Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 193 of 344
Found at i:64547259 original size:210 final size:210
Alignment explanation
Indices: 64547009--64547592 Score: 629
Period size: 210 Copynumber: 2.8 Consensus size: 210
64546999 GCAATGGGAA
* * * * *
64547009 GAAGCAACAAGCTTGCTCAATAGAATGATGAATGAAGGAGTCCATCCTGATGTTGTGACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* ** * ** *
64547074 TTCTTTAATCAATGCTTTATGCAAGGAAAAGAGGACTTCAGAAGCCTTTACTGTGTTGGAATTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
*
64547139 TGA-TACAGAGAAATGTAAAACCTAACGTTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
131 TGAGT-CAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
64547203 TTCGGGCAAATGGACG
195 TTCGGGCAAATGGACG
*
64547219 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCTTGATGTAGTAACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
64547284 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
** * * * ** * *
64547349 TGAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTG-GATTGTGCAA
131 TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAG-TTTTGCAG
* ** * *
64547413 TTCAGATAAACGTG-CA
195 TTCGGGCAAATG-GACG
* * * * * * * * * * * * * *
64547429 GAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGATATGGAAACTTT-AA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* * * * * * *
64547493 GATCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACT
66 -TTCTTTAATCAATGCCTTATGCAAGGAAAA-GAGGACTGAAGAAGCCATTACCATGTTGGAACT
* *
64547557 AATGAGTCAGAGAAATGTAATACCTGACATTGTCAC
129 AATGAGTCAGAGAAATGTAAAACCTAACATTGTCAC
64547593 CTACTGCTTT
Statistics
Matches: 315, Mismatches: 54, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
209 3 0.01
210 307 0.97
211 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (210 bp):
GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAGT
TCGGGCAAATGGACG
Found at i:64547654 original size:210 final size:206
Alignment explanation
Indices: 64547285--64547860 Score: 627
Period size: 210 Copynumber: 2.8 Consensus size: 206
64547275 AACTTTCAAT
* * *
64547285 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
** *
64547350 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
*
64547415 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
130 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT---GGAGTCCAGCCTGAT
*
64547480 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* *
64547495 TCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAG-ACTGAAGAAGCCATTACCATGTTGGAACTAA
* ** * * *
64547559 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
64 TGAGTCAGAGAAATGTAAAACCTGACATTGTCACCTAC-AATTGTTTAATACGTGGATTGTGCAA
* * ** ** * *
64547623 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATG
128 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATA
*
64547688 TGGAAACCTTAAGC
193 TGGAAACCTTAAGA
* * * * *** *
64547702 TCTTTAATCAATGCTTTGTGGAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGT-GCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * * * * * *
64547767 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
* * * *
64547832 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
130 CA-GATAAACGTGCAGAAGCCACAAGCTTG
64547861 CTTAGTAAGA
Statistics
Matches: 303, Mismatches: 57, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
206 3 0.01
207 140 0.46
208 8 0.03
210 149 0.49
211 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAATG
AGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATTC
AGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:64547801 original size:207 final size:206
Alignment explanation
Indices: 64547285--64547860 Score: 629
Period size: 207 Copynumber: 2.8 Consensus size: 206
64547275 AACTTTCAAT
* * * * *
64547285 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * *
64547350 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
*
64547415 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
129 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT-G-GGAGTCCAGCCTGAT
*
64547480 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* * *
64547495 TCTTTAATCAATGCTTTGTACAAGGAAAACAAG-TATGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGAT-TGAAGAAGCCATTACCATGTTGGAACTAA
* * * *
64547559 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
65 TGAGTCAGAGAGATGTAA-ACCTGACATTGTCACCTAC-G-TTGTTTAATACATGGATTGTGCAA
* * ** ** *
64547623 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAAT-GGAGTCCAGCCTGAT
127 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGAT
* *
64547687 GTGGAAACCTTAAGC
192 ATGGAAACCTTAAGA
* * * *** *
64547702 TCTTTAATCAATGCTTTGTGGAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * *
64547767 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
* * * *
64547832 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
129 CA-GATAAACGTGCAGAAGCCACAAGCTTG
64547861 CTTAGTAAGA
Statistics
Matches: 304, Mismatches: 55, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
206 2 0.01
207 147 0.48
208 4 0.01
209 2 0.01
210 147 0.48
211 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
GAGTCAGAGAGATGTAAACCTGACATTGTCACCTACGTTGTTTAATACATGGATTGTGCAATTCA
GATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:64548041 original size:38 final size:38
Alignment explanation
Indices: 64547999--64548076 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
64547989 CGTGAAGCCG
*
64547999 AATGAATTTACTTACAGGATAATGATTGAAGAAGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
* *
64548037 AATGAATTTACTTACAGGGTAATGATCGAAGAGGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
64548075 AA
1 AA
64548077 GCCATTACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.29
Consensus pattern (38 bp):
AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
Found at i:64550586 original size:22 final size:23
Alignment explanation
Indices: 64550561--64550620 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
64550551 TGGACTGAAT
64550561 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
64550583 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
64550605 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
64550621 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:64550588 original size:4 final size:4
Alignment explanation
Indices: 64550570--64550603 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
64550560 TATAAAAATT
64550570 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
64550604 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:64552022 original size:18 final size:18
Alignment explanation
Indices: 64552001--64552039 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
64551991 TTTCTTCAAC
* *
64552001 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
64552019 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
64552037 TTC
1 TTC
64552040 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:64554395 original size:22 final size:23
Alignment explanation
Indices: 64554370--64554429 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
64554360 TGGACTGAAT
64554370 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
64554392 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
64554414 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
64554430 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:64554397 original size:4 final size:4
Alignment explanation
Indices: 64554379--64554412 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
64554369 TATAAAAATT
64554379 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
64554413 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:64561871 original size:19 final size:18
Alignment explanation
Indices: 64561842--64561881 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
64561832 GTATATATTT
64561842 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
64561860 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
64561879 TAA
1 TAA
64561882 GTTTTATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:64561888 original size:19 final size:19
Alignment explanation
Indices: 64561842--64561888 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
64561832 GTATATATTT
64561842 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
64561860 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
64561879 TAAGTTTTAT
1 TAAATTTTAT
64561889 CCATATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:64561964 original size:42 final size:42
Alignment explanation
Indices: 64561898--64561994 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
64561888 TCCATATTCT
* * *
64561898 AGGAA-TATTTTTATTTTATCTTTTAGTAGTTTATTAGGACAA
1 AGGAACTA-TTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
* *
64561940 GGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAATAA
1 AGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
64561982 AGGAACTATTTTC
1 AGGAACTATTTTC
64561995 CCAATTAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (42 bp):
AGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
Found at i:64565844 original size:19 final size:19
Alignment explanation
Indices: 64565798--64565845 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
64565788 GTATATATTT
64565798 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
64565816 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
64565835 TAAGTTTTATT
1 TAAATTTTATT
64565846 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:64565926 original size:42 final size:42
Alignment explanation
Indices: 64565862--64565949 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
64565852 CTAAGAATAT
* * *
64565862 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTATTTTATATTTTAATAGTTTATTAGAACAAGGGAACTA
* *
64565904 TTTTCTTTTATATTTTAATAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATATTTTAATAGTTTATTAGAACAAGGGAACTA
64565946 TTTT
1 TTTT
64565950 TCCAATTAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.51
Consensus pattern (42 bp):
TTTTATTTTATATTTTAATAGTTTATTAGAACAAGGGAACTA
Found at i:64567244 original size:19 final size:19
Alignment explanation
Indices: 64567220--64567256 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
64567210 TATTTTAAAG
64567220 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
64567239 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
64567257 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:64567343 original size:41 final size:41
Alignment explanation
Indices: 64567298--64567377 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
64567288 ATATTTTATT
*
64567298 TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
*
64567339 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTT
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTT
64567378 TCCAATTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
Found at i:64571078 original size:19 final size:19
Alignment explanation
Indices: 64571054--64571094 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
64571044 TATTTTAAAG
64571054 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
64571073 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
64571092 TTA
1 TTA
64571095 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:64571187 original size:40 final size:40
Alignment explanation
Indices: 64571143--64571220 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
64571133 TATCTTTTAA
64571143 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
1 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
64571183 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
1 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
64571221 CCAATTAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (40 bp):
ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
Found at i:64579868 original size:18 final size:18
Alignment explanation
Indices: 64579845--64579880 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64579835 ACAACTACTC
64579845 TATTTAACATATAAAACA
1 TATTTAACATATAAAACA
64579863 TATTTAACATATAAAACA
1 TATTTAACATATAAAACA
64579881 AAGGTCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
TATTTAACATATAAAACA
Found at i:64596995 original size:152 final size:154
Alignment explanation
Indices: 64596727--64597014 Score: 476
Period size: 152 Copynumber: 1.9 Consensus size: 154
64596717 AAAATTAAAT
*
64596727 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGCTGAAAAAG
1 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAG
64596792 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTAT
66 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACT-AAAAAACATATTTTTAT
64596857 TTT-CAAAATCTAAAATTTCTATTC
130 TTTACAAAATCTAAAATTTCTATTC
* * *
64596881 TTTT-TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAA-TTTATTTTAAAATAGTTGAAAAAG
1 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAG
* * *
64596944 ATCAAAACTTTGTTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAAAAACATATTTTTATT
66 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
64597008 TTACAAA
131 TTACAAA
64597015 TATAAACTTT
Statistics
Matches: 126, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
150 20 0.16
151 27 0.21
152 41 0.33
153 34 0.27
154 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (154 bp):
TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAG
ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
TTACAAAATCTAAAATTTCTATTC
Found at i:64597907 original size:42 final size:42
Alignment explanation
Indices: 64597851--64598232 Score: 405
Period size: 42 Copynumber: 9.2 Consensus size: 42
64597841 CTTCATATAC
*
64597851 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * **
64597893 AATGCAATGGAAAGTAAATGAACCTCCACACCTGGGTTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * *
64597935 AATGCAATGAAAAATAAATGAAAACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATG--GACCTCCACACTTGGGCCTCTA
* * * *
64597979 ACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* ** *
64598021 AATGCAATGAAAAGTAAATGGAACTCCACACTTAAGCCTCGA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* *
64598063 AATGCAATAAAAAGTAAATGGACCTCCACACTTGGGCCGCT-
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* **
64598104 -ATGCAATGAAACGTAAATGGACCTTTACACTTGGG---CTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * * *
64598142 AATGCAATAAAAAATAAATGGACTTCTACGCTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * *** *
64598184 AATGTAATGAAAAGTGAATGGACCTCCACACCAAGACCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
64598226 AATGCAA
1 AATGCAA
64598233 CGAAGGTTTT
Statistics
Matches: 284, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.01
39 29 0.10
40 31 0.11
42 184 0.65
44 38 0.13
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
Found at i:64598081 original size:128 final size:125
Alignment explanation
Indices: 64597852--64598163 Score: 357
Period size: 128 Copynumber: 2.5 Consensus size: 125
64597842 TTCATATACA
* *
64597852 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTAAATGCAATGGAAAGTAAAT-GAAC
1 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGAAC
** ** * * *
64597916 CTCCACACCTGGGTTTCTAAATGCAATGAAAAATAAATGAAAACCTCCACACCTGGGTCTCT
66 CTCCACACCTAAGCCTCGAAATGCAATGAAAAATAAATG--AACCTCCACACCTGGGCCGCT
* * *
64597978 AACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
1 -A-TGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
* * *
64598043 A-CTCCACACTTAAGCCTCGAAATGCAAT-AAAAAGTAAATGGACCTCCACACTTGGGCCGCT
64 ACCTCCACACCTAAGCCTCGAAATGCAATGAAAAA-TAAATGAACCTCCACACCTGGGCCGCT
* ** * *
64598104 ATGCAATGAAACGTAAATGGACCTTTACACTTGGG---CTAAATGCAATAAAAAATAAATGGA
1 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
64598164 CTTCTACGCT
Statistics
Matches: 159, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
121 23 0.14
124 28 0.18
125 1 0.01
126 17 0.11
127 6 0.04
128 81 0.51
129 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (125 bp):
ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGAAC
CTCCACACCTAAGCCTCGAAATGCAATGAAAAATAAATGAACCTCCACACCTGGGCCGCT
Found at i:64598160 original size:39 final size:39
Alignment explanation
Indices: 64598060--64598178 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 39
64598050 ACTTAAGCCT
**
64598060 CGAAATGCAATAAAAAGTAAATGGACCTCCACACTTGGG
1 CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
** * *
64598099 CCGCTATGCAATGAAACGTAAATGGACCTTTACACTTGGG
1 -CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
* * *
64598139 CTAAATGCAATAAAAAATAAATGGA-CTTCTACGCTTGGG
1 CGAAATGCAATAAAAAGTAAATGGACCTT-TACACTTGGG
64598178 C
1 C
64598179 CTCTAAATGT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
38 3 0.05
39 29 0.45
40 33 0.51
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (39 bp):
CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
Found at i:64598675 original size:21 final size:20
Alignment explanation
Indices: 64598624--64598701 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
64598614 TCTTTATTAT
* *
64598624 TTTTTTCTTTCTTTTCTTTTG
1 TTTTTTGTTTTTTTTC-TTTG
*
64598645 TTTTTGGTTTTTTTTCTTTG
1 TTTTTTGTTTTTTTTCTTTG
64598665 TTTTATTGTTTTTTCTTTCTTT-
1 TTTT-TTG-TTTTT-TTTCTTTG
*
64598687 TTTTGTGTTTTTTTT
1 TTTTTTGTTTTTTTT
64598702 ATTTAGGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.06
20 13 0.27
21 17 0.35
22 9 0.18
23 7 0.14
ACGTcount: A:0.01, C:0.08, G:0.09, T:0.82
Consensus pattern (20 bp):
TTTTTTGTTTTTTTTCTTTG
Found at i:64604049 original size:27 final size:28
Alignment explanation
Indices: 64604012--64604151 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
64604002 AGCATGGCTG
* *
64604012 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
64604038 CCAGATACAGATA-ATTGTGGCAGAGCCA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
64604066 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
64604093 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
64604120 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
64604147 CCAGA
1 CCAGA
64604152 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:64605806 original size:26 final size:26
Alignment explanation
Indices: 64605770--64605853 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
64605760 CATGAAATTC
*
64605770 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
64605796 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
64605822 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
64605848 TTATCA
1 TTATCA
64605854 ATTTGTACCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 54 0.96
27 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:64609594 original size:3 final size:3
Alignment explanation
Indices: 64609586--64609621 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
64609576 ATTTGATCTT
64609586 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64609622 ACGTTGAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64610132 original size:15 final size:15
Alignment explanation
Indices: 64610105--64610145 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
64610095 AAATGAAAAG
64610105 TAATAAAATAGGGAAA
1 TAATAAAA-AGGGAAA
*
64610121 TAATGAAAAGGGAAA
1 TAATAAAAAGGGAAA
64610136 TAATAAAAAG
1 TAATAAAAAG
64610146 AAAACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
TAATAAAAAGGGAAA
Found at i:64611610 original size:47 final size:48
Alignment explanation
Indices: 64611559--64611665 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
64611549 GACCTATAGA
* ** *
64611559 CAAATCGAGGTAACTTATC-CCGGAGTAACTATACCATGGTCCGTACC
1 CAAATCAAGGTAACTTATCTCCAAAATAACTATACCATGGTCCGTACC
* * * * *
64611606 CAAATCAAGGTATCTTCTCTCCAAAATACCTATACCATGGTCGGTAGC
1 CAAATCAAGGTAACTTATCTCCAAAATAACTATACCATGGTCCGTACC
64611654 CAAATCAAGGTA
1 CAAATCAAGGTA
64611666 TTACTTATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 16 0.32
48 34 0.68
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (48 bp):
CAAATCAAGGTAACTTATCTCCAAAATAACTATACCATGGTCCGTACC
Found at i:64613082 original size:10 final size:10
Alignment explanation
Indices: 64613059--64613088 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
64613049 TAGACATGAA
64613059 AATAAATAAAG
1 AATAAAT-AAG
64613070 AATAAATAAG
1 AATAAATAAG
64613080 AATAAATAA
1 AATAAATAA
64613089 AAATTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (10 bp):
AATAAATAAG
Found at i:64613305 original size:40 final size:41
Alignment explanation
Indices: 64613250--64613330 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
64613240 TGAAAAGATA
64613250 AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
1 AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
*
64613291 AAAAA-TGTGGAAGACAGAAGACTGATGTAGCAATTAATTT
1 AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
64613331 GCTTTTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
Found at i:64624218 original size:45 final size:41
Alignment explanation
Indices: 64624134--64624223 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 41
64624124 TCATTTTCAT
* *
64624134 TTCCATTTCCATTTCGAGAAAACCACATTGATTTCTAAATG
1 TTCCATTTCCATTTCGAGAAAACCACAATCATTTCTAAATG
*
64624175 ATTCCATTTCTCCATTTCGAGGAAAACCATAATCA-TTCTTAAATG
1 -TTCCA-TT-TCCATTTCGA-GAAAACCACAATCATTTC-TAAATG
64624220 TTCC
1 TTCC
64624224 CCACTTCTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
42 5 0.12
43 2 0.05
44 17 0.41
45 17 0.41
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (41 bp):
TTCCATTTCCATTTCGAGAAAACCACAATCATTTCTAAATG
Found at i:64626541 original size:18 final size:18
Alignment explanation
Indices: 64626518--64626559 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
64626508 AATACTTGAG
* *
64626518 TAAATTGGAATTAAAATT
1 TAAATTAGAAATAAAATT
64626536 TAAATTAGAAATAAAATT
1 TAAATTAGAAATAAAATT
*
64626554 TCAATT
1 TAAATT
64626560 TTGATAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAATTAGAAATAAAATT
Found at i:64632572 original size:19 final size:19
Alignment explanation
Indices: 64632548--64632646 Score: 123
Period size: 19 Copynumber: 5.2 Consensus size: 19
64632538 AATCTTTAAG
64632548 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
64632567 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
64632586 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
64632603 GATATG-ATATGATATGATAT
1 GATATGCA-ATCTTA-GATAT
64632623 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
64632644 GAT
1 GAT
64632647 TTTATAATCT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
17 17 0.24
18 1 0.01
19 28 0.40
20 14 0.20
21 9 0.13
22 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:64632606 original size:5 final size:5
Alignment explanation
Indices: 64632598--64632628 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
64632588 TATAATCTTA
64632598 GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT G
64632629 CAATCTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:64632643 original size:36 final size:39
Alignment explanation
Indices: 64632548--64632646 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 39
64632538 AATCTTTAAG
*
64632548 GATATGCAATCTT--AGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTGAAGATATGATATG-AATCATAGATAT
*
64632586 GATAT--AATCTT--AGATATGATATGATATGATATGATAT
1 GATATGCAATCTTGAAGATATGATATGA-ATCATA-GATAT
64632623 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTTGAAGATATGAT
64632647 TTTATAATCT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
35 1 0.02
36 22 0.42
37 10 0.19
38 5 0.09
39 6 0.11
41 9 0.17
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (39 bp):
GATATGCAATCTTGAAGATATGATATGAATCATAGATAT
Found at i:64635406 original size:27 final size:27
Alignment explanation
Indices: 64635200--64635415 Score: 310
Period size: 27 Copynumber: 8.0 Consensus size: 27
64635190 AAAGTACTCC
64635200 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
64635227 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
64635254 -TAGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
64635281 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
64635308 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
64635335 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
64635362 CGATTTTTAAAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
64635389 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
64635416 TGTAGCGACG
Statistics
Matches: 167, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 165 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:64636561 original size:21 final size:20
Alignment explanation
Indices: 64636535--64636607 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
64636525 ACATATATGT
64636535 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
*
64636556 ATAATAATAGCGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
64636578 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
64636598 GTAACAATAT
1 ATAATAATAT
64636608 TAGTAATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.26
21 25 0.58
22 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:64637852 original size:27 final size:27
Alignment explanation
Indices: 64637821--64638230 Score: 419
Period size: 27 Copynumber: 15.2 Consensus size: 27
64637811 GCCTACTATA
64637821 ACCCTCAGTTTACAGAATTACCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
64637848 ACCCTCAGTTTACAGAATTACCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
64637875 ACCCTC-GATTTATAGAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* *
64637902 ACCCTCGATTTTTA-A-AATTACTGTTTT
1 ACCCTC-A-GTTTACAGAATTACCGTTTT
* *
64637929 ACCCT-TGATTTATAGAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* *
64637956 ACCCTCAGTTTATAGAATTACTGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
* *
64637983 ACCCTC-GATTTATATAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
**
64638010 ACCCTCAGTTTACAGAATTACTATTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
64638037 ACCCTCAATTTACAGAATTACCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
* * * *
64638064 ACCCTCAGCTTATAGAATTACTGCTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
64638091 ACCCTC-GATTTACAAAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* *
64638118 ACCCTCGATTTGTA-A-AATTATCGTTTT
1 ACCCTC-AGTT-TACAGAATTACCGTTTT
* *
64638145 ACCCT-TGATTTACAGAATTACTAG-TTT
1 ACCCTCAG-TTTACAGAATTAC-CGTTTT
* * *
64638172 ACCTTCAGTTTACAAAATTATCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
64638199 ACCCTC-GATTTACAGAATTATCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
64638226 ACCCT
1 ACCCT
64638231 TGATTGTGCA
Statistics
Matches: 322, Mismatches: 40, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
25 6 0.02
26 9 0.03
27 293 0.91
28 8 0.02
29 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
ACCCTCAGTTTACAGAATTACCGTTTT
Found at i:64637892 original size:54 final size:54
Alignment explanation
Indices: 64637821--64638230 Score: 512
Period size: 54 Copynumber: 7.6 Consensus size: 54
64637811 GCCTACTATA
*
64637821 ACCCTC-AGTTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTT
1 ACCCTCGA-TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* *
64637875 ACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTA-A-AATTACTGTTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTC-A-GTTTACAGAATTACTGTTTT
* * *
64637929 ACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* * *
64637983 ACCCTCGATTTATATAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* * * *
64638037 ACCCTCAATTTACAGAATTACCGTTTTACCCTCAGCTTATAGAATTACTGCTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* *
64638091 ACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTGTA-A-AATTA-TCGTTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACT-GTTTT
* * * *
64638145 ACCCTTGATTTACAGAATTACTAG-TTTACCTTCAGTTTACAAAATTA-TCGTTTT
1 ACCCTCGATTTACAGAATTAC-CGTTTTACCCTCAGTTTACAGAATTACT-GTTTT
*
64638199 ACCCTCGATTTACAGAATTATCGTTTTACCCT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCT
64638231 TGATTGTGCA
Statistics
Matches: 314, Mismatches: 30, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
52 6 0.02
53 8 0.03
54 287 0.91
55 7 0.02
56 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (54 bp):
ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
Found at i:64637956 original size:81 final size:82
Alignment explanation
Indices: 64637821--64638235 Score: 481
Period size: 81 Copynumber: 5.1 Consensus size: 82
64637811 GCCTACTATA
* *
64637821 ACCCTC-AGTTTACAGAATTACCGTTTTACCC-TCAGTTTACAGAATTACCGTTTTACCCTCGAT
1 ACCCTCGA-TTTATAGAATTACTGTTTTACCCTTCAGTTTACAGAATTACCGTTTTACCCTCGAT
64637884 TTATAGAATTACCGTTTT
65 TTATAGAATTACCGTTTT
* * * *
64637902 ACCCTCGATTTTTAAAATTACTGTTTTACCCTTGA-TTTATAGAATTACCGTTTTACCCTC-AGT
1 ACCCTCGATTTATAGAATTACTGTTTTACCCTTCAGTTTACAGAATTACCGTTTTACCCTCGA-T
*
64637965 TTATAGAATTACTGTTTT
65 TTATAGAATTACCGTTTT
* * ** *
64637983 ACCCTCGATTTATATAATTACCGTTTTACCC-TCAGTTTACAGAATTACTATTTTACCCTCAATT
1 ACCCTCGATTTATAGAATTACTGTTTTACCCTTCAGTTTACAGAATTACCGTTTTACCCTCGATT
*
64638047 TACAGAATTACCGTTTT
66 TATAGAATTACCGTTTT
* * *
64638064 ACCCTC-AGCTTATAGAATTACTGCTTTACCC-TC-GATTTACAAAATTACCGTTTTACCCTCGA
1 ACCCTCGA-TTTATAGAATTACTGTTTTACCCTTCAG-TTTACAGAATTACCGTTTTACCCTCGA
* * *
64638126 TTTGTAAAATTATCGTTTT
64 TTTATAGAATTACCGTTTT
* * * *
64638145 ACCCTTGATTTACAGAATTACTAG-TTTA-CCTTCAGTTTACAAAATTATCGTTTTACCCTCGAT
1 ACCCTCGATTTATAGAATTACT-GTTTTACCCTTCAGTTTACAGAATTACCGTTTTACCCTCGAT
* *
64638208 TTACAGAATTATCGTTTT
65 TTATAGAATTACCGTTTT
*
64638226 ACCCTTGATT
1 ACCCTCGATT
64638236 GTGCAATTAC
Statistics
Matches: 288, Mismatches: 35, Indels: 22
0.83 0.10 0.06
Matches are distributed among these distances:
80 7 0.02
81 274 0.95
82 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (82 bp):
ACCCTCGATTTATAGAATTACTGTTTTACCCTTCAGTTTACAGAATTACCGTTTTACCCTCGATT
TATAGAATTACCGTTTT
Found at i:64638270 original size:27 final size:27
Alignment explanation
Indices: 64638240--64638435 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
64638230 TTGATTGTGC
*
64638240 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64638267 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
64638294 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64638321 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64638348 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64638375 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
64638402 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
64638429 AATTACC
1 AATTACC
64638436 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:64638672 original size:27 final size:26
Alignment explanation
Indices: 64638634--64638716 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
64638624 CGGAGGAAGC
*
64638634 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
64638661 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
64638687 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
64638714 GTT
1 GTT
64638717 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:64639065 original size:27 final size:27
Alignment explanation
Indices: 64639035--64639093 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
64639025 TTTGCCATAT
*
64639035 TATCTA-ATTCTGGTGGCTCTGCCACAA
1 TATCTATA-TCTGGTGACTCTGCCACAA
* * *
64639062 TATCTGTATCTGGTGACTCTGTCACGA
1 TATCTATATCTGGTGACTCTGCCACAA
64639089 TATCT
1 TATCT
64639094 GTTCTGGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (27 bp):
TATCTATATCTGGTGACTCTGCCACAA
Found at i:64639094 original size:27 final size:26
Alignment explanation
Indices: 64639042--64639100 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
64639032 TATTATCTAA
*
64639042 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGACTCTGCCACAATATCTG
* *
64639068 TATCTGGTGACTCTGTCACGATATCTG
1 T-TCTGGTGACTCTGCCACAATATCTG
64639095 TTCTGG
1 TTCTGG
64639101 CAGCCATGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (26 bp):
TTCTGGTGACTCTGCCACAATATCTG
Found at i:64639227 original size:6 final size:6
Alignment explanation
Indices: 64639218--64639399 Score: 117
Period size: 6 Copynumber: 29.8 Consensus size: 6
64639208 TTGCATTCAC
* * *
64639218 ATTCTG ATTCTG ATTCT- ATCACGTA ATTCTG ATTCTG ACTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * **
64639267 -TTACTA ATACTG ATTCTA ATTCTG ATTCTG -TCACCAA ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
64639316 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
64639365 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
64639400 CATTTTGGTT
Statistics
Matches: 136, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
5 11 0.08
6 111 0.82
7 9 0.07
8 5 0.04
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:64639246 original size:25 final size:25
Alignment explanation
Indices: 64639218--64639345 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
64639208 TTGCATTCAC
*
64639218 ATTCTGATTCTGATTCTATCACGTA
1 ATTCTGATTCTGATTCTATCACCTA
*
64639243 ATTCTGATTCTGACTCTGATTCTGTTA-CTA
1 ATTCTGATTCTGATTCT-A-TC----ACCTA
* * *
64639273 ATACTGATTCTAATTCTGATTCTGTCACCAA
1 ATTCTGATTC----T--GATTCTATCACCTA
*
64639304 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTATCACCTA
64639329 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
64639346 GATTCTGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
25 46 0.56
26 1 0.01
27 3 0.04
30 12 0.15
31 12 0.15
34 3 0.04
36 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTA
Found at i:64639346 original size:25 final size:24
Alignment explanation
Indices: 64639279--64639399 Score: 118
Period size: 25 Copynumber: 4.7 Consensus size: 24
64639269 ACTAATACTG
* *
64639279 ATTCTAATTCTGATTCTGTCACCAA
1 ATTCTGATTCTGATTCTGTCA-CTA
64639304 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCA-CTA
64639329 ATTCTGATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTG--TC----ACTA
* *
64639359 ATAT-TGATTCTGATTCTGTTACTG
1 AT-TCTGATTCTGATTCTGTCACTA
64639383 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
64639400 CATTTTGGTT
Statistics
Matches: 84, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.01
24 18 0.21
25 41 0.49
27 2 0.02
28 1 0.01
30 19 0.23
31 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.47
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACTA
Found at i:64639367 original size:86 final size:86
Alignment explanation
Indices: 64639218--64639376 Score: 273
Period size: 86 Copynumber: 1.8 Consensus size: 86
64639208 TTGCATTCAC
*
64639218 ATTCTGATTCTGATTCTATCACGTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
64639283 TAATTCTGATTCTGTCACCAA
66 TAATTCTGATTCTGTCACCAA
* * *
64639304 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
*
64639369 TGATTCTG
66 TAATTCTG
64639377 TTACTGATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (86 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
TAATTCTGATTCTGTCACCAA
Found at i:64642078 original size:15 final size:15
Alignment explanation
Indices: 64642058--64642089 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64642048 CGAGGAAAAG
*
64642058 AGAAAATTCCGGAAT
1 AGAAAATTCCAGAAT
64642073 AGAAAATTCCAGAAT
1 AGAAAATTCCAGAAT
64642088 AG
1 AG
64642090 TTCCAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (15 bp):
AGAAAATTCCAGAAT
Found at i:64642493 original size:39 final size:38
Alignment explanation
Indices: 64642449--64642549 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 38
64642439 GCTCTAATGA
64642449 GCTTCAGTAAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGT-AGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
64642488 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
64642527 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAG-TAGCCTTCGGGCTTC
64642550 AGATCACGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 56 0.98
40 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.36
Consensus pattern (38 bp):
GCTTCAGTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:64642531 original size:21 final size:21
Alignment explanation
Indices: 64642467--64642531 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
64642457 AAGCCTTCGG
64642467 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
64642488 GCTTCAG-TTAGC-CTT-CGA
1 GCTTCCGTTTAGCACTTATGT
64642506 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
64642527 GCTTC
1 GCTTC
64642532 AGCTAGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:64652323 original size:3 final size:3
Alignment explanation
Indices: 64652315--64652373 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
64652305 ATAAAAATAC
* *
64652315 AAT AAT AAT AAT AAT AAT -AT ATT AAAT AACA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT
*
64652361 AAT GAT AAT AAT A
1 AAT AAT AAT AAT A
64652374 TAGAAATATG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.87
4 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:64652370 original size:28 final size:28
Alignment explanation
Indices: 64652318--64652371 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
64652308 AAAATACAAT
*
64652318 AATAATAATAATAATATATTAAATAACA
1 AATAATAATAATAATATATGAAATAACA
64652346 AATAATAATAATAATA-ATGATAATAA
1 AATAATAATAATAATATATGA-AATAA
64652372 TATAGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AATAATAATAATAATATATGAAATAACA
Found at i:64652690 original size:12 final size:12
Alignment explanation
Indices: 64652673--64652724 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
64652663 AAGGCTAATA
64652673 AATAATAAGTAT
1 AATAATAAGTAT
64652685 AATAATAA-TAAT
1 AATAATAAGT-AT
*
64652697 AATAATGAAATAT
1 AATAAT-AAGTAT
* *
64652710 AATAGTATGTAT
1 AATAATAAGTAT
64652722 AAT
1 AAT
64652725 GTTAAAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.03
12 23 0.68
13 9 0.26
14 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
AATAATAAGTAT
Found at i:64659442 original size:25 final size:26
Alignment explanation
Indices: 64659397--64659445 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
64659387 TGATATATAT
64659397 AAATATTAATGTTTTTACTATTTGAA
1 AAATATTAATGTTTTTACTATTTGAA
64659423 AAATATTATAT-TTTTT-CTATTTG
1 AAATATTA-ATGTTTTTACTATTTG
64659446 TTTGTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.32
26 13 0.59
27 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (26 bp):
AAATATTAATGTTTTTACTATTTGAA
Found at i:64661510 original size:30 final size:30
Alignment explanation
Indices: 64661476--64661538 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
64661466 ACTTATTTTA
64661476 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
64661506 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
64661536 TTG
1 TTG
64661539 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:64661690 original size:12 final size:12
Alignment explanation
Indices: 64661660--64661692 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
64661650 TATATTTTTT
64661660 AAAATT-ATATA
1 AAAATTAATATA
64661671 AAAA-TAATATA
1 AAAATTAATATA
64661682 AAAATTAATAT
1 AAAATTAATAT
64661693 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:64662415 original size:21 final size:21
Alignment explanation
Indices: 64662380--64662429 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
64662370 AAATTAAATT
*
64662380 TAATATTTTTCATAA-AGATAAA
1 TAATA-TTATCATAAGA-ATAAA
64662402 TAATATTATCATAAGAATAAA
1 TAATATTATCATAAGAATAAA
*
64662423 TATTATT
1 TAATATT
64662430 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATATTATCATAAGAATAAA
Found at i:64665151 original size:194 final size:185
Alignment explanation
Indices: 64664856--64665328 Score: 614
Period size: 194 Copynumber: 2.5 Consensus size: 185
64664846 AACCTTTTCA
64664856 ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
1 ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
* * ***
64664921 CCGGGCGAAGCCATCCATGA-AGAATAAATGTTGTTTCATTTTTAATAA-TAAAAGAAAATTTTT
66 CCGGGCGAAGCCATCCAT-ACAGAATAAATGTTGTTTCATTTTTAATAACAAAAAAAAAAAAATT
* * *
64664984 GGTTTTTTGCACATTTTGCTACATTTTTCAAAATTAATAAAGCTATAAATATAAATGTAAAA-GC
130 GG-TTTCTGCACA-TTT--TAC-TATTT----A--AAT--AGCTATAAATAAAAATGTAAAATGC
64665048 TATT
182 TATT
64665052 -C-TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
1 ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
*** *
64665115 CCGGGCGAAGCCATCCATACAGAATGTGTTTTGTTTCATTTTTAATAACCAAAAAAAAAAAAATT
66 CCGGGCGAAGCCATCCATACAGAATAAATGTTGTTTCATTTTTAATAA-CAAAAAAAAAAAAATT
* *
64665180 GGTTTCTGCACATTTTACTATTTACATAGCTATAAATAAAAATGTAAAATGCTTTT
130 GGTTTCTGCACATTTTACTATTTAAATAGCTATAAATAAAAATGTAAAATGCTATT
64665236 CAACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGA
1 --ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGA
* *
64665301 GTCCGCGCGAAGCCATCCATGCAGAATA
64 GTCCGGGCGAAGCCATCCATACAGAATA
64665329 TCACAAAGAA
Statistics
Matches: 252, Mismatches: 17, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
183 21 0.08
184 5 0.02
185 2 0.01
187 2 0.01
188 85 0.34
191 4 0.02
192 3 0.01
193 1 0.00
194 107 0.42
195 10 0.04
196 12 0.05
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (185 bp):
ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
CCGGGCGAAGCCATCCATACAGAATAAATGTTGTTTCATTTTTAATAACAAAAAAAAAAAAATTG
GTTTCTGCACATTTTACTATTTAAATAGCTATAAATAAAAATGTAAAATGCTATT
Found at i:64666582 original size:19 final size:20
Alignment explanation
Indices: 64666558--64666605 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
64666548 TACTTAAATT
64666558 TTTTATTTAT-A-TATTTTAA
1 TTTTATTTATGAGTATTTT-A
64666577 TTTTA-TTATGAGTATTTTA
1 TTTTATTTATGAGTATTTTA
*
64666596 TTATATTTAT
1 TTTTATTTAT
64666606 TTTATATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTATGAGTATTTTA
Found at i:64666667 original size:22 final size:22
Alignment explanation
Indices: 64666642--64666685 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
64666632 TCTAATTGAG
64666642 TTGGTGTCATGAGTGCTAAGAA
1 TTGGTGTCATGAGTGCTAAGAA
64666664 TTGGTGTCATGAGTGCTAAGAA
1 TTGGTGTCATGAGTGCTAAGAA
64666686 CCAATCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (22 bp):
TTGGTGTCATGAGTGCTAAGAA
Found at i:64676366 original size:21 final size:21
Alignment explanation
Indices: 64676341--64676406 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 21
64676331 AGAAAACATA
64676341 AAAATAAAAAAAATATTTTTT
1 AAAATAAAAAAAATATTTTTT
*
64676362 AAAATGAAAATTATAA-ATTTTTT
1 AAAAT-AAAA--AAAATATTTTTT
* * *
64676385 AAAA-AATATAAATAATTTTT
1 AAAATAAAAAAAATATTTTTT
64676405 AA
1 AA
64676407 CCAGATTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.06
20 8 0.22
21 8 0.22
22 4 0.11
23 11 0.31
24 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATAAAAAAAATATTTTTT
Found at i:64686435 original size:18 final size:18
Alignment explanation
Indices: 64686392--64686435 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
64686382 AGTGAAATTT
*
64686392 ATATGAAAATCCCTGAAGA
1 ATAT-AAAATCCCAGAAGA
* *
64686411 ATTTAAAATCCCAGAAGG
1 ATATAAAATCCCAGAAGA
64686429 ATATAAA
1 ATATAAA
64686436 GTTTCTCGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGA
Found at i:64693815 original size:20 final size:20
Alignment explanation
Indices: 64693785--64693841 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
64693775 TGTTGGAATA
*
64693785 TCCTTTTCATTTTCCTTTTT
1 TCCTCTTCATTTTCCTTTTT
*
64693805 TCAC-CTTCATTTTCTTTTTT
1 TC-CTCTTCATTTTCCTTTTT
64693825 TCCTCTTCATTTTCCTT
1 TCCTCTTCATTTTCCTT
64693842 GACTTTCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (20 bp):
TCCTCTTCATTTTCCTTTTT
Found at i:64698870 original size:43 final size:43
Alignment explanation
Indices: 64698746--64698905 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
64698736 TTACGTGTTA
* *
64698746 TCATGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGATT
* *
64698789 TACGTGTAAGACCATGCCTGGGACATTGGCATCG-TATTTGATT
1 T-CATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * *
64698832 TCATGTAAGACCCTGTCTGGGACAGTGTCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * **
64698875 ACATGTAAGACAATGTCTGGGATGTTGGCAT
1 TCATGTAAGACCATGTCTGGGACATTGGCAT
64698906 TGTATGAGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 29 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
Found at i:64704902 original size:6 final size:6
Alignment explanation
Indices: 64704891--64704917 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64704881 AAAAGAAGAG
64704891 AAACCC AAACCC AAACCC AAACCC AAA
1 AAACCC AAACCC AAACCC AAACCC AAA
64704918 TAGGCCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCC
Found at i:64706577 original size:27 final size:27
Alignment explanation
Indices: 64706547--64706600 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
64706537 TATGTCTATT
64706547 TCTGATTGTAACATAGCCATGGGTTTC
1 TCTGATTGTAACATAGCCATGGGTTTC
64706574 TCTGATTGTAACATAGCCATGGGTTTC
1 TCTGATTGTAACATAGCCATGGGTTTC
64706601 GTTGACCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGATTGTAACATAGCCATGGGTTTC
Found at i:64707929 original size:8 final size:7
Alignment explanation
Indices: 64707898--64707925 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
64707888 CTCGAATTCG
64707898 TAAAAAA
1 TAAAAAA
64707905 TAAAAAA
1 TAAAAAA
64707912 TAAAAAA
1 TAAAAAA
64707919 TAAAAAA
1 TAAAAAA
64707926 ATAACATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:64711075 original size:21 final size:21
Alignment explanation
Indices: 64711051--64711097 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
64711041 TTAAATTTTG
64711051 AAAATTG-GTTTTTAAAAATAA
1 AAAATTGCGTTTTTAAAAA-AA
* * *
64711072 AAAAATGCTTTTTTTAAAAAA
1 AAAATTGCGTTTTTAAAAAAA
64711093 AAAAT
1 AAAAT
64711098 CTCAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (21 bp):
AAAATTGCGTTTTTAAAAAAA
Found at i:64712159 original size:17 final size:18
Alignment explanation
Indices: 64712127--64712161 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
64712117 AGGTTTAGGT
*
64712127 TTAAATTTTTTTAATTAA
1 TTAAATTTTTTAAATTAA
64712145 TTAAA-TTTTTAAATTAA
1 TTAAATTTTTTAAATTAA
64712162 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTTTTTAAATTAA
Found at i:64714587 original size:21 final size:21
Alignment explanation
Indices: 64714554--64714593 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64714544 ACCTTAAACC
*
64714554 TTAAGATTTAGGGCTCAAGGT
1 TTAAGATTCAGGGCTCAAGGT
* *
64714575 TTAAGGTTCAGGGTTCAAG
1 TTAAGATTCAGGGCTCAAG
64714594 TTCAAGTCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (21 bp):
TTAAGATTCAGGGCTCAAGGT
Found at i:64720359 original size:44 final size:44
Alignment explanation
Indices: 64720305--64720402 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
64720295 GGTTTAGGAA
* *
64720305 TTGTCACTTCGATCCAATCCATTGCAACTTCAGGGAGATAAGAC
1 TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
* * *
64720349 TTGTAGCTTCGATCCACTTCACTGCAACTTCAGGGAGATAAGAC
1 TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
64720393 TTGTAACTTC
1 TTGTAACTTC
64720403 AATCTGCTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
Found at i:64720423 original size:44 final size:44
Alignment explanation
Indices: 64720327--64720803 Score: 266
Period size: 44 Copynumber: 10.7 Consensus size: 44
64720317 TCCAATCCAT
* * **
64720327 TGCAACTTCAGGGAGATAAGACTTGTAGCTTCGATCCACTTCAC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
*
64720371 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCGC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
* * * ** * *
64720415 TGCTACTTCAGGGAGATGAGATTTGTGTCTTCAATTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
* * * * *
64720459 TGCAACCTCAGGGAGATAA-AATGTGTAGCTGT-AATTTGC-TCTGC
1 TGCAACTTCAGGGAGATAAGACT-TGTAACT-TCAATCTGCTTC-AC
*** * ** * *
64720503 TGCAACTTCAAAAAGATAAGATTTGTTATTTTTAACCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGACTTG-TAACTTCAATCTGCTTCAC
* * ** * *
64720548 TGCAATTTTAGGGAGATAAGGTTTG-AGTCTTTAATCTG-TTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTA-ACTTCAATCTGCTT-CAC
** * *
64720592 TGCAACTTCAAAGAGATAAGATTTGTAGCCCGTCTTCAATCTGC-TCTAC
1 TGCAACTTCAGGGAGATAAGACTTGTA-----ACTTCAATCTGCTTC-AC
* * * * *
64720641 TGCAACTTCAGGGTGATTAGACTTGTAGCTTAAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
* * * * ** * *
64720685 TACAACTTTAGGGAGATAAGATTTGCTATCTTTGATTTAC-TCTAC
1 TGCAACTTCAGGGAGATAAGACTTG-TAACTTCAATCTGCTTC-AC
* * * * * * * *
64720730 TGCAACTTCAGTGAGATAAGATTTTCTATCTTCGATTTACTCCAC
1 TGCAACTTCAGGGAGATAAGA-CTTGTAACTTCAATCTGCTTCAC
64720775 TGCAACTTCAGGGAGATAAGACTTGTAAC
1 TGCAACTTCAGGGAGATAAGACTTGTAAC
64720804 ACCCCCTAAC
Statistics
Matches: 338, Mismatches: 74, Indels: 42
0.74 0.16 0.09
Matches are distributed among these distances:
43 6 0.02
44 192 0.57
45 97 0.29
46 6 0.02
48 1 0.00
49 36 0.11
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
Found at i:64720525 original size:88 final size:88
Alignment explanation
Indices: 64720368--64720750 Score: 209
Period size: 89 Copynumber: 4.3 Consensus size: 88
64720358 CGATCCACTT
* * * *** *
64720368 CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCGCTGCTACTTCAGGGAGATG
1 CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
64720433 AGATTTGTGTCTTCAATTTGCTC
66 AGATTTGTGTCTTCAATTTGCTC
* *
64720456 CACTGCAACCTCAGGGAGATAA-AATGTGTAGCTGT-AATTTGC-TCTGCTGCAACTTCAAAAAG
1 CACTGCAACCTCAGGGAGATAAGAAT-TGTAACT-TCAATCTGCTTC-GCTGCAACTTCAAAAAG
* * * ** *
64720518 ATAAGATTTGTTATTTTTAACCTGCTT
63 ATAAGATTTG-TGTCTTCAATTTGCTC
** * ** * * * *
64720545 CACTGCAATTTTAGGGAGATAAGGTTTG-AGTCTTTAATCTG-TTCCACTGCAACTTCAAAGAGA
1 CACTGCAACCTCAGGGAGATAAGAATTGTA-ACTTCAATCTGCTT-CGCTGCAACTTCAAAAAGA
*
64720608 TAAGATTTGTAGCCCGTCTTCAATCTGCTC
64 TAAGATTTGT-----GTCTTCAATTTGCTC
* * * * * * * * * * * ***
64720638 TACTGCAACTTCAGGGTGATTAGACTTGTAGCTTAAATCTGCTCCACTACAACTTTAGGGAGATA
1 CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
* ** *
64720703 AGATTTGCTATCTTTGATTTACTC
66 AGATTTG-TGTCTTCAATTTGCTC
* * *
64720727 TACTGCAACTTCAGTGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGA
64720751 TTTTCTATCT
Statistics
Matches: 227, Mismatches: 51, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
87 4 0.02
88 58 0.26
89 96 0.42
90 2 0.01
93 64 0.28
94 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (88 bp):
CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
AGATTTGTGTCTTCAATTTGCTC
Found at i:64720667 original size:49 final size:49
Alignment explanation
Indices: 64720574--64720669 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
64720564 TAAGGTTTGA
* * *
64720574 GTCTTTAATCTGTTCCACTGCAACTTCAAAGAGATAAGATTTGTAGCCC
1 GTCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGACTTGTAGCCC
* ** * *
64720623 GTCTTCAATCTGCTCTACTGCAACTTCAGGGTGATTAGACTTGTAGC
1 GTCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGACTTGTAGC
64720670 TTAAATCTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (49 bp):
GTCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGACTTGTAGCCC
Found at i:64721935 original size:42 final size:42
Alignment explanation
Indices: 64721888--64721992 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
64721878 TATGACACAC
64721888 AAGTGCCTGAAACGACACACGAGGTG-CTTGATACGACACATA
1 AAGTGCCTGAAACGACACACGAGGTGTC-TGATACGACACATA
*
64721930 AAGTGCCTGAAACGACACATGAGGTGTCTGATACGACACATA
1 AAGTGCCTGAAACGACACACGAGGTGTCTGATACGACACATA
64721972 AAGTGCCTGATATACGACACA
1 AAGTGCCTGA-A-ACGACACA
64721993 TAAAGTGTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
42 49 0.83
43 2 0.03
44 8 0.14
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (42 bp):
AAGTGCCTGAAACGACACACGAGGTGTCTGATACGACACATA
Found at i:64721990 original size:23 final size:22
Alignment explanation
Indices: 64721888--64721999 Score: 124
Period size: 21 Copynumber: 5.2 Consensus size: 22
64721878 TATGACACAC
**
64721888 AAGTGCCTGAA-ACGACACACG
1 AAGTGCCTGAATACGACACATA
* *
64721909 AGGTGCTTG-ATACGACACATA
1 AAGTGCCTGAATACGACACATA
*
64721930 AAGTGCCTGAA-ACGACACATG
1 AAGTGCCTGAATACGACACATA
* *
64721951 AGGTGTCTG-ATACGACACATA
1 AAGTGCCTGAATACGACACATA
64721972 AAGTGCCTGATATACGACACATA
1 AAGTGCCTGA-ATACGACACATA
64721995 AAGTG
1 AAGTG
64722000 TCTATTGGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
20 2 0.03
21 54 0.73
22 1 0.01
23 17 0.23
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (22 bp):
AAGTGCCTGAATACGACACATA
Found at i:64723882 original size:89 final size:88
Alignment explanation
Indices: 64723714--64724448 Score: 548
Period size: 89 Copynumber: 8.3 Consensus size: 88
64723704 AATCGGTTCT
* * * ** * * *
64723714 ACTGCAACTTTAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAA-TCTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCTACTGCAACT-TCAGGGAGAT
* * * *
64723778 AAGACTTGTGA-CTTCAACCTGCTTC
64 AAGATTTAT-ATCTTCAATCTGCTCC
* * * * *
64723803 ACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCTACTTTACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* *
64723868 TATTTACTATCTTCAATCTACTCC
66 GATTTA-TATCTTCAATCTGCTCC
* * * * * *
64723892 ACTACATCTTCAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * **
64723957 GGTTTATAGT-TTTAATCTACTTT
66 GATTTATA-TCTTCAATCTGCTCC
* * * * ** *
64723980 ACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
* *
64724045 AGACTTGTA-AT-TTCAACCTCCTCC
65 AGA-TT-TATATCTTCAATCTGCTCC
* * * * * *
64724069 ACTACAACTTTAGGGAGATAAGGA-TTATAGCTTTAATCTGCTTTACTGTAACTTCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAA-GATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
* * * *
64724133 AGATTTGCTATCTTCAGTTTGTTCC
65 AGATTT-ATATCTTCAATCTGCTCC
* * * * *
64724158 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* *
64724223 TATTTGTTATCTTCAATCTGCTCC
66 GATTT-ATATCTTCAATCTGCTCC
* * * * * * *
64724247 ACTGTAACCTCAGGGAGATAAGACTTATAA-TTTCAACCTGCTCCACCGCAACTTCAGCGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTT-AATCTGCTCTACTGCAACTTCAGGGAGATA
* * * * *
64724311 AGGTTTATAGCTTTAATCTTCTCT
65 AGATTTATATCTTCAATCTGCTCC
* * ** * * * * * * * *
64724335 TCTGAAACTTCAAAGAGACAAGATTTGCTATCTTCAGTCTGCTCCACTGCAATTTCAGGGAGACA
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
* ** *
64724400 AGATTTGTGGCTTTAATCTGCTCC
65 AGATTTATATCTTCAATCTGCTCC
64724424 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
64724449 CACCATGATG
Statistics
Matches: 511, Mismatches: 120, Indels: 30
0.77 0.18 0.05
Matches are distributed among these distances:
86 1 0.00
87 2 0.00
88 141 0.28
89 358 0.70
90 7 0.01
91 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
GATTTATATCTTCAATCTGCTCC
Found at i:64723905 original size:133 final size:133
Alignment explanation
Indices: 64723713--64724222 Score: 617
Period size: 133 Copynumber: 3.8 Consensus size: 133
64723703 TAATCGGTTC
* * * * * * *
64723713 TACTGCAACTTTAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAATC-TCAGGGAGA
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGC-ATCTTCAGGGAGA
* * *
64723777 TAAGACTTGTGACTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCT
65 TAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCT
64723842 ACTT
130 ACTT
* * *
64723846 TACTGCAACTTCAGAGAGATAATATTTACTATCTTCAATCTACTCCACTACATCTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * *
64723911 AAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTA
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
64723976 CTT
131 CTT
* * * * *
64723979 TACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * * * *
64724044 AAGACTTGTAATTTCAACCTCCTCCACTACAACTTTAGGGAGATAAGGATTATAGCTTTAATCTG
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
64724109 CTT
131 CTT
* * * ** * * * *
64724112 TACTGTAACTTCAGAGAGATAAGATTTGCTATCTTCAGTTTGTTCCACTGGAACTTCAGGTAGAC
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * * * * * * *
64724177 AAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAA
64724223 TATTTGTTAT
Statistics
Matches: 325, Mismatches: 51, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 3 0.01
133 322 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (133 bp):
TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
CTT
Found at i:64724161 original size:222 final size:222
Alignment explanation
Indices: 64723714--64724448 Score: 782
Period size: 222 Copynumber: 3.3 Consensus size: 222
64723704 AATCGGTTCT
* * * * ** * *
64723714 ACTGCAACTTTAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAA-TCTCAGGGAGAT
1 ACTGCAACTTCAGGGAGACAAGATTT-ATAGCTTTAATCTACTCTACTGCAACT-TCAGGGAGAT
* * * * * * ** *
64723778 AAGACTTGTGA-CTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTATAACTTT-AATC
64 AAGATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAA-TTTCAACC
* ** ** * * * * * ** *
64723841 TACTTTACTGCAACTTCAGAGAGATAA-TATTTACTATCTTCAATCTACTCCACT-ACATCTTCA
128 TCCTCCACCACAACTTCAGCGAGATAAGGA-TTA-TAGCTTTAATCTGCTCTTCTGA-AACTTCA
* * **
64723904 GGGAGATAAGATTTG-TAACTTCAACCTGCTCC
190 GAGAGATAAGATTTGCTATCTTCAGTCTGCTCC
* * * * * *
64723936 ACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTACTTTACTGCAGCTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
* * *
64724001 GATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTCC
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAATTTCAACCTCC
* * * *
64724066 TCCACTACAACTTTAGGGAGATAAGGATTATAGCTTTAATCTGCT-TTACTGTAACTTCAGAGAG
131 TCCACCACAACTTCAGCGAGATAAGGATTATAGCTTTAATCTGCTCTT-CTGAAACTTCAGAGAG
* *
64724130 ATAAGATTTGCTATCTTCAGTTTGTTCC
195 ATAAGATTTGCTATCTTCAGTCTGCTCC
* *
64724158 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
* * *
64724223 TATTTGTTATCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACTTATAATTTCAACCTGC
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAATTTCAACCTCC
* * * *
64724288 TCCACCGCAACTTCAGCGAGATAAGGTTTATAGCTTTAATCTTCTCTTCTGAAACTTCAAAGAGA
131 TCCACCACAACTTCAGCGAGATAAGGATTATAGCTTTAATCTGCTCTTCTGAAACTTCAGAGAGA
*
64724353 CAAGATTTGCTATCTTCAGTCTGCTCC
196 TAAGATTTGCTATCTTCAGTCTGCTCC
* * * * *
64724380 ACTGCAATTTCAGGGAGACAAGATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
64724445 GATT
66 GATT
64724449 CACCATGATG
Statistics
Matches: 432, Mismatches: 73, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
221 74 0.17
222 355 0.82
223 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (222 bp):
ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
GATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAATTTCAACCTCC
TCCACCACAACTTCAGCGAGATAAGGATTATAGCTTTAATCTGCTCTTCTGAAACTTCAGAGAGA
TAAGATTTGCTATCTTCAGTCTGCTCC
Found at i:64724292 original size:133 final size:132
Alignment explanation
Indices: 64724155--64724448 Score: 347
Period size: 133 Copynumber: 2.2 Consensus size: 132
64724145 TTCAGTTTGT
* * * **
64724155 TCCACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGG-AGATAAGATTTATAGCTTTAATCTACTCTACTGAAACTTCAAAGAGA
* * * * *
64724220 TAATATTTGTTATCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACTTAT-AATTTCAAC
65 CAAGATTTGCTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGACAAGACTTATGAATTT-AAC
64724284 CTGC
129 CTGC
* * * *
64724288 TCCACCGCAACTTCAGCGAGATAAGGTTTATAGCTTTAATCTTCTCTTCTGAAACTTCAAAGAGA
1 TCCACTGCAACTTCAG-GAGATAAGATTTATAGCTTTAATCTACTCTACTGAAACTTCAAAGAGA
* ** * * ** *
64724353 CAAGATTTGCTATCTTCAGTCTGCTCCACTGCAATTTCAGGGAGACAAGATTTGTGGCTTTAATC
65 CAAGATTTGCTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGACAAGACTTATGAATTTAACC
64724418 TGC
130 TGC
64724421 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCA-GGAGATAAGATT
64724449 CACCATGATG
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
133 129 0.96
134 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (132 bp):
TCCACTGCAACTTCAGGAGATAAGATTTATAGCTTTAATCTACTCTACTGAAACTTCAAAGAGAC
AAGATTTGCTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGACAAGACTTATGAATTTAACCT
GC
Found at i:64725356 original size:5 final size:5
Alignment explanation
Indices: 64725337--64725382 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
64725327 CCTCTCACTT
*
64725337 TTTTC TCTT- TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
64725383 GCTCTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 11 0.30
5 26 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:64725359 original size:10 final size:10
Alignment explanation
Indices: 64725337--64725382 Score: 62
Period size: 9 Copynumber: 4.9 Consensus size: 10
64725327 CCTCTCACTT
*
64725337 TTTTCTCTT-
1 TTTTCTTTTC
64725346 TTTTCTTTTC
1 TTTTCTTTTC
64725356 TTTTCTTTTC
1 TTTTCTTTTC
64725366 TTTTC-TTTC
1 TTTTCTTTTC
64725375 -TTTCTTTT
1 TTTTCTTTT
64725383 GCTCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
8 4 0.12
9 15 0.44
10 15 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:64725361 original size:19 final size:21
Alignment explanation
Indices: 64725337--64725392 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
64725327 CCTCTCACTT
64725337 TTTTCTCTTTTTTC-T-TTTC
1 TTTTCTCTTTTTTCTTCTTTC
*
64725356 TTTTCTTTTCTTTTCTTTCTTTC
1 TTTTCTCTT-TTTTC-TTCTTTC
64725379 TTTTGCTCTTTTTT
1 TTTT-CTCTTTTTT
64725393 TTAGGTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 8 0.27
20 5 0.17
22 1 0.03
23 12 0.40
24 4 0.13
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTCTTTTTTCTTCTTTC
Found at i:64725393 original size:24 final size:24
Alignment explanation
Indices: 64725337--64725382 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
64725327 CCTCTCACTT
64725337 TTTTCTCTTT-TTTCTTTTCTTTTC
1 TTTTCT-TTTCTTTCTTTTCTTTTC
64725361 TTTTCTTTTCTTTC-TTTCTTTT
1 TTTTCTTTTCTTTCTTTTCTTTT
64725383 GCTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTCTTTTCTTTCTTTTCTTTTC
Found at i:64734537 original size:50 final size:50
Alignment explanation
Indices: 64734417--64734601 Score: 237
Period size: 50 Copynumber: 3.7 Consensus size: 50
64734407 CTGGTATGCA
*
64734417 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
* * * *
64734466 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
* * * * * * *
64734516 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-TTATCCGGTACACG
*
64734567 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTA
64734602 GCTACATATA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 31 0.27
50 46 0.40
51 39 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
Found at i:64734619 original size:101 final size:99
Alignment explanation
Indices: 64734417--64734601 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
64734407 CTGGTATGCA
* * *
64734417 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
64734482 GTACTACACACGTGACCTAACTATCTGATACACG
66 GTACTACACACGCGACCTAACTATCTGATACACG
* * * *
64734516 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAATACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
64734581 TAGTACTACACATGCGACCTA
64 TAGTACTACACACGCGACCTA
64734602 GCTACATATA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAATACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACTATCTGATACACG
Found at i:64738345 original size:22 final size:22
Alignment explanation
Indices: 64738320--64738363 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
64738310 TTTTCATATA
64738320 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
64738342 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
64738364 TATTTAATAT
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:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:64738399 original size:13 final size:13
Alignment explanation
Indices: 64738383--64738408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64738373 TTTCAATTTT
64738383 ATTTTAAAAATAA
1 ATTTTAAAAATAA
64738396 ATTTTAAAAATAA
1 ATTTTAAAAATAA
64738409 TAATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTTAAAAATAA
Found at i:64738466 original size:15 final size:15
Alignment explanation
Indices: 64738446--64738502 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
64738436 ATTCAATATT
64738446 AATATTTTAATAATA
1 AATATTTTAATAATA
*
64738461 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
64738480 AATATATTAATAATA
1 AATATTTTAATAATA
64738495 AATATTTT
1 AATATTTT
64738503 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:64738944 original size:14 final size:14
Alignment explanation
Indices: 64738925--64738963 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
64738915 CTAAAAAAGT
64738925 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
64738939 AAATTATTTTTCGA
1 AAATTATTTTTCAA
64738953 AAATTATTTTT
1 AAATTATTTTT
64738964 AATGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:64745488 original size:25 final size:26
Alignment explanation
Indices: 64745437--64745539 Score: 69
Period size: 25 Copynumber: 4.2 Consensus size: 26
64745427 TATAACTGGT
*
64745437 AGCTCC-GAATAGCCAT-TAATCGAGA
1 AGCTCCAGAATAGCCATAT-ATCGGGA
64745462 AGCTCCAG-ATAGCCATATATCGGGA
1 AGCTCCAGAATAGCCATATATCGGGA
* * *
64745487 AGTTCAAGCA-AGCC--ATATCGGGA
1 AGCTCCAGAATAGCCATATATCGGGA
* * *
64745510 AGCTCTA-AAGAGCCA-ATTAACGGGA
1 AGCTCCAGAATAGCCATA-TATCGGGA
64745535 AGCTC
1 AGCTC
64745540 ACGAAGAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
22 1 0.02
23 18 0.28
24 1 0.02
25 42 0.65
26 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
AGCTCCAGAATAGCCATATATCGGGA
Found at i:64745551 original size:25 final size:23
Alignment explanation
Indices: 64745497--64745571 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 23
64745487 AGTTCAAGCA
*
64745497 AGCC-ATATCGGGAAGCTCTAAAG
1 AGCCAATAACGGGAAGCTC-AAAG
64745520 AGCCAATTAACGGGAAGCTCACGAAG
1 AGCCAA-TAACGGGAAGCTCA--AAG
* *
64745546 AG-CAATAACAGGACGCTCATAAG
1 AGCCAATAACGGGAAGCTCA-AAG
64745569 AGC
1 AGC
64745572 TAAGGTGTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
23 9 0.21
24 14 0.33
25 15 0.35
26 5 0.12
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.13
Consensus pattern (23 bp):
AGCCAATAACGGGAAGCTCAAAG
Found at i:64745563 original size:24 final size:26
Alignment explanation
Indices: 64745517--64745564 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
64745507 GGAAGCTCTA
*
64745517 AAGAGCCAATTAACGGGAAGCTCACG
1 AAGAGCCAATTAACAGGAAGCTCACG
*
64745543 AAGAG-CAA-TAACAGGACGCTCA
1 AAGAGCCAATTAACAGGAAGCTCA
64745565 TAAGAGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 3 0.15
26 5 0.25
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (26 bp):
AAGAGCCAATTAACAGGAAGCTCACG
Found at i:64750572 original size:18 final size:18
Alignment explanation
Indices: 64750549--64750609 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
64750539 GCACTTGAAT
*
64750549 AACTCAATTTCTAGTATA
1 AACTCAATTTCCAGTATA
64750567 AACTCAATTTCCAGTATA
1 AACTCAATTTCCAGTATA
*
64750585 AACTCAATTTCCAGCATA
1 AACTCAATTTCCAGTATA
*
64750603 GACTCAA
1 AACTCAA
64750610 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (18 bp):
AACTCAATTTCCAGTATA
Found at i:64751404 original size:15 final size:15
Alignment explanation
Indices: 64751386--64751415 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64751376 AAATTTTAAT
64751386 TTTTTATAATTTATA
1 TTTTTATAATTTATA
64751401 TTTTTATAATTTATA
1 TTTTTATAATTTATA
64751416 AAAGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:64751928 original size:27 final size:27
Alignment explanation
Indices: 64751890--64751947 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
64751880 CATTTTGAGC
* *
64751890 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
64751917 TTCTCTAACTCCAATCTCACCCTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
64751944 TTCT
1 TTCT
64751948 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.40, G:0.02, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCACCCTCTCA
Found at i:64753703 original size:3 final size:3
Alignment explanation
Indices: 64753697--64753724 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
64753687 CATCATCATC
64753697 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
64753725 AATTTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:64756502 original size:65 final size:65
Alignment explanation
Indices: 64756394--64756540 Score: 240
Period size: 65 Copynumber: 2.3 Consensus size: 65
64756384 GATACATGGA
* *
64756394 TCTCCAACATACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAATAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
* * * *
64756459 TCTCCAACACACCAATTGACTCATAGAGTTGAACATATTCCAAAAGTGAAGCATAAAGTTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
64756524 TCTCCAACACACCAAAT
1 TCTCCAACACACCAAAT
64756541 ATGTCCTGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
Found at i:64758729 original size:4 final size:4
Alignment explanation
Indices: 64758720--64758744 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
64758710 TCTAACATTC
64758720 ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA A
64758745 GGTGTGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:64760558 original size:15 final size:15
Alignment explanation
Indices: 64760538--64760571 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
64760528 TTCATAAAGT
64760538 ATAAAAACTAATAGC
1 ATAAAAACTAATAGC
64760553 ATAAAAACTAATAGC
1 ATAAAAACTAATAGC
64760568 ATAA
1 ATAA
64760572 TTTAACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
ATAAAAACTAATAGC
Found at i:64762874 original size:27 final size:27
Alignment explanation
Indices: 64762836--64762893 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
64762826 CATTTTGAGC
* *
64762836 TTCTCTAACTCCAGTCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
64762863 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
64762890 TTCT
1 TTCT
64762894 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:64764633 original size:3 final size:3
Alignment explanation
Indices: 64764627--64764651 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
64764617 GTTGGTGGTT
64764627 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
64764652 AGTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64768790 original size:26 final size:27
Alignment explanation
Indices: 64768761--64768833 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
64768751 TCGGTCATTG
*
64768761 AGCACTAAGTGTG-AAAGTTGGTTTTA-
1 AGCACTAAGTGTGCAAA-TTGGATTTAC
64768787 AGCACTAAGTGTGCAAATTGGATTTAC
1 AGCACTAAGTGTGCAAATTGGATTTAC
*
64768814 GAGCACTAAGTTTGCGAAAT
1 -AGCACTAAGTGTGC-AAAT
64768834 CAGTTATTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 21 0.51
27 3 0.07
28 13 0.32
29 4 0.10
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCAAATTGGATTTAC
Found at i:64770189 original size:18 final size:17
Alignment explanation
Indices: 64770147--64770204 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
64770137 TAAATAAGTG
64770147 AATAAA-TAATGATAA-
1 AATAAAGTAATGATAAT
64770162 AAT-AAG-AATGATAGAT
1 AATAAAGTAATGATA-AT
*
64770178 AATAAAGTAATGACAAT
1 AATAAAGTAATGATAAT
64770195 AATAGAAGTA
1 AATA-AAGTA
64770205 TAAATAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.25
15 4 0.11
16 3 0.08
17 9 0.25
18 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (17 bp):
AATAAAGTAATGATAAT
Found at i:64771258 original size:7 final size:7
Alignment explanation
Indices: 64771246--64771278 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
64771236 GACAAAAGAT
64771246 AAATATA
1 AAATATA
64771253 AAATATA
1 AAATATA
64771260 AAA-ATA
1 AAATATA
64771266 AAA-ATA
1 AAATATA
64771272 AAATATA
1 AAATATA
64771279 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAATATA
Found at i:64771266 original size:6 final size:6
Alignment explanation
Indices: 64771239--64771300 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
64771229 GATTTATGAC
* * *
64771239 AAAAGAT AAATAT AAAATAT AAAAAT AAAAAT AAAATAT AGAAAAA AAAAAC
1 AAAA-AT AAAAAT AAAA-AT AAAAAT AAAAAT AAAA-AT A-AAAAT AAAAAT
*
64771291 AAAAAG AAAA
1 AAAAAT AAAA
64771301 CGAAATGTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
6 30 0.64
7 14 0.30
8 3 0.06
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:64771272 original size:19 final size:19
Alignment explanation
Indices: 64771239--64771294 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
64771229 GATTTATGAC
*
64771239 AAAAGATAAATATAAAATAT
1 AAAA-ATAAAAATAAAATAT
64771259 AAAAATAAAAATAAAATAT
1 AAAAATAAAAATAAAATAT
* *
64771278 AGAAAAAAAAAACAAAA
1 A-AAAATAAAAATAAAA
64771295 AGAAAACGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAAATAAAAATAAAATAT
Found at i:64771287 original size:13 final size:13
Alignment explanation
Indices: 64771246--64771287 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
64771236 GACAAAAGAT
64771246 AAATATAAAATATA
1 AAATATAAAA-ATA
64771260 AAA-ATAAAAATA
1 AAATATAAAAATA
64771272 AAATATAGAAAA-A
1 AAATATA-AAAATA
64771285 AAA
1 AAA
64771288 AACAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 13 0.50
14 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATATAAAAATA
Found at i:64771288 original size:26 final size:26
Alignment explanation
Indices: 64771239--64771300 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
64771229 GATTTATGAC
* *
64771239 AAAAGATAAATATAAAATATAAAAATA
1 AAAAGA-AAATATAAAATAAAAAAACA
*
64771266 AAAATAAAATATAGAAA-AAAAAAACA
1 AAAAGAAAATATA-AAATAAAAAAACA
64771292 AAAAGAAAA
1 AAAAGAAAA
64771301 CGAAATGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (26 bp):
AAAAGAAAATATAAAATAAAAAAACA
Found at i:64771482 original size:18 final size:19
Alignment explanation
Indices: 64771451--64771488 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
64771441 TGCCTATGCC
* *
64771451 TTTTGTTTTCTTGCTTTGT
1 TTTTGCTTTCTTGCTCTGT
64771470 TTTTGCTTT-TTGCTCTGT
1 TTTTGCTTTCTTGCTCTGT
64771488 T
1 T
64771489 GTCTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (19 bp):
TTTTGCTTTCTTGCTCTGT
Found at i:64776853 original size:4 final size:4
Alignment explanation
Indices: 64776840--64776904 Score: 50
Period size: 4 Copynumber: 17.0 Consensus size: 4
64776830 ATAAAACACC
* *
64776840 TAAA -AAA TAAA TAAA T-AA TAAA T-AA TAAA T-AA TAAA TTAA TAAGGT
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA--A
*
64776886 TAAA -AAT TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
64776905 AATAAAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
3 14 0.29
4 31 0.65
6 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:64776854 original size:11 final size:11
Alignment explanation
Indices: 64776840--64776912 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
64776830 ATAAAACACC
64776840 TAAAAAATAAA
1 TAAAAAATAAA
*
64776851 TAAATAATAAA
1 TAAAAAATAAA
*
64776862 TAATAAAT-AA
1 TAAAAAATAAA
* *
64776872 TAAATTAATAAGGT
1 TAAA-AAATAA--A
*
64776886 TAAAAATTAAA
1 TAAAAAATAAA
*
64776897 TAAATAA-AAA
1 TAAAAAATAAA
64776907 TAAAAA
1 TAAAAA
64776913 CCAAGCTGTA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
10 13 0.28
11 24 0.52
12 1 0.02
13 4 0.09
14 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:64776859 original size:7 final size:7
Alignment explanation
Indices: 64776844--64776882 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
64776834 AACACCTAAA
64776844 AAATAAAT
1 AAAT-AAT
64776852 AAATAAT
1 AAATAAT
64776859 AAATAAT
1 AAATAAT
64776866 AAATAAT
1 AAATAAT
64776873 AAATTAAT
1 AAA-TAAT
64776881 AA
1 AA
64776883 GGTTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 20 0.67
8 10 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:64781763 original size:77 final size:77
Alignment explanation
Indices: 64781636--64781791 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
64781626 CACTTAGGCT
64781636 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
64781701 GACATCATTTTA
66 GACATCATTTTA
64781713 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
64781778 GACATCATTTTA
66 GACATCATTTTA
64781790 AT
1 AT
64781792 GATTTAGCAC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (77 bp):
ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
GACATCATTTTA
Found at i:64783403 original size:49 final size:46
Alignment explanation
Indices: 64783286--64783556 Score: 208
Period size: 49 Copynumber: 5.7 Consensus size: 46
64783276 GTAGGATGCT
* * * *
64783286 GATGTCATGTGCCAAACATGGTCTTACACTGACTCAT-ACATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCACATC-AGCC
64783333 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAC-ATC-A-GCC
* * * * * *
64783382 CACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAC--AT-C-AGCC
* * * * *
64783432 GATGCCATGTCCTAAACATGGTCTTACACTAACACATCTCAT-AGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCACATCAGCC
* ** *
64783478 GATGCCATGTCGCAGACATGGTCTTACACT-AGCCCTCGTC-TCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATC-ACAT-CA-GCC
*
64783526 AATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
64783557 GCTCTTATAA
Statistics
Matches: 183, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
45 5 0.03
46 34 0.19
47 34 0.19
48 35 0.19
49 39 0.21
50 31 0.17
51 5 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATCAGCC
Found at i:64783460 original size:50 final size:49
Alignment explanation
Indices: 64783286--64783601 Score: 192
Period size: 47 Copynumber: 6.6 Consensus size: 49
64783276 GTAGGATGCT
* * * * *
64783286 GATGTCATGTGCCAAACATGGTCTTACACTGACTCAT-AC-ATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAATCGAGGAC
*
64783333 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
* * * * *
64783382 CACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACA-AT-CGAGGAC
* * * * * *
64783432 GATGCCATGTCCTAAACATGGTCTTACACTAACACATCTC-AT--A-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCACAATCGAGGAC
* ** * * * *
64783478 GATGCCATGTCGCAGACATGGTCTTACACT-AGCCCTCGTC--TCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATC-ACAATCGAGGAC
* * * * * * *
64783526 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
*
64783574 GATG-TATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
64783602 AGCACACATG
Statistics
Matches: 217, Mismatches: 37, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
45 5 0.02
46 44 0.20
47 47 0.22
48 43 0.20
49 42 0.19
50 31 0.14
51 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
Found at i:64783558 original size:144 final size:145
Alignment explanation
Indices: 64783286--64783561 Score: 364
Period size: 144 Copynumber: 1.9 Consensus size: 145
64783276 GTAGGATGCT
* * * *
64783286 GATGTCATGTGCCAAACATGGTCTTACACTGACTCATACATCAAGTCGATGCCATGTCCCAGACA
1 GATGCCATGTGCCAAACATGGTCTTACACTAACACATACATCAAGCCGATGCCATGTCCCAGACA
* * *
64783351 TGGTCTTACACTGACTATCACAATCGAGGCCCACGCCATGTCCCAGACATGGTCTTACACTGGCT
66 TGGTCTTACACTGACCATCAC-ATCCAGGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCT
64783416 CTCACATATCCGTGAC
130 CTCACATATCCGTGAC
*
64783432 GATGCCATGT-CCTAAACATGGTCTTACACTAACACAT-C-TCATAGCCGATGCCATGTCGCAGA
1 GATGCCATGTGCC-AAACATGGTCTTACACTAACACATACATCA-AGCCGATGCCATGTCCCAGA
* * * *
64783494 CATGGTCTTACACT-AGCCCTCGTC-TCCATGCCAATGCCATGTCCCAGACATGGTCTTACACTG
64 CATGGTCTTACACTGA-CCATC-ACATCCAGGCCAACGCCATGTCCCAGACATGGTCTTACACTG
64783557 GCTCT
127 GCTCT
64783562 TATAATGTGG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
144 44 0.39
145 38 0.33
146 32 0.28
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (145 bp):
GATGCCATGTGCCAAACATGGTCTTACACTAACACATACATCAAGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGACCATCACATCCAGGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCTC
TCACATATCCGTGAC
Found at i:64783596 original size:94 final size:98
Alignment explanation
Indices: 64783334--64783604 Score: 275
Period size: 94 Copynumber: 2.8 Consensus size: 98
64783324 CATCAAGTCG
* * * * * *
64783334 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCCCACGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAAT-GTGGCCGATGCCATGTCCCAGAC
* * *
64783399 ATGGTCTTACACTGGCTCTCACATATCCGTGACG
65 ATGGTCTTACACTAGCTCTCACATATCCATGACA
* * * * * * * * *
64783433 ATGCCATGTCCTAAACATGGTCTTACACTAACACATCTCA--TAGCCGATGCCATGTCGCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAATGTGGCCGATGCCATGTCCCAGACA
* * * *
64783496 TGGTCTTACACTAGC-C-CTCGTCTCCATGCCA
66 TGGTCTTACACTAGCTCTCACATATCCATGACA
* *
64783527 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGCCGATG-TATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAATGTGGCCGATGCCATGTCCCAGACA
64783591 T-GTCTTACACTAGC
66 TGGTCTTACACTAGC
64783605 ACACATGTCA
Statistics
Matches: 137, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
94 54 0.39
95 13 0.09
96 40 0.29
99 30 0.22
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (98 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCACATATCCATGACA
Done.