Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 2 of 21
Found at i:86709 original size:20 final size:20
Alignment explanation
Indices: 86684--86723 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
86674 TGCACCAGGG
86684 CAGGAGCATGACTTTGGGGA
1 CAGGAGCATGACTTTGGGGA
86704 CAGGAGCATGACTTTGGGGA
1 CAGGAGCATGACTTTGGGGA
86724 TTATACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.20
Consensus pattern (20 bp):
CAGGAGCATGACTTTGGGGA
Found at i:86820 original size:2 final size:2
Alignment explanation
Indices: 86803--86837 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
86793 ATTGTTTGAT
* *
86803 TA TA AA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86838 TGTTACATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:88724 original size:17 final size:17
Alignment explanation
Indices: 88699--88794 Score: 57
Period size: 17 Copynumber: 6.1 Consensus size: 17
88689 AATTCATTTA
*
88699 ATATATATATTTTATAT
1 ATATTTATATTTTATAT
*
88716 ATATTTATATTGTA-AT
1 ATATTTATATTTTATAT
*
88732 AT-TTT-TA---TA-AC
1 ATATTTATATTTTATAT
88743 ATA-TTATATTTTATAT
1 ATATTTATATTTTATAT
*
88759 -TATTTTTAATTTTATAT
1 ATATTTAT-ATTTTATAT
* *
88776 ATTTTTATTATTTCATAT
1 ATATTTA-TATTTTATAT
88794 A
1 A
88795 ATTAAATTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
11 7 0.11
12 2 0.03
14 2 0.03
15 7 0.11
16 8 0.13
17 21 0.34
18 13 0.21
19 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (17 bp):
ATATTTATATTTTATAT
Found at i:88780 original size:16 final size:17
Alignment explanation
Indices: 88750--88782 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
88740 AACATATTAT
88750 ATTTTATATTATTTTTA
1 ATTTTATATTATTTTTA
88767 ATTTTATA-TATTTTTA
1 ATTTTATATTATTTTTA
88783 TTATTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATATTATTTTTA
Found at i:89761 original size:14 final size:15
Alignment explanation
Indices: 89726--89763 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
89716 AGTAAAAATT
*
89726 TAATAAATTTTTGAA
1 TAATAAAATTTTGAA
*
89741 TACTAAAATTTT-AA
1 TAATAAAATTTTGAA
89755 TAATAAAAT
1 TAATAAAAT
89764 GTATTAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
TAATAAAATTTTGAA
Found at i:91178 original size:17 final size:17
Alignment explanation
Indices: 91156--91188 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
91146 TTAATAGATA
91156 GGTAATA-GTTAAATTTT
1 GGTAATATG-TAAATTTT
91173 GGTAATATGTAAATTT
1 GGTAATATGTAAATTT
91189 ATTTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
GGTAATATGTAAATTTT
Found at i:91243 original size:18 final size:17
Alignment explanation
Indices: 91222--91256 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
91212 ATATCATAAT
91222 TATTTATAAAATATTATA
1 TATTTATAAAA-ATTATA
*
91240 TATTTATATAAATTATA
1 TATTTATAAAAATTATA
91257 ATACATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATAAAAATTATA
Found at i:91296 original size:13 final size:13
Alignment explanation
Indices: 91278--91303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91268 ATTTTTATTG
91278 ATTAAATTTTAAT
1 ATTAAATTTTAAT
91291 ATTAAATTTTAAT
1 ATTAAATTTTAAT
91304 TATTTTTGAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAAATTTTAAT
Found at i:92028 original size:21 final size:21
Alignment explanation
Indices: 92003--92046 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
91993 AATATATTTT
92003 TATATAAAT-TTAATTATAAAA
1 TATATAAATATTAA-TATAAAA
92024 TATATAAATATTAATATAAAA
1 TATATAAATATTAATATAAAA
92045 TA
1 TA
92047 AATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAAATATTAATATAAAA
Found at i:92410 original size:15 final size:14
Alignment explanation
Indices: 92392--92424 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
92382 ATAATTTTAT
92392 TATATATTATAAATA
1 TATATATTA-AAATA
92407 TATATATTAAAATA
1 TATATATTAAAATA
92421 TATA
1 TATA
92425 AATATTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATATTAAAATA
Found at i:93837 original size:24 final size:23
Alignment explanation
Indices: 93798--93870 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
93788 GATATTTTTT
*
93798 ATAAA-TAAAATTATAAAATTTA
1 ATAAATTAAAATAATAAAATTTA
* *
93820 ATAAATTAAAATAAATAATATTTT
1 ATAAATTAAAAT-AATAAAATTTA
* *
93844 ATAAATTATAAATCATAACATTTA
1 ATAAATTA-AAATAATAAAATTTA
93868 ATA
1 ATA
93871 TTAAATCGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
24 27 0.64
25 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAATTAAAATAATAAAATTTA
Found at i:99815 original size:12 final size:12
Alignment explanation
Indices: 99784--99821 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
99774 ATAATATAGG
* *
99784 ATACATACATAC
1 ATACATATATAT
99796 ATACATATATAT
1 ATACATATATAT
99808 ATACATATATAT
1 ATACATATATAT
99820 AT
1 AT
99822 GTATGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (12 bp):
ATACATATATAT
Found at i:102837 original size:19 final size:18
Alignment explanation
Indices: 102796--102838 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
102786 TTATTAAAAG
102796 AATTAAAATTTAAAAATT
1 AATTAAAATTTAAAAATT
*
102814 TATTAAAATGTTAATAAA-T
1 AATTAAAAT-TTAA-AAATT
102833 AATTAA
1 AATTAA
102839 CGATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 10 0.48
20 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTAAAATTTAAAAATT
Found at i:104521 original size:13 final size:13
Alignment explanation
Indices: 104482--104523 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
104472 AAAATATCGT
**
104482 ATATATTTTTAAA
1 ATATATTTAAAAA
104495 ATATATTTAAAAA
1 ATATATTTAAAAA
104508 ATAT-TTTAACAAA
1 ATATATTTAA-AAA
104521 ATA
1 ATA
104524 GTTGTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATATTTAAAAA
Found at i:104793 original size:32 final size:32
Alignment explanation
Indices: 104752--104868 Score: 104
Period size: 31 Copynumber: 3.8 Consensus size: 32
104742 TAAGATTTAA
*
104752 AATATTTTATATTTATATAAATTTTAATAATT
1 AATAATTTATATTTATATAAATTTTAATAATT
*
104784 AATAATTTATA-TTATATAAAATTTAA-ATATT
1 AATAATTTATATTTATATAAATTTTAATA-ATT
* * * *
104815 TAT-A-TTATATTAATATTAATTTTTAT-ATT
1 AATAATTTATATTTATATAAATTTTAATAATT
104844 ATATAATATT-T-TTTATATAAATTTT
1 A-ATAAT-TTATATTTATATAAATTTT
104869 TGTCATATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
29 8 0.12
30 15 0.22
31 32 0.47
32 11 0.16
33 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
AATAATTTATATTTATATAAATTTTAATAATT
Found at i:104809 original size:24 final size:24
Alignment explanation
Indices: 104782--104854 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
104772 ATTTTAATAA
104782 TTAATAATTTATATTATATAAAAT
1 TTAATAATTTATATTATATAAAAT
*
104806 TTAA-ATATTTATATTATAT-TAAT
1 TTAATA-ATTTATATTATATAAAAT
* *
104829 ATTAAT-TTTTATATTATATAATAT
1 -TTAATAATTTATATTATATAAAAT
104853 TT
1 TT
104855 TTTATATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
23 18 0.44
24 23 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAATAATTTATATTATATAAAAT
Found at i:104840 original size:18 final size:19
Alignment explanation
Indices: 104819--104861 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
104809 AATATTTATA
*
104819 TTATATTA-ATATTAATTT
1 TTATATTATATAATAATTT
*
104837 TTATATTATATAATATTTT
1 TTATATTATATAATAATTT
104856 TTATAT
1 TTATAT
104862 AAATTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATTATATAATAATTT
Found at i:104855 original size:17 final size:17
Alignment explanation
Indices: 104752--104855 Score: 80
Period size: 17 Copynumber: 6.5 Consensus size: 17
104742 TAAGATTTAA
104752 AATATTTTATATTTATAT
1 AATATTTTATA-TTATAT
*
104770 AA-ATTTTA-ATAAT-T
1 AATATTTTATATTATAT
*
104784 AATAATTTATATTATAT
1 AATATTTTATATTATAT
* *
104801 AAAATTTAAATATT-TAT
1 AATATTT-TATATTATAT
* *
104818 ATTATATTA-A-TAT-T
1 AATATTTTATATTATAT
104832 AAT-TTTTATATTATAT
1 AATATTTTATATTATAT
104848 AATATTTT
1 AATATTTT
104856 TTATATAAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
13 4 0.06
14 8 0.12
15 13 0.20
16 10 0.15
17 23 0.35
18 7 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATTTTATATTATAT
Found at i:105112 original size:13 final size:14
Alignment explanation
Indices: 105087--105116 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
105077 TTATGATTAT
105087 TATATACATAAATA
1 TATATACATAAATA
105101 TATATA-ATAAATA
1 TATATACATAAATA
105114 TAT
1 TAT
105117 TAAAAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATAAATA
Found at i:106412 original size:18 final size:18
Alignment explanation
Indices: 106386--106428 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
106376 AATTATTATT
106386 ATATAAATATTAATCGTAA
1 ATAT-AATATTAATCGTAA
* *
106405 ATATAATATTAATTGTGA
1 ATATAATATTAATCGTAA
106423 ATATAA
1 ATATAA
106429 AATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (18 bp):
ATATAATATTAATCGTAA
Found at i:109702 original size:39 final size:38
Alignment explanation
Indices: 109648--109741 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
109638 ATTAATATAT
109648 TATAAATTTATTTAAGTTTAATTTA-ATTTAAAATATAAA
1 TATAAATTTATTTAAGTTT-ATTTATATTTAAAA-ATAAA
* * *
109687 TATATATTTTTTTAAGTTTATTTATATTTATAAATAAA
1 TATAAATTTATTTAAGTTTATTTATATTTAAAAATAAA
109725 TAATTTAAATTTATTTA
1 T-A--TAAATTTATTTA
109742 TCTTATATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
38 11 0.24
39 25 0.54
41 10 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (38 bp):
TATAAATTTATTTAAGTTTATTTATATTTAAAAATAAA
Found at i:110831 original size:43 final size:43
Alignment explanation
Indices: 110750--110833 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
110740 AAACTTTTAA
* *
110750 TTTAAATTTAATTATAAATATAAATATTATTATAAAATAATTT
1 TTTAAATTTAATTATAAATATAAATATAAATATAAAATAATTT
* *
110793 TTTAAATTT-TTTATTAATTATAAATAATAAATAT-AAATAAT
1 TTTAAATTTAATTA-TAAATATAAAT-ATAAATATAAAATAAT
110834 ATAATCATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.09
43 26 0.74
44 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (43 bp):
TTTAAATTTAATTATAAATATAAATATAAATATAAAATAATTT
Found at i:113390 original size:18 final size:17
Alignment explanation
Indices: 113349--113417 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 17
113339 TTTTATATAA
113349 TTATATTTA-A-AATATT
1 TTATATTTATATAA-ATT
*
113365 ATATATTTATATAAATT
1 TTATATTTATATAAATT
113382 TTGATATTTA-ATATAA-T
1 TT-ATATTTATATA-AATT
*
113399 TTATGTTT-TATAAATT
1 TTATATTTATATAAATT
113415 TTA
1 TTA
113418 ACATAATAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.05
16 20 0.45
17 11 0.25
18 11 0.25
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:113773 original size:23 final size:23
Alignment explanation
Indices: 113742--113801 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
113732 AAAATATTTA
113742 TAATA-AAAAATTATTTAATT-T
1 TAATATAAAAATTATTTAATTAT
*
113763 TAATTATAAAAATT-TATAATTAT
1 TAA-TATAAAAATTATTTAATTAT
113786 TAATATAAAAA-TATTT
1 TAATATAAAAATTATTT
113802 TAAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
23 11 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATATAAAAATTATTTAATTAT
Found at i:113801 original size:24 final size:22
Alignment explanation
Indices: 113744--113809 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
113734 AATATTTATA
*
113744 ATAAAAAATTATTTAATTTTAAT
1 ATAAAAAATT-TATAATTTTAAT
113767 -TATAAAAATTTATAATTATTAAT
1 ATA-AAAAATTTATAATT-TTAAT
113790 ATAAAAATATTT-TAAATTTT
1 ATAAAAA-ATTTAT-AATTTT
113810 TTTTATTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 8 0.22
23 19 0.51
24 10 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAAAATTTATAATTTTAAT
Found at i:118889 original size:15 final size:15
Alignment explanation
Indices: 118842--118889 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
118832 GGGTAAAAGT
118842 TTTATTAAAATTTATA
1 TTTATTAAAATTTA-A
** *
118858 TAGAATAAAATTTTAA
1 TTTATTAAAA-TTTAA
118874 TTTATTAAAATTTAA
1 TTTATTAAAATTTAA
118889 T
1 T
118890 AAATATTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTATTAAAATTTAA
Found at i:119427 original size:3 final size:3
Alignment explanation
Indices: 119419--119446 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
119409 TTTTTAGGTT
119419 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
119447 TTTATAATTC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:122582 original size:2 final size:2
Alignment explanation
Indices: 122575--122600 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122565 GATCTTTGTC
122575 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
122601 GAAAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126653 original size:12 final size:12
Alignment explanation
Indices: 126610--126663 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
126600 AAAAATTTAT
126610 TTTATTATTTAAA
1 TTTA-TATTTAAA
* * *
126623 ATAATATTAAAA
1 TTTATATTTAAA
*
126635 TTTTATATTTATA
1 -TTTATATTTAAA
126648 TTTATATTTAAA
1 TTTATATTTAAA
126660 TTTA
1 TTTA
126664 AACAAAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
12 22 0.69
13 10 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTATATTTAAA
Found at i:126971 original size:3 final size:3
Alignment explanation
Indices: 126963--127005 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
126953 ACCTTTGATT
126963 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
127006 GAATGAATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:127090 original size:2 final size:2
Alignment explanation
Indices: 127083--127107 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127073 ATTCTATCTA
127083 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
127108 AACTTGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129439 original size:2 final size:2
Alignment explanation
Indices: 129427--129467 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
129417 ATAAGCTTGT
* * *
129427 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
129468 GTTGCCTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:130561 original size:14 final size:15
Alignment explanation
Indices: 130542--130576 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
130532 TAAATAATAT
*
130542 TAAATATGA-TTAAA
1 TAAATATAATTTAAA
130556 TAAATATAATTTAAA
1 TAAATATAATTTAAA
130571 TAAATA
1 TAAATA
130577 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
TAAATATAATTTAAA
Found at i:130608 original size:24 final size:22
Alignment explanation
Indices: 130554--130610 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
130544 AATATGATTA
*
130554 AATAAATATAATTTAAATAAAT
1 AATAAATATAATATAAATAAAT
*
130576 AATTAAAATATGATATAATATAAAT
1 AA-T-AAATATAATATAA-ATAAAT
130601 ATATAAATAT
1 A-ATAAATAT
130611 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 17 0.59
25 8 0.28
26 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AATAAATATAATATAAATAAAT
Found at i:130618 original size:18 final size:18
Alignment explanation
Indices: 130597--130706 Score: 50
Period size: 18 Copynumber: 5.8 Consensus size: 18
130587 GATATAATAT
130597 AAATATATAAATATTTTAA
1 AAATATATAAATATTTT-A
*
130616 AATTTATATTATAAAAATTATTA
1 AA---ATA-TATAAATATT-TTA
*
130639 ATATAT-TAAA-ATTTATA
1 AAATATATAAATATTT-TA
130656 TAAATATA-AAATATTTTA
1 -AAATATATAAATATTTTA
**
130674 AAA-ATAATTATAATATAATA
1 AAATAT-A-TA-AATATTTTA
130694 AAA-ATATAAATAT
1 AAATATATAAATAT
130707 AATATACATA
Statistics
Matches: 73, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
16 3 0.04
17 14 0.19
18 16 0.22
19 9 0.12
20 15 0.21
22 3 0.04
23 11 0.15
24 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATAAATATTTTA
Found at i:130648 original size:32 final size:33
Alignment explanation
Indices: 130570--130669 Score: 114
Period size: 33 Copynumber: 3.0 Consensus size: 33
130560 TATAATTTAA
* *
130570 ATAAATA-ATTAAAATATGATATAATATAAATAT
1 ATAAATATATTAAAAT-TTATATAATAAAAATAT
* *
130603 ATAAATATTTTAAAATTTATATTATAAAAAT-T
1 ATAAATATATTAAAATTTATATAATAAAAATAT
*
130635 ATTAATATATTAAAATTTATATAAATATAAAATAT
1 ATAAATATATTAAAATTTATAT-AATA-AAAATAT
130670 TTTAAAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 21 0.38
33 22 0.39
34 12 0.21
35 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
ATAAATATATTAAAATTTATATAATAAAAATAT
Found at i:130661 original size:20 final size:19
Alignment explanation
Indices: 130600--130667 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 19
130590 ATAATATAAA
*
130600 TATATAAATATTTTAAAATT
1 TATAT-AATATATTAAAATT
130620 TATAT--TATA--AAAA-T
1 TATATAATATATTAAAATT
130634 TAT-TAATATATTAAAATT
1 TATATAATATATTAAAATT
130652 TATATAA-ATA-TAAAAT
1 TATATAATATATTAAAAT
130668 ATTTTAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
13 1 0.02
14 4 0.10
15 8 0.20
17 13 0.32
18 7 0.17
19 3 0.07
20 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAATATATTAAAATT
Found at i:130718 original size:17 final size:17
Alignment explanation
Indices: 130657--130710 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 17
130647 AAATTTATAT
**
130657 AAATATAAAATATTTTAA
1 AAATAT-AAATATAATAA
130675 AAATAATTATAATATAATAA
1 AAAT-A-TA-AATATAATAA
130695 AAATATAAATATAATA
1 AAATATAAATATAATA
130711 TACATATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 3 0.10
20 13 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATAAATATAATAA
Found at i:131242 original size:2 final size:2
Alignment explanation
Indices: 131235--131259 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131225 GTATTATAAC
131235 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
131260 ACGAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:133597 original size:2 final size:2
Alignment explanation
Indices: 133590--133616 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
133580 ATTGGGAGTG
133590 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
133617 GTTGTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:134073 original size:2 final size:2
Alignment explanation
Indices: 134066--134101 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
134056 TTTACTTCTA
134066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134102 TAAAACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134646 original size:29 final size:29
Alignment explanation
Indices: 134613--134670 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
134603 TAATTATTTA
* *
134613 TTAAAGATAAAAAATTATTTTTAAAAATT
1 TTAAAGATAAAAAATCAGTTTTAAAAATT
*
134642 TTAAAGATAAAAAATCAGTTTTAATAATT
1 TTAAAGATAAAAAATCAGTTTTAAAAATT
134671 ATTTTTTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
TTAAAGATAAAAAATCAGTTTTAAAAATT
Found at i:134884 original size:2 final size:2
Alignment explanation
Indices: 134877--134909 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
134867 TTTACACCAA
134877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134910 ATCTGTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:141695 original size:3 final size:3
Alignment explanation
Indices: 141687--141720 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
141677 AAATCTACTA
141687 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
141721 CATCTCGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:142099 original size:23 final size:22
Alignment explanation
Indices: 142072--142122 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
142062 ATATAACACA
142072 AAAAATAATATAAAT-TTAATTAT
1 AAAAATAA-ATAAATATTAA-TAT
142095 AAAAATAAATAAATATTAATAT
1 AAAAATAAATAAATATTAATAT
142117 AAAAAT
1 AAAAAT
142123 TATTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATAAATAAATATTAATAT
Found at i:142124 original size:12 final size:12
Alignment explanation
Indices: 142071--142124 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
142061 TATATAACAC
*
142071 AAAAAATAATAT
1 AAAAATTAATAT
*
142083 -AAATTTAATTAT
1 AAAAATTAA-TAT
142095 AAAAA-TAA-AT
1 AAAAATTAATAT
*
142105 AAATATTAATAT
1 AAAAATTAATAT
142117 AAAAATTA
1 AAAAATTA
142125 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
10 6 0.18
11 9 0.27
12 15 0.45
13 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATTAATAT
Found at i:142197 original size:18 final size:18
Alignment explanation
Indices: 142143--142206 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
142133 ATTTTAATAT
* *
142143 ATTTTAAATAATTATTTAA
1 ATTTAAAATAAAT-TTTAA
142162 ATTATAAAATTAAA--TTAA
1 ATT-TAAAA-TAAATTTTAA
142180 ATTTAAAATAAATTTTAA
1 ATTTAAAATAAATTTTAA
*
142198 ATTTTAAAT
1 ATTTAAAAT
142207 TACTACCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 4 0.11
17 5 0.13
18 19 0.50
19 3 0.08
20 4 0.11
21 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAAAATAAATTTTAA
Found at i:143375 original size:18 final size:19
Alignment explanation
Indices: 143338--143375 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
143328 TACTTGGCAA
*
143338 TTCGTGTATTTGTGTCATG
1 TTCGTGTATTTGTATCATG
143357 TTCGTGTATTT-TATCATG
1 TTCGTGTATTTGTATCATG
143375 T
1 T
143376 CATAATCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.13, C:0.11, G:0.21, T:0.55
Consensus pattern (19 bp):
TTCGTGTATTTGTATCATG
Found at i:144029 original size:17 final size:17
Alignment explanation
Indices: 144007--144040 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
143997 TAATCATCTG
*
144007 TTCTCTATCTTTCTTGA
1 TTCTCTATCTCTCTTGA
144024 TTCTCTATCTCTCTTGA
1 TTCTCTATCTCTCTTGA
144041 GACACTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.06, T:0.56
Consensus pattern (17 bp):
TTCTCTATCTCTCTTGA
Found at i:145706 original size:34 final size:35
Alignment explanation
Indices: 145657--145756 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 35
145647 AATTTTATAA
145657 TTTATATTATAATTTA-AA-ATAATATTAAAAATAT
1 TTTATATTATAATTTATAATATAAT-TTAAAAATAT
*
145691 TTTATATTA-ATATTTATAATTTAATTTAAAAATAT
1 TTTATATTATA-ATTTATAATATAATTTAAAAATAT
* * * *
145726 TTTATATTTAAAAATAATAATTTAATTTAAA
1 TTTATA-TTATAATTTATAATATAATTTAAA
145757 TCGAATTGCA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
33 1 0.02
34 14 0.24
35 18 0.31
36 24 0.41
37 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (35 bp):
TTTATATTATAATTTATAATATAATTTAAAAATAT
Found at i:145727 original size:35 final size:36
Alignment explanation
Indices: 145676--145756 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 36
145666 TAATTTAAAA
* * *
145676 TAATATTAAAAATATTTTATA-TTAATATTTATAATT
1 TAAT-TTAAAAATATTTTATATTTAAAAATAATAATT
145712 TAATTTAAAAATATTTTATATTTAAAAATAATAATT
1 TAATTTAAAAATATTTTATATTTAAAAATAATAATT
145748 TAATTTAAA
1 TAATTTAAA
145757 TCGAATTGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 16 0.39
36 25 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
TAATTTAAAAATATTTTATATTTAAAAATAATAATT
Found at i:145757 original size:17 final size:17
Alignment explanation
Indices: 145706--145757 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
145696 ATTAATATTT
145706 ATAATTTAATTTAAA-A
1 ATAATTTAATTTAAATA
*
145722 ATATTTTATATTTAAAAATA
1 ATAATTTA-ATTT--AAATA
145742 ATAATTTAATTTAAAT
1 ATAATTTAATTTAAAT
145758 CGAATTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 7 0.23
17 8 0.27
19 7 0.23
20 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATTTAATTTAAATA
Found at i:146690 original size:3 final size:3
Alignment explanation
Indices: 146682--146709 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
146672 ATACTAGTTC
146682 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
146710 GGTGGAGGAG
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:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:146988 original size:22 final size:23
Alignment explanation
Indices: 146953--147010 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
146943 ATTCGATATA
*
146953 AATATATTTAATATTTTTTAAAAT
1 AATAT-TTTTATATTTTTTAAAAT
*
146977 --TATTTTT-TA-TATTTAAAAT
1 AATATTTTTATATTTTTTAAAAT
146996 AATATTTTTATATTT
1 AATATTTTTATATTT
147011 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 9
0.69 0.08 0.23
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 10 0.37
22 5 0.19
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTTTATATTTTTTAAAAT
Found at i:146993 original size:19 final size:20
Alignment explanation
Indices: 146969--147011 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
146959 TTTAATATTT
*
146969 TTTAAAATTAT-TTTTTATA
1 TTTAAAATAATATTTTTATA
146988 TTTAAAATAATATTTTTATA
1 TTTAAAATAATATTTTTATA
147008 TTTA
1 TTTA
147012 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAAATAATATTTTTATA
Found at i:148271 original size:32 final size:32
Alignment explanation
Indices: 148213--148274 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
148203 AATTATAATT
** *
148213 AATATATAATATTTTAATTTTTAATTAAATAA
1 AATATATAATAAATTAATTTTAAATTAAATAA
148245 AATATATAATTAAATTAA-TTTAAATTAAAT
1 AATATATAA-TAAATTAATTTTAAATTAAAT
148275 TTATCAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
AATATATAATAAATTAATTTTAAATTAAATAA
Found at i:148423 original size:18 final size:18
Alignment explanation
Indices: 148396--148433 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
148386 TTTTATTATA
*
148396 TAAAATTAAAAATTAATT
1 TAAAAATAAAAATTAATT
*
148414 TAAAAATAAAAATTAGTT
1 TAAAAATAAAAATTAATT
148432 TA
1 TA
148434 GTTTAGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TAAAAATAAAAATTAATT
Found at i:148695 original size:27 final size:26
Alignment explanation
Indices: 148665--148728 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
148655 TATGTCATAT
148665 TTATTATAATTATATACATAAT-AAATA
1 TTATTATAATTA-AT-CATAATAAAATA
* *
148692 TTATTATAATTAATTATGATAAAATA
1 TTATTATAATTAATCATAATAAAATA
148718 TTATTCATAAT
1 TTATT-ATAAT
148729 ATTGATAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 4 0.12
26 12 0.36
27 17 0.52
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TTATTATAATTAATCATAATAAAATA
Found at i:151601 original size:21 final size:19
Alignment explanation
Indices: 151576--151624 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
151566 TATTTTTATT
151576 TAAATTATTTTAAATATCAAA
1 TAAATTATTTT-AAT-TCAAA
*
151597 TAAATT-TTTTAATTTAAA
1 TAAATTATTTTAATTCAAA
*
151615 TAAATAATTT
1 TAAATTATTT
151625 AATCTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.36
19 6 0.24
20 4 0.16
21 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTATTTTAATTCAAA
Found at i:152146 original size:16 final size:17
Alignment explanation
Indices: 152117--152157 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
152107 ATTAATTTTT
*
152117 TTAAATAAAAATATAAAA
1 TTAAATAAATAT-TAAAA
*
152135 TTAAATAAATATTAAAT
1 TTAAATAAATATTAAAA
152152 TTAAAT
1 TTAAAT
152158 TTAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAATAAATATTAAAA
Found at i:152164 original size:12 final size:13
Alignment explanation
Indices: 152116--152256 Score: 52
Period size: 13 Copynumber: 11.4 Consensus size: 13
152106 TATTAATTTT
*
152116 TTTAAATA-AAAA
1 TTTAAATATTAAA
*
152128 TATAAA-ATTAAA
1 TTTAAATATTAAA
152140 --TAAATATTAAA
1 TTTAAATATTAAA
152151 TTTAAAT-TTAAA
1 TTTAAATATTAAA
* *
152163 TTT-ATTA-TCAA
1 TTTAAATATTAAA
* * *
152174 TATAAAAAATAAA
1 TTTAAATATTAAA
*
152187 TTTAAATATTTAA
1 TTTAAATATTAAA
152200 --T-AATATTTAAA
1 TTTAAATA-TTAAA
* **
152211 TAATAAATAAAAAA
1 T-TTAAATATTAAA
*
152225 TTTAAATAATAAATA
1 TTTAAAT-ATTAA-A
*
152240 TTTAAA-AATAAA
1 TTTAAATATTAAA
152252 TTTAA
1 TTTAA
152257 TATAAAAATT
Statistics
Matches: 96, Mismatches: 19, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
10 8 0.08
11 19 0.20
12 24 0.25
13 25 0.26
14 9 0.09
15 11 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTAAATATTAAA
Found at i:152204 original size:10 final size:11
Alignment explanation
Indices: 152191--152235 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
152181 AATAAATTTA
152191 AATATTT-AAT
1 AATATTTAAAT
152201 AATATTTAAAT
1 AATATTTAAAT
**
152212 AATAAATAAA-
1 AATATTTAAAT
152222 AA-ATTTAAAT
1 AATATTTAAAT
152232 AATA
1 AATA
152236 AATATTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
9 5 0.18
10 11 0.39
11 12 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATTTAAAT
Found at i:152232 original size:13 final size:13
Alignment explanation
Indices: 152214--152264 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
152204 ATTTAAATAA
152214 TAAATAAAAAATT
1 TAAATAAAAAATT
152227 TAAATAATAAATATT
1 TAAATAA-AAA-ATT
*
152242 TAAA-AATAAATT
1 TAAATAAAAAATT
152254 TAATATAAAAA
1 TAA-ATAAAAA
152265 TTCTCAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 6 0.19
13 10 0.31
14 9 0.28
15 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAAAAAATT
Found at i:152622 original size:2 final size:2
Alignment explanation
Indices: 152615--152646 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
152605 GTTTGTCTTA
152615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
152647 TTCTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158558 original size:25 final size:23
Alignment explanation
Indices: 158530--158575 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
158520 TAATATGTGT
158530 ATATTATTATTAAATTTAAATAAAA
1 ATATTATTATT-AA-TTAAATAAAA
*
158555 ATATTTTTATTAATTAAATAA
1 ATATTATTATTAATTAAATAA
158576 TAATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTATTATTAATTAAATAAAA
Found at i:159277 original size:14 final size:16
Alignment explanation
Indices: 159258--159289 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
159248 GTTTGATATC
159258 ATAAATT-AA-TGATA
1 ATAAATTCAATTGATA
159272 ATAAATTCAATTGATA
1 ATAAATTCAATTGATA
159288 AT
1 AT
159290 CTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAAATTCAATTGATA
Found at i:159869 original size:19 final size:18
Alignment explanation
Indices: 159847--159901 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
159837 TATAATTAAT
159847 ATATTTATTTTATTAAAAA
1 ATATTTATTTTA-TAAAAA
**
159866 ATATTTAAAATTATAAAAA
1 ATATTT-ATTTTATAAAAA
159885 A-A-TTATTTTAATAAAAA
1 ATATTTATTTT-ATAAAAA
159902 TATAAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 9 0.30
18 1 0.03
19 13 0.43
20 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTTATTTTATAAAAA
Found at i:159936 original size:25 final size:24
Alignment explanation
Indices: 159908--159969 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
159898 AAAATATAAA
159908 TAATTTTGT-TTTAAAAAATTAATTT
1 TAATTTT-TATTTAAAAAA-TAATTT
*
159933 TAATTTTTAATTTAAAAGATAATTT
1 TAATTTTT-ATTTAAAAAATAATTT
* *
159958 TTATTTTAATTT
1 TAATTTTTATTT
159970 TTATATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 5 0.16
25 19 0.59
26 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
TAATTTTTATTTAAAAAATAATTT
Found at i:159940 original size:26 final size:25
Alignment explanation
Indices: 159917--159969 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
159907 ATAATTTTGT
159917 TTTAAAAAATTAATTTTAATTTTTAA
1 TTTAAAAAA-TAATTTTAATTTTTAA
* *
159943 TTTAAAAGATAATTTTTA-TTTTAA
1 TTTAAAAAATAATTTTAATTTTTAA
159967 TTT
1 TTT
159970 TTATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 8 0.32
26 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTAAAAAATAATTTTAATTTTTAA
Found at i:159972 original size:26 final size:27
Alignment explanation
Indices: 159916--159970 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
159906 AATAATTTTG
159916 TTTTAAAAAATTAATTTTAATTTTTAA
1 TTTTAAAAAATTAATTTTAATTTTTAA
* *
159943 -TTTAAAAGA-TAATTTTTA-TTTTAA
1 TTTTAAAAAATTAATTTTAATTTTTAA
159967 TTTT
1 TTTT
159971 TATATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTAAAAAATTAATTTTAATTTTTAA
Found at i:159978 original size:11 final size:12
Alignment explanation
Indices: 159951--160000 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
159941 AATTTAAAAG
159951 ATAATTTTTATT
1 ATAATTTTTATT
*
159963 TTAATTTTTA-T
1 ATAATTTTTATT
159974 ATAATTTTTTAATT
1 ATAA-TTTTT-ATT
*
159988 A-AATTTGTATT
1 ATAATTTTTATT
159999 AT
1 AT
160001 GTAATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 8 0.26
12 18 0.58
13 3 0.10
14 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (12 bp):
ATAATTTTTATT
Found at i:164272 original size:18 final size:18
Alignment explanation
Indices: 164239--164273 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
164229 TAGATCTGAC
*
164239 AAAAATAAATATAATATA
1 AAAAATAAATAAAATATA
*
164257 AAAAATAATTAAAATAT
1 AAAAATAAATAAAATAT
164274 GATATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATAAATAAAATATA
Found at i:164292 original size:27 final size:29
Alignment explanation
Indices: 164275--164348 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
164265 TTAAAATATG
164275 ATATTATATAAATTTAATATAAATATATTA
1 ATATTATA-AAATTTAATATAAATATATTA
* *
164305 ATATTTTAAAATTTATGTAATAAAT-TATTA
1 ATATTATAAAATTTA-AT-ATAAATATATTA
164335 ATA-TATTAAAATTT
1 ATATTA-TAAAATTT
164349 TTAAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 8 0.21
30 24 0.63
31 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATATTATAAAATTTAATATAAATATATTA
Found at i:164472 original size:2 final size:2
Alignment explanation
Indices: 164465--164499 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
164455 ATTTATTTGC
*
164465 AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
164500 ATTTAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:164568 original size:14 final size:15
Alignment explanation
Indices: 164538--164572 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
164528 TTTTAACAAG
164538 TAATATTCAATAATT
1 TAATATTCAATAATT
*
164553 TAATATTTAA-AATT
1 TAATATTCAATAATT
164567 TAATAT
1 TAATAT
164573 CTGTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
TAATATTCAATAATT
Found at i:166131 original size:2 final size:2
Alignment explanation
Indices: 166120--166160 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
166110 ATAATTCATG
166120 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
166161 GCCATTGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:166402 original size:13 final size:11
Alignment explanation
Indices: 166362--166429 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
166352 ATTACATAAC
*
166362 ATAAAAAAATA
1 ATAAAAATATA
*
166373 ATTAAAATATA
1 ATAAAAATATA
*
166384 ATAAAAATATG
1 ATAAAAATATA
*
166395 ATATAAA-A-A
1 ATAAAAATATA
*
166404 ATATAAATATGA
1 ATAAAAATAT-A
*
166416 A-ATAAATATA
1 ATAAAAATATA
166426 ATAA
1 ATAA
166430 TATCTTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
9 7 0.15
10 4 0.09
11 33 0.72
12 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
ATAAAAATATA
Found at i:166406 original size:20 final size:20
Alignment explanation
Indices: 166383--166421 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
166373 ATTAAAATAT
*
166383 AATAAAAATATGATATAAAA
1 AATAAAAATATGAAATAAAA
*
166403 AATATAAATATGAAATAAA
1 AATAAAAATATGAAATAAA
166422 TATAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AATAAAAATATGAAATAAAA
Found at i:166429 original size:20 final size:20
Alignment explanation
Indices: 166377--166429 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
166367 AAAATAATTA
*
166377 AAATATAATAAAAATATGATAT
1 AAATATAAT--AAATATGAAAT
*
166399 AAA-AAATATAAATATGAAAT
1 AAATATA-ATAAATATGAAAT
166419 AAATATAATAA
1 AAATATAATAA
166430 TATCTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 17 0.65
21 4 0.15
22 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAATATAATAAATATGAAAT
Found at i:168420 original size:20 final size:22
Alignment explanation
Indices: 168382--168423 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
168372 CATACTTATT
*
168382 TTTATAAAAAATTTAATTTAAA
1 TTTATAAAAAATATAATTTAAA
168404 TTTAT-AAAAATAT-ATTTAAA
1 TTTATAAAAAATATAATTTAAA
168424 AAAAATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTATAAAAAATATAATTTAAA
Found at i:168879 original size:18 final size:19
Alignment explanation
Indices: 168858--168897 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
168848 AATTATCAAT
* *
168858 ATATCAAAATTTA-TTTAA
1 ATATAAAAATATATTTTAA
168876 ATATAAAAATATATTTTAA
1 ATATAAAAATATATTTTAA
168895 ATA
1 ATA
168898 AAATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATAAAAATATATTTTAA
Found at i:168905 original size:17 final size:18
Alignment explanation
Indices: 168858--168905 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
168848 AATTATCAAT
168858 ATATCAAAATT-TATTTAA
1 ATAT-AAAATTATATTTAA
* *
168876 ATATAAAAATATATTTTA
1 ATATAAAATTATATTTAA
168894 A-ATAAAATTATA
1 ATATAAAATTATA
168906 ATATGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAAATTATATTTAA
Found at i:168928 original size:18 final size:19
Alignment explanation
Indices: 168905--168943 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
168895 ATAAAATTAT
168905 AATAT-GATAAATATATAA
1 AATATAGATAAATATATAA
168923 AATATGAGATAAATATATAA
1 AATAT-AGATAAATATATAA
168943 A
1 A
168944 TTATTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
20 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
AATATAGATAAATATATAA
Found at i:169971 original size:29 final size:32
Alignment explanation
Indices: 169924--169985 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 32
169914 GACTTGAACA
*
169924 TAAAATAATCTGAATAA-TTAA-T-TCAAATT
1 TAAAATAATCTAAATAATTTAAGTGTCAAATT
169953 TAAAATAATC-AAATAAATTTAAGTGTCAAATT
1 TAAAATAATCTAAAT-AATTTAAGTGTCAAATT
169985 T
1 T
169986 GATTGAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.11
29 12 0.43
30 4 0.14
31 1 0.04
32 8 0.29
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (32 bp):
TAAAATAATCTAAATAATTTAAGTGTCAAATT
Found at i:170010 original size:13 final size:13
Alignment explanation
Indices: 169992--170016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
169982 ATTTGATTGA
169992 ACTAAACTTAAAT
1 ACTAAACTTAAAT
170005 ACTAAACTTAAA
1 ACTAAACTTAAA
170017 ATAATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ACTAAACTTAAAT
Found at i:170031 original size:16 final size:16
Alignment explanation
Indices: 170007--170124 Score: 114
Period size: 16 Copynumber: 7.2 Consensus size: 16
169997 ACTTAAATAC
*
170007 TAAACTTAAAATAATT
1 TAAATTTAAAATAATT
170023 TAAATTTAAAA-AATT
1 TAAATTTAAAATAATT
*
170038 TAAATTTAAAATAATA
1 TAAATTTAAAATAATT
*
170054 TAAAATTAAAATAATCTT
1 TAAATTTAAAATAA--TT
* *
170072 TAACTTAAAAATAATTT
1 TAAATTTAAAATAA-TT
**
170089 TAAATAAAAAATAATT
1 TAAATTTAAAATAATT
*
170105 TAAAATTTTAAA-AATT
1 T-AAATTTAAAATAATT
170121 TAAA
1 TAAA
170125 ATAATTTAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
15 18 0.21
16 34 0.40
17 21 0.25
18 12 0.14
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:170084 original size:18 final size:17
Alignment explanation
Indices: 170014--170110 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
170004 TACTAAACTT
**
170014 AAAATAA-TTTAAATTT
1 AAAATAATTTTAAATAA
**
170030 AAAA-AA-TTTAAATTT
1 AAAATAATTTTAAATAA
* * *
170045 AAAATAATATAAAAT-T
1 AAAATAATTTTAAATAA
* *
170061 AAAATAATCTTTAACTTA
1 AAAATAAT-TTTAAATAA
170079 AAAATAATTTTAAATAA
1 AAAATAATTTTAAATAA
*
170096 AAAATAATTTAAAAT
1 AAAATAATTTTAAAT
170111 TTTAAAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
15 15 0.22
16 15 0.22
17 30 0.44
18 8 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATAATTTTAAATAA
Found at i:170132 original size:10 final size:10
Alignment explanation
Indices: 170079--170133 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
170069 CTTTAACTTA
170079 AAAATAATTT
1 AAAATAATTT
*
170089 TAAATAA---
1 AAAATAATTT
170096 AAAATAATTT
1 AAAATAATTT
170106 AAAAT--TTT
1 AAAATAATTT
170114 -AAA-AATTT
1 AAAATAATTT
170122 AAAATAATTT
1 AAAATAATTT
170132 AA
1 AA
170134 TTTAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
7 9 0.25
8 6 0.17
9 3 0.08
10 18 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATAATTT
Found at i:170137 original size:15 final size:15
Alignment explanation
Indices: 170012--170148 Score: 83
Period size: 15 Copynumber: 8.9 Consensus size: 15
170002 AATACTAAAC
170012 TTAAAATAATTTAAAT
1 TTAAAATAATTT-AAT
170028 TTAAAA-AATTTAAAT
1 TTAAAATAATTT-AAT
* *
170043 TTAAAATAATATAAAA
1 TTAAAATAAT-TTAAT
170059 TTAAAATAATCTTTAACT
1 TTAAAATAA--TTTAA-T
*
170077 TAAAAATAATTTTAA-
1 TTAAAATAA-TTTAAT
*
170092 ATAAAA-AA--TAAT
1 TTAAAATAATTTAAT
170104 TTAAAAT--TTTAAAAAT
1 TTAAAATAATTT---AAT
170120 TTAAAATAATTTAAT
1 TTAAAATAATTTAAT
170135 TT-AAATCAATTTAA
1 TTAAAAT-AATTTAA
170149 AATCAAATAG
Statistics
Matches: 97, Mismatches: 9, Indels: 31
0.71 0.07 0.23
Matches are distributed among these distances:
11 3 0.03
12 5 0.05
13 1 0.01
14 6 0.06
15 31 0.32
16 30 0.31
17 9 0.09
18 12 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAATAATTTAAT
Found at i:170493 original size:5 final size:5
Alignment explanation
Indices: 170483--170509 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
170473 CAGTCACACC
170483 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
170510 TATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:172594 original size:30 final size:29
Alignment explanation
Indices: 172559--172622 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
172549 ACTATATTAG
172559 AAATAAATATCATTTTTAAATAGTATTTAA
1 AAATAAATATCATTTTTAAAT-GTATTTAA
* * * *
172589 AAATAAATGTTATTTTTAAATTTTTTTAA
1 AAATAAATATCATTTTTAAATGTATTTAA
172618 AAATA
1 AAATA
172623 TAATTTTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (29 bp):
AAATAAATATCATTTTTAAATGTATTTAA
Found at i:173661 original size:2 final size:2
Alignment explanation
Indices: 173654--173682 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
173644 CTTTGTAACA
173654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
173683 AATTAGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:177775 original size:13 final size:13
Alignment explanation
Indices: 177757--177804 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
177747 ACATATTTTT
177757 TTAAAAAATATAA
1 TTAAAAAATATAA
177770 TTAAAAAATATTAA
1 TTAAAAAATA-TAA
177784 --AATAAAATATAA
1 TTAA-AAAATATAA
*
177796 TAAAAAAAT
1 TTAAAAAAT
177805 TTATCAGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.16
13 21 0.68
14 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAAAAAATATAA
Found at i:179832 original size:15 final size:17
Alignment explanation
Indices: 179812--179846 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
179802 TTATATTTAA
179812 TTATAAAT-TTTAA-AT
1 TTATAAATATTTAATAT
179827 TTATAAATATTTAATAT
1 TTATAAATATTTAATAT
179844 TTA
1 TTA
179847 AATTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 5 0.28
17 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATAAATATTTAATAT
Found at i:179878 original size:17 final size:18
Alignment explanation
Indices: 179858--179892 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
179848 ATTTATAAAT
179858 AAATAAAATAAA-TATTA
1 AAATAAAATAAATTATTA
*
179875 AAATATAATAAATTATTA
1 AAATAAAATAAATTATTA
179893 TTAAATAAAC
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAAAATAAATTATTA
Found at i:179878 original size:21 final size:22
Alignment explanation
Indices: 179822--179886 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
179812 TTATAAATTT
**
179822 TAAATTTATAAATATTTAAT-ATT
1 TAAATTTATAAATA--TAATAAAA
179845 TAAATTTATAAATA-AATAAAA
1 TAAATTTATAAATATAATAAAA
179866 TAAATATTA-AAATATAATAAA
1 TAAAT-TTATAAATATAATAAA
179887 TTATTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 3 0.08
21 11 0.30
22 9 0.24
23 14 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTATAAATATAATAAAA
Found at i:179887 original size:21 final size:21
Alignment explanation
Indices: 179845--179886 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
179835 ATTTAATATT
179845 TAAAT-TTATAAATAAATAAAA
1 TAAATATTA-AAATAAATAAAA
179866 TAAATATTAAAATATAATAAA
1 TAAATATTAAAATA-AATAAA
179887 TTATTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATTAAAATAAATAAAA
Found at i:180325 original size:15 final size:15
Alignment explanation
Indices: 180285--180318 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
180275 CAGTATGACC
180285 ATTTTAAAAAAATAT
1 ATTTTAAAAAAATAT
180300 ATTTTAAAAAAATAT
1 ATTTTAAAAAAATAT
180315 -TTTT
1 ATTTT
180319 TGCAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAAAAATAT
Found at i:180480 original size:17 final size:17
Alignment explanation
Indices: 180455--180546 Score: 54
Period size: 16 Copynumber: 5.7 Consensus size: 17
180445 AACAAAATAA
*
180455 TATATTTTATATAAATT
1 TATAATTTATATAAATT
180472 TATAATTTATAT--ATT
1 TATAATTTATATAAATT
* *
180487 TATATATTT-TTTGAA-T
1 TATA-ATTTATATAAATT
*
180503 TATAA-TTATATTTAA-T
1 TATAATTTATA-TAAATT
* *
180519 TATATTTTA-ATATATT
1 TATAATTTATATAAATT
*
180535 AATAATTTATAT
1 TATAATTTATAT
180547 TATATAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
14 2 0.03
15 13 0.22
16 26 0.45
17 17 0.29
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (17 bp):
TATAATTTATATAAATT
Found at i:180505 original size:16 final size:17
Alignment explanation
Indices: 180486--180597 Score: 55
Period size: 16 Copynumber: 6.8 Consensus size: 17
180476 ATTTATATAT
180486 TTATATATT-T-TTTGAA
1 TTATATATTATATTT-AA
180502 TTATA-ATTATATTTAA
1 TTATATATTATATTTAA
*
180518 TTATATTTTAATATATTAA
1 TTATATATT-ATAT-TTAA
* *
180537 TAATTTATATTATA-TAAA
1 T--TATATATTATATTTAA
*
180555 TTTTA-ATATATATTTAA
1 TTATATAT-TATATTTAA
*
180572 -TAT-T-TTATATAT-A
1 TTATATATTATATTTAA
180585 TTATAT-TTATATT
1 TTATATATTATATT
180598 ATTATATCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
13 1 0.01
14 9 0.12
15 13 0.17
16 23 0.30
17 8 0.11
18 8 0.11
19 5 0.07
20 3 0.04
21 6 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (17 bp):
TTATATATTATATTTAA
Found at i:180526 original size:28 final size:27
Alignment explanation
Indices: 180471--180599 Score: 69
Period size: 28 Copynumber: 4.7 Consensus size: 27
180461 TTATATAAAT
* *
180471 TTATAATTTATATATTTATATATTTTTTGAA
1 TTATAA-TTATAT-TTAAT-TATATTTT-AA
180502 TTATAATTATATTTAATTATATTTTAA
1 TTATAATTATATTTAATTATATTTTAA
*
180529 -TAT-ATTAATAATTTATATTATA--TAAA
1 TTATAATT-AT-ATTTA-ATTATATTTTAA
*
180555 TTTTAATATATATTT-A--ATATTTT-A
1 TTATAAT-TATATTTAATTATATTTTAA
180579 -TATATATTATATTTATATTAT
1 TTATA-ATTATATTTA-ATTAT
180600 TATATCTAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 30
0.69 0.05 0.26
Matches are distributed among these distances:
23 13 0.16
24 3 0.04
25 6 0.08
26 8 0.10
27 15 0.19
28 17 0.22
29 5 0.06
30 6 0.08
31 6 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (27 bp):
TTATAATTATATTTAATTATATTTTAA
Found at i:180572 original size:11 final size:11
Alignment explanation
Indices: 180505--180574 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
180495 TTTTGAATTA
180505 TAAT-TATATT
1 TAATATATATT
180515 TAAT-TATATT
1 TAATATATATT
*
180525 TTA-ATATA-T
1 TAATATATATT
*
180534 TAATAATTTATAT
1 TAAT-ATATAT-T
*
180547 T-ATATAAATTT
1 TAATATATA-TT
180558 TAATATATATT
1 TAATATATATT
180569 TAATAT
1 TAATAT
180575 TTTATATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
9 3 0.06
10 16 0.34
11 17 0.36
12 9 0.19
13 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATATATATT
Found at i:180583 original size:18 final size:18
Alignment explanation
Indices: 180520--180586 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
180510 ATATTTAATT
180520 ATATTTTA-ATATA-TTA
1 ATATTTTATATATATTTA
* *
180536 ATAATTTATAT-TATATA
1 ATATTTTATATATATTTA
180553 A-ATTTTAATATATATTTA
1 ATATTTT-ATATATATTTA
180571 ATATTTTATATATATT
1 ATATTTTATATATATT
180587 ATATTTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 13 0.31
17 9 0.21
18 15 0.36
19 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTATATATATTTA
Found at i:180991 original size:22 final size:21
Alignment explanation
Indices: 180958--181001 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
180948 GTAAAATATA
*
180958 ATTTTTTTATAATTATTTTTT
1 ATTTTTTAATAATTATTTTTT
180979 ATTTTTTAAATAATTATTTTTT
1 ATTTTTT-AATAATTATTTTTT
181001 A
1 A
181002 CCAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTTAATAATTATTTTTT
Found at i:181201 original size:26 final size:26
Alignment explanation
Indices: 181172--181225 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
181162 CAAGATTTAA
* *
181172 TATAATTAAT-TTATATAATTATTTTT
1 TATAAATAATATTATAAAATT-TTTTT
*
181198 TATAAATAATATTTTAAAATTTTTTT
1 TATAAATAATATTATAAAATTTTTTT
181224 TA
1 TA
181226 AACTATGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TATAAATAATATTATAAAATTTTTTT
Found at i:181361 original size:6 final size:6
Alignment explanation
Indices: 181350--181382 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
181340 TCGACCATAT
181350 AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAG
1 AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAG
181383 TTACCCTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.67, C:0.15, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGCAA
Found at i:182250 original size:18 final size:18
Alignment explanation
Indices: 182229--182274 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
182219 AAGTATTTTT
* *
182229 ATTTAAATTTAAAGATAA
1 ATTTTAATTTAAAAATAA
*
182247 ATTTTAATATAAAAATAA
1 ATTTTAATTTAAAAATAA
*
182265 TTTTTAATTT
1 ATTTTAATTT
182275 TTAATATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTTTAATTTAAAAATAA
Found at i:183676 original size:21 final size:23
Alignment explanation
Indices: 183652--183693 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
183642 GTAAATTTAT
*
183652 GTATTTTTATT-TTA-AAAATAA
1 GTATGTTTATTATTATAAAATAA
183673 GTATGTTTATTATTATAAAAT
1 GTATGTTTATTATTATAAAAT
183694 TTTAGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
GTATGTTTATTATTATAAAATAA
Found at i:184718 original size:18 final size:18
Alignment explanation
Indices: 184697--184836 Score: 55
Period size: 18 Copynumber: 7.7 Consensus size: 18
184687 AAGTAATGTA
184697 ATAA-AAATAATATTAAAT
1 ATAATAAAT-ATATTAAAT
* *
184715 ATAATTAATATATTTAAT
1 ATAATAAATATATTAAAT
* *
184733 ATAAT-ATTATATT-TAT
1 ATAATAAATATATTAAAT
*
184749 AT-TTAAA-AT-TTAATAT
1 ATAATAAATATATTAA-AT
* *
184765 ATTTAATAATTTATATTTAAAA
1 A--TAATAA-ATATA-TTAAAT
184787 ATAA-AAA-ATATTAAAT
1 ATAATAAATATATTAAAT
184803 ATAAAATAAAT-TATTAAAAT
1 AT--AATAAATATATT-AAAT
*
184823 TTAATAAAATATAT
1 ATAAT-AAATATAT
184837 AATTAAAAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 34
0.66 0.09 0.25
Matches are distributed among these distances:
14 2 0.02
15 3 0.03
16 15 0.16
17 10 0.11
18 23 0.25
19 19 0.21
20 11 0.12
21 2 0.02
22 2 0.02
23 4 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAAATATATTAAAT
Found at i:184760 original size:30 final size:30
Alignment explanation
Indices: 184726--184786 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
184716 TAATTAATAT
184726 ATTTAATATAATATT-AT-ATTTATATTTAAA
1 ATTTAATAT-AT-TTAATAATTTATATTTAAA
184756 ATTTAATATATTTAATAATTTATATTTAAA
1 ATTTAATATATTTAATAATTTATATTTAAA
184786 A
1 A
184787 ATAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 4 0.14
30 23 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTAATATATTTAATAATTTATATTTAAA
Found at i:184764 original size:14 final size:13
Alignment explanation
Indices: 184743--184786 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 13
184733 ATAATATTAT
184743 ATTTATATTTAAA
1 ATTTATATTTAAA
184756 ATTTAATATATTTAATA
1 A-TT--TATATTTAA-A
184773 ATTTATATTTAAA
1 ATTTATATTTAAA
184786 A
1 A
184787 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.11
14 11 0.41
16 11 0.41
17 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTATATTTAAA
Found at i:184765 original size:16 final size:17
Alignment explanation
Indices: 184715--184777 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 17
184705 AATATTAAAT
184715 ATAA-TTAATATATTTAA
1 ATAATTTAATATATTT-A
184732 TATAATATTATATTTATATTTA
1 -ATAAT-TTA-A--TATATTTA
184754 A-AATTTAATATATTTA
1 ATAATTTAATATATTTA
184770 ATAATTTA
1 ATAATTTA
184778 TATTTAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
16 9 0.23
17 6 0.15
18 5 0.13
19 3 0.08
20 6 0.15
21 2 0.05
22 1 0.03
23 7 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAATTTAATATATTTA
Found at i:184770 original size:9 final size:9
Alignment explanation
Indices: 184706--184777 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 9
184696 AATAAAAATA
*
184706 ATATTAAAT
1 ATATTTAAT
*
184715 ATAATTAAT
1 ATATTTAAT
184724 ATATTTAAT
1 ATATTTAAT
184733 ATAATATTATATTT
1 AT-AT-TTA-A--T
184747 ATATTTAA-
1 ATATTTAAT
184755 A-ATTTAAT
1 ATATTTAAT
184763 ATATTTAAT
1 ATATTTAAT
184772 A-ATTTA
1 ATATTTA
184778 TATTTAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.11
8 7 0.13
9 25 0.47
10 2 0.04
11 4 0.08
12 4 0.08
13 2 0.04
14 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATATTTAAT
Found at i:184939 original size:29 final size:30
Alignment explanation
Indices: 184884--184942 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
184874 TAATTTTATG
184884 ATATATAAATTTATATATTATTAATAAATT
1 ATATATAAATTTATATATTATTAATAAATT
*
184914 ATATAT-AATTTATAT-TTATTTTATAAATT
1 ATATATAAATTTATATATTA-TTAATAAATT
184943 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 3 0.11
29 18 0.67
30 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATATATAAATTTATATATTATTAATAAATT
Found at i:185840 original size:2 final size:2
Alignment explanation
Indices: 185833--185859 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
185823 TTAAACATAA
185833 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
185860 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:189179 original size:33 final size:32
Alignment explanation
Indices: 189142--189210 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
189132 TCTATATTAC
* *
189142 ATTTAATACTATTAAAAATTAATGTTATCTCTA
1 ATTTAATACTATTAAAAATAAATATTATCTC-A
*
189175 ATTTAATAGTATTAAAAATAAATATTATCTCA
1 ATTTAATACTATTAAAAATAAATATTATCTCA
189207 ATTT
1 ATTT
189211 TTTTTGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (32 bp):
ATTTAATACTATTAAAAATAAATATTATCTCA
Found at i:189237 original size:13 final size:12
Alignment explanation
Indices: 189221--189254 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
189211 TTTTTGAAAT
189221 ATAATTTTAAAAA
1 ATAATTTT-AAAA
189234 ATAATTATTAAAA
1 ATAATT-TTAAAA
189247 ATAATTTT
1 ATAATTTT
189255 TCATATCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAATTTTAAAA
Found at i:189828 original size:33 final size:32
Alignment explanation
Indices: 189791--189900 Score: 109
Period size: 32 Copynumber: 3.4 Consensus size: 32
189781 TTTAAAATAT
189791 TTTATATTTATATAAATTTTTATATATTATTAA
1 TTTATA-TTATATAAATTTTTATATATTATTAA
* *
189824 TTTATATTATATAAATTTTAAAATATT-TATATA
1 TTTATATTATATAAATTTTTATATATTAT-TA-A
* * *
189857 TTTATAATATAT-TA-TTTTATATATTATTTA
1 TTTATATTATATAAATTTTTATATATTATTAA
* *
189887 TTTATTTTAAATAA
1 TTTATATTATATAA
189901 TTATATTATA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
30 10 0.16
31 11 0.18
32 23 0.37
33 18 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTATATTATATAAATTTTTATATATTATTAA
Found at i:189828 original size:63 final size:64
Alignment explanation
Indices: 189781--189900 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 64
189771 CATAATCGTA
189781 TTTAAAATATTT-TATATTTAT-ATA-AAT-TTTTATATATTATTAATTTA-TATTATATAAAT
1 TTTAAAATATTTATATATTTATAATATAATATTTTATATATTATTAATTTATTATTATATAAAT
* * *
189840 TTTAAAATATTTATATATTTATAATATATTATTTTATATATTATTTATTTATT-TTAAATAA
1 TTTAAAATATTTATATATTTATAATATAATATTTTATATATTATTAATTTATTATTATATAA
189901 TTATATTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
59 12 0.23
60 9 0.17
61 3 0.06
62 2 0.04
63 26 0.49
64 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (64 bp):
TTTAAAATATTTATATATTTATAATATAATATTTTATATATTATTAATTTATTATTATATAAAT
Found at i:189879 original size:23 final size:22
Alignment explanation
Indices: 189849--189912 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 22
189839 TTTTAAAATA
*
189849 TTTATATATTTATAATATATTAT
1 TTTATATA-TTATATTATATTAT
189872 TTTATATATTAT-TTAT-TTAT
1 TTTATATATTATATTATATTAT
*
189892 TTTAAATAATTATATTATATT
1 TTTATAT-ATTATATTATATT
189913 TAATATTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 10 0.28
21 8 0.22
22 8 0.22
23 10 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATATATTATATTATATTAT
Done.