC
97647082 ATCCATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
ACTTAAACCATGCAAATTTCT
Found at i:97647795 original size:42 final size:42
Alignment explanation
Indices: 97647683--97647835 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
97647673 AATACAATAA
* * * *
97647683 CCTAGATATGGTCTTACA-TATAATCTCGTATCGATGCCAATAG
1 CCTAGATATGGTCTTACACGA-AGTCTCATATCGATGCC-ATAT
* * *
97647726 CCCAGCTATGGTCTTACACGAAATCTCATATCGATGCCATAT
1 CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATAT
*
97647768 CCTAGATATGGTCTTATACGAAGTCTCATA-CTGATGCCATAT
1 CCTAGATATGGTCTTACACGAAGTCTCATATC-GATGCCATAT
*
97647810 -CTCAGATATGGTCTTACACGTAGTCT
1 CCT-AGATATGGTCTTACACGAAGTCT
97647836 TAGTAACACC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.03
42 60 0.62
43 32 0.33
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATAT
Found at i:97649944 original size:19 final size:20
Alignment explanation
Indices: 97649915--97649955 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
97649905 GTGTCAAAAG
97649915 ATAGTTTTTTTTATACTTTA
1 ATAGTTTTTTTTATACTTTA
97649935 ATAG-TTTTTTTATACTTTA
1 ATAGTTTTTTTTATACTTTA
97649954 AT
1 AT
97649956 TATTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
ATAGTTTTTTTTATACTTTA
Found at i:97650524 original size:9 final size:9
Alignment explanation
Indices: 97650510--97650549 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
97650500 TGCAAATTAA
97650510 AAAAGAAAG
1 AAAAGAAAG
97650519 AAAAGAAA-
1 AAAAGAAAG
97650527 AGAAAGAAAG
1 A-AAAGAAAG
*
97650537 AAAAGAAGG
1 AAAAGAAAG
97650546 AAAA
1 AAAA
97650550 ACGCACGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 26 0.93
10 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:97653631 original size:28 final size:27
Alignment explanation
Indices: 97653587--97653654 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 27
97653577 TCTTAATTTT
97653587 TATTATTTATTTCATTTTATTAGTATC
1 TATTATTTATTTCATTTTATTAGTATC
* *
97653614 TATTATTTCATTTTATTTTATTAGTATT
1 TATTATTT-ATTTCATTTTATTAGTATC
97653642 TATTATTTTATTT
1 TATTA-TTTATTT
97653655 AATTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 8 0.22
28 26 0.70
29 3 0.08
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (27 bp):
TATTATTTATTTCATTTTATTAGTATC
Found at i:97653649 original size:23 final size:23
Alignment explanation
Indices: 97653593--97653674 Score: 73
Period size: 28 Copynumber: 3.5 Consensus size: 23
97653583 TTTTTATTAT
*
97653593 TTATTTCATTTTATTAGTATCTATTA
1 TTATTTTATTTTATTAGTA--T-TTA
97653619 TTTCATTTTATTTTATTAGTATTTA
1 -TT-ATTTTATTTTATTAGTATTTA
*
97653644 TTATTTTA-TTTA--ATTATTTA
1 TTATTTTATTTTATTAGTATTTA
97653664 TTA-TTTATTTT
1 TTATTTTATTTT
97653675 GGATATTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.08
20 13 0.25
22 4 0.08
23 6 0.12
24 2 0.04
25 3 0.06
26 1 0.02
27 2 0.04
28 16 0.31
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATTTTATTTTATTAGTATTTA
Found at i:97654950 original size:96 final size:97
Alignment explanation
Indices: 97654786--97654965 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 97
97654776 TTTTTAAGAA
* * **
97654786 TATGTTAGGCTGAGTAATCGGGGTGAGGAGTTTGGCTGTCATCTTTCTTCGTGTCGAAAAGTTCA
1 TATGTTAGGCTGAGTAACCGGGGTGAGGAGTTTGGCTGTCATCTCTCTTCACGTCGAAAAGTTCA
* *
97654851 ATATGTTCTTAAG-AAAAATAAAAATTAGGAG
66 ATATATTCCTAAGTAAAAATAAAAATTAGGAG
*
97654882 TATGTTGGGCTGAGTAACCGGGGT-AGG-GTGCTTGGCTGTCATCTCTCTTCACGTC-AAAAGGT
1 TATGTTAGGCTGAGTAACCGGGGTGAGGAGT--TTGGCTGTCATCTCTCTTCACGTCGAAAA-GT
97654944 TCAATATATTCCTAAGTAAAAA
63 TCAATATATTCCTAAGTAAAAA
97654966 AAATTCATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 2 0.03
95 7 0.10
96 59 0.81
97 5 0.07
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (97 bp):
TATGTTAGGCTGAGTAACCGGGGTGAGGAGTTTGGCTGTCATCTCTCTTCACGTCGAAAAGTTCA
ATATATTCCTAAGTAAAAATAAAAATTAGGAG
Found at i:97655672 original size:20 final size:20
Alignment explanation
Indices: 97655636--97655674 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
97655626 TAATTTTAGG
*
97655636 ATTTATCTTTATTTATTTAT
1 ATTTATCTTTATGTATTTAT
97655656 ATTTATCTTT-TAGTATTTA
1 ATTTATCTTTAT-GTATTTA
97655675 ATTAGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTATCTTTATGTATTTAT
Found at i:97658288 original size:48 final size:48
Alignment explanation
Indices: 97658168--97658442 Score: 310
Period size: 48 Copynumber: 5.7 Consensus size: 48
97658158 AATTTCTGTA
* * * *
97658168 TAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATC--A-ATATGTGA-TATGTGAT-CCGTG
*
97658221 TAAGACCATAGCTGTGCTATGGCATCAATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTG
*
97658269 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTG
* * * * *
97658317 TCAGACCATAGCTAGGCTATGACATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGA-TCCGTG
* * *
97658366 TAAAACCATAACTGGGCTATGGCATCCATATGTGA-A--T-AT--GTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTG
* *
97658408 TAAGACCATAGTTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGA
97658443 AGATGTGTAA
Statistics
Matches: 199, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
42 33 0.17
44 1 0.01
45 1 0.01
46 1 0.01
48 89 0.45
49 41 0.21
50 7 0.04
51 1 0.01
53 25 0.13
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTG
Found at i:97658348 original size:96 final size:98
Alignment explanation
Indices: 97658147--97658407 Score: 312
Period size: 97 Copynumber: 2.6 Consensus size: 98
97658137 CCATGGCAAC
* * * *
97658147 ATGTGATATGTAATTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGT
1 ATGTGATATGTGATTAC-GTGTAAGACCATAGCTGGGCTATGGCATC---GATATGTGA-TATGT
* * *
97658212 GCTACTGTATAAGACCATAGCTGTGCTATGGCATCAAT
61 GATACCGTATAAGACCATAGCTGTGCTATGACATCAAT
*
97658250 ATGTGATATGTGA-TCCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGAT-C
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATAC
* * *
97658313 CGTGTCAGACCATAGCTAG-GCTATGACATCGAT
66 CGTATAAGACCATAGCT-GTGCTATGACATCAAT
* * *
97658346 ATGTGATATGTGATTACGTGTAAAACCATAACTGGGCTATGGCATCCATATGTGAATATGTG
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGTG
97658408 TAAGACCATA
Statistics
Matches: 141, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
96 40 0.28
97 44 0.31
98 15 0.11
101 28 0.20
102 2 0.01
103 12 0.09
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (98 bp):
ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATAC
CGTATAAGACCATAGCTGTGCTATGACATCAAT
Found at i:97658410 original size:42 final size:41
Alignment explanation
Indices: 97658351--97658459 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 41
97658341 TCGATATGTG
* * *
97658351 ATATGTGATTACGTGTAAAACCATAACTGGGCTATGGCATCC
1 ATATGTGAATATGTGTAAGACCATAACTGGGCTATGGCAT-C
**
97658393 ATATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATC
1 ATATGTGAATATGTGTAAGACCATAACTGGGCTATGGCATC
*
97658434 ATTATGTGAAGATGTGTAAGACCATA
1 A-TATGTGAATATGTGTAAGACCATA
97658460 GTTGAACTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (41 bp):
ATATGTGAATATGTGTAAGACCATAACTGGGCTATGGCATC
Found at i:97658460 original size:42 final size:42
Alignment explanation
Indices: 97658363--97658473 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
97658353 ATGTGATTAC
* ** *
97658363 GTGTAAAACCATAACTGGGCTATGGCATCCATATGTGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCCATATGTGAAGAT
97658405 GTGTAAGACCATAGTTGGGCTATGGCAT-CATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCCA-TATGTGAAGAT
**
97658447 GTGTAAGACCATAGTTGAACTATGGCA
1 GTGTAAGACCATAGTTGGGCTATGGCA
97658474 ACGAGAAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 60 0.97
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCCATATGTGAAGAT
Found at i:97660958 original size:18 final size:18
Alignment explanation
Indices: 97660920--97660968 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
97660910 TGTTCTATAT
*
97660920 TGAAATG-ACATG-GTTG
1 TGAAATGAAAATGAGTTG
*
97660936 AGAAATGAAAATGAGTTG
1 TGAAATGAAAATGAGTTG
97660954 TGAAATGAAATATGA
1 TGAAATGAAA-ATGA
97660969 AATGGTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 6 0.22
17 4 0.15
18 13 0.48
19 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.27
Consensus pattern (18 bp):
TGAAATGAAAATGAGTTG
Found at i:97662323 original size:48 final size:48
Alignment explanation
Indices: 97662267--97662358 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
97662257 TTCAAGAAGG
97662267 GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAGTAAT
1 GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAGTAAT
*
97662315 GATAAATAGTGATAAGAGTGTAGACAGTGGAAAACCAAGTTTAG
1 GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAG
97662359 CATTGCATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (48 bp):
GATAAATAGTGATAAGAGTGTACACAGTGGAAAACCAAGTTTAGTAAT
Found at i:97673158 original size:19 final size:19
Alignment explanation
Indices: 97673131--97673184 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
97673121 CAAAACAGTA
*
97673131 ATCCTTCAATTCATATAAT
1 ATCCATCAATTCATATAAT
97673150 ATCCATCAATTCATATAAT
1 ATCCATCAATTCATATAAT
97673169 ATCCATCAATTCATAT
1 ATCCATCAATTCATAT
97673185 TCAAGAATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (19 bp):
ATCCATCAATTCATATAAT
Found at i:97673305 original size:24 final size:24
Alignment explanation
Indices: 97673275--97673356 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
97673265 GAAGCCTATA
97673275 AGAGCCATAATCGGGAAGCTCAA-
1 AGAGCCATAATCGGGAAGCTCAAG
* *
97673298 ACGGGCCATAAACGGGAAGCTCAAG
1 A-GAGCCATAATCGGGAAGCTCAAG
**
97673323 AGAGCCATAAATCGGGAAGCTCGTG
1 AGAGCCAT-AATCGGGAAGCTCAAG
97673348 AGAGCCATA
1 AGAGCCATA
97673357 TAATGGGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 27 0.54
25 22 0.44
ACGTcount: A:0.37, C:0.22, G:0.29, T:0.12
Consensus pattern (24 bp):
AGAGCCATAATCGGGAAGCTCAAG
Found at i:97673359 original size:27 final size:24
Alignment explanation
Indices: 97673240--97673370 Score: 106
Period size: 25 Copynumber: 5.3 Consensus size: 24
97673230 CATACAACAT
* * *
97673240 GAAGCTCATGTGAGCCATGTAACGG
1 GAAGCTCAAGAGAGCCAT-AAACGG
*
97673265 GAAGC-CTATA-AGAGCCATAATCGG
1 GAAGCTC-A-AGAGAGCCATAAACGG
*
97673289 GAAGCTCAA-ACGGGCCATAAACGG
1 GAAGCTCAAGA-GAGCCATAAACGG
97673313 GAAGCTCAAGAGAGCCATAAATCGG
1 GAAGCTCAAGAGAGCCATAAA-CGG
** *
97673338 GAAGCTCGTGAGAGCCATATAATGG
1 GAAGCTCAAGAGAGCCATA-AACGG
*
97673363 GATGCTCA
1 GAAGCTCA
97673371 TAAGAGCTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
23 2 0.02
24 40 0.46
25 43 0.49
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (24 bp):
GAAGCTCAAGAGAGCCATAAACGG
Found at i:97685224 original size:39 final size:38
Alignment explanation
Indices: 97685170--97685246 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 38
97685160 TGGATATGAG
97685170 ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTTAGACT
1 ATTGTTGTGGACTATGAGTAAAGGTTG-TTTTTTAGACT
97685209 ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTAGACT
1 ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTAGACT
97685247 TTCAGTTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 11 0.29
39 27 0.71
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.45
Consensus pattern (38 bp):
ATTGTTGTGGACTATGAGTAAAGGTTGTTTTTTAGACT
Found at i:97687733 original size:93 final size:93
Alignment explanation
Indices: 97687541--97687827 Score: 312
Period size: 93 Copynumber: 3.1 Consensus size: 93
97687531 TACGACCACG
* *
97687541 ACCTTTTACTTACAGGATTTTATGAATCTCGCGGTCCGCTGATTTACGA-TACGACCTTTGGCTT
1 ACCTTTTACTTAC-GGATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTT
* *
97687605 TTTTATGATCCGCTAATTTATGATCACAA
65 TCTTATGGTCCGCTAATTTATGATCACAA
* * * * *
97687634 ATCTTTTACTTACGGTATTTTATGAATCTCGTTGTCTGTTGATTTACGATTACGACATTTGACTT
1 ACCTTTTACTTACGG-ATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTT
* * **
97687699 TCTTATGGTCCGTTGATTTATGATCA-TT
65 TCTTATGGTCCGCTAATTTATGATCACAA
* * * * *
97687727 ACCTTTTACTTACGGGATTTTACGAATCTCGTGGTCCACTGATTTACAATCACGACTTTTGGCTT
1 ACCTTTTACTTAC-GGATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTT
* *
97687792 TCTTACGGTCTCTGCTGATTTACT-ATCAC-A
65 TCTTATGGTC-C-GCTAATTTA-TGATCACAA
97687822 ACCTTT
1 ACCTTT
97687828 GGCTTTCTCA
Statistics
Matches: 161, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
92 2 0.01
93 102 0.63
94 38 0.24
95 18 0.11
96 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.42
Consensus pattern (93 bp):
ACCTTTTACTTACGGATTTTATGAATCTCGTGGTCCGCTGATTTACGATTACGACATTTGGCTTT
CTTATGGTCCGCTAATTTATGATCACAA
Found at i:97687810 original size:41 final size:41
Alignment explanation
Indices: 97687765--97687842 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
97687755 TCGTGGTCCA
* * *
97687765 CTGATTTACAATCACGACTTTTGGCTTTCTTACGGTCTCTG
1 CTGATTTACAATCACAACCTTTGGCTTTCTCACGGTCTCTG
*
97687806 CTGATTTACTATCACAACCTTTGGCTTTCTCACGGTC
1 CTGATTTACAATCACAACCTTTGGCTTTCTCACGGTC
97687843 CGTTGATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (41 bp):
CTGATTTACAATCACAACCTTTGGCTTTCTCACGGTCTCTG
Done.