Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold393
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1263635
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 115792 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:5657 original size:70 final size:69
Alignment explanation
Indices: 5534--5666 Score: 196
Period size: 70 Copynumber: 1.9 Consensus size: 69
5524 ATAATAACTC
** *
5534 TTTTAAAGTTTTGACTTAATCTTTTTAAGACACTTATAACAATTAGATAAAGTTCCTTCCATGGT
1 TTTTAAAGTTTTGACTTAATCTTAATAAGACACTTATAACAATTAGATAAAGTTCCCTCCATGGT
5599 CTTG
66 CTTG
* *
5603 TTTTAAAGTTTTTGACTTAATCTTAATCAGACACTTATAAC-ATTAGGATGAAGTTCCCTCCATG
1 TTTTAAAG-TTTTGACTTAATCTTAATAAGACACTTATAACAATTA-GATAAAGTTCCCTCCATG
5667 ATATTATCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
69 12 0.21
70 45 0.79
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (69 bp):
TTTTAAAGTTTTGACTTAATCTTAATAAGACACTTATAACAATTAGATAAAGTTCCCTCCATGGT
CTTG
Found at i:5830 original size:2 final size:2
Alignment explanation
Indices: 5823--5882 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
5813 GAAGAAACTA
5823 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5865 AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG
5883 TGTTTTATTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6015 original size:2 final size:2
Alignment explanation
Indices: 6008--6078 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
5998 GTCCGTCCCC
* *
6008 CT CT CT CT CT CT CT CT CT CT AT -T TT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6049 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6079 GAGTGTATCT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.01, C:0.46, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:23400 original size:23 final size:23
Alignment explanation
Indices: 23370--23485 Score: 223
Period size: 23 Copynumber: 5.0 Consensus size: 23
23360 CAATTATATT
23370 TGCTTAGATTACCCGTCTCTGAG
1 TGCTTAGATTACCCGTCTCTGAG
23393 TGCTTAGATTACCCGTCTCTGAG
1 TGCTTAGATTACCCGTCTCTGAG
*
23416 TGCTTAGATTACCCCTCTCTGAG
1 TGCTTAGATTACCCGTCTCTGAG
23439 TGCTTAGATTACCCGTCTCTGAG
1 TGCTTAGATTACCCGTCTCTGAG
23462 TGCTTAGATTACCCGTCTCTGAG
1 TGCTTAGATTACCCGTCTCTGAG
23485 T
1 T
23486 ATAAGCAACT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (23 bp):
TGCTTAGATTACCCGTCTCTGAG
Found at i:38184 original size:30 final size:31
Alignment explanation
Indices: 38150--38227 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
38140 CAGGGGCAGA
* *
38150 TGTTGAGGTAGATTCC-TCTACGGGAGGTGT
1 TGTTGAGGTAGATTCCATCCACGGGAGGTGC
*
38180 TGTTGAAGTAGTAGA-TCCATCCATGGGAGGTGC
1 TGTTG-AG--GTAGATTCCATCCACGGGAGGTGC
38213 TGTTGAGGTAGATTC
1 TGTTGAGGTAGATTC
38228 ATACGCGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
30 10 0.25
31 4 0.10
32 5 0.12
33 21 0.52
ACGTcount: A:0.21, C:0.13, G:0.35, T:0.32
Consensus pattern (31 bp):
TGTTGAGGTAGATTCCATCCACGGGAGGTGC
Found at i:38927 original size:23 final size:23
Alignment explanation
Indices: 38901--38947 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38891 TATGAATAAA
38901 TACGGTAGAATCATTCATATTTT
1 TACGGTAGAATCATTCATATTTT
38924 TACGGTAGAATCATTCATATTTT
1 TACGGTAGAATCATTCATATTTT
38947 T
1 T
38948 GAGGGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (23 bp):
TACGGTAGAATCATTCATATTTT
Found at i:40216 original size:2 final size:2
Alignment explanation
Indices: 40209--40251 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
40199 ATTTTAATAC
40209 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
40251 G
1 G
40252 CGATCCAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:43550 original size:200 final size:200
Alignment explanation
Indices: 43207--43610 Score: 808
Period size: 200 Copynumber: 2.0 Consensus size: 200
43197 AGAACGGAAA
43207 ATAAACATAATTCATAGCTAGCGCCCGAGAGATAGGGCAAAGATGAACGATTCAATAAAACGGCA
1 ATAAACATAATTCATAGCTAGCGCCCGAGAGATAGGGCAAAGATGAACGATTCAATAAAACGGCA
43272 CCAGGAATATAAAGGGACGGATTTTTTTCAAACAGGAAAGCAAGTCCATTTAAATGAAGAATAGA
66 CCAGGAATATAAAGGGACGGATTTTTTTCAAACAGGAAAGCAAGTCCATTTAAATGAAGAATAGA
43337 GGCGGCAGTCTGTTATTTGAAATTCAATATTTTAATAGACTGCATGTCTTTTAATCCTACGCCAG
131 GGCGGCAGTCTGTTATTTGAAATTCAATATTTTAATAGACTGCATGTCTTTTAATCCTACGCCAG
43402 ATCAC
196 ATCAC
43407 ATAAACATAATTCATAGCTAGCGCCCGAGAGATAGGGCAAAGATGAACGATTCAATAAAACGGCA
1 ATAAACATAATTCATAGCTAGCGCCCGAGAGATAGGGCAAAGATGAACGATTCAATAAAACGGCA
43472 CCAGGAATATAAAGGGACGGATTTTTTTCAAACAGGAAAGCAAGTCCATTTAAATGAAGAATAGA
66 CCAGGAATATAAAGGGACGGATTTTTTTCAAACAGGAAAGCAAGTCCATTTAAATGAAGAATAGA
43537 GGCGGCAGTCTGTTATTTGAAATTCAATATTTTAATAGACTGCATGTCTTTTAATCCTACGCCAG
131 GGCGGCAGTCTGTTATTTGAAATTCAATATTTTAATAGACTGCATGTCTTTTAATCCTACGCCAG
43602 ATCAC
196 ATCAC
43607 ATAA
1 ATAA
43611 TAAGATATTC
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 204 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (200 bp):
ATAAACATAATTCATAGCTAGCGCCCGAGAGATAGGGCAAAGATGAACGATTCAATAAAACGGCA
CCAGGAATATAAAGGGACGGATTTTTTTCAAACAGGAAAGCAAGTCCATTTAAATGAAGAATAGA
GGCGGCAGTCTGTTATTTGAAATTCAATATTTTAATAGACTGCATGTCTTTTAATCCTACGCCAG
ATCAC
Found at i:43737 original size:34 final size:35
Alignment explanation
Indices: 43683--43761 Score: 135
Period size: 34 Copynumber: 2.3 Consensus size: 35
43673 TATAAAGAGG
43683 TTTAAATAGACTGAAAACAATTCCAGCATGCATTA
1 TTTAAATAGACTGAAAACAATTCCAGCATGCATTA
43718 TTTAAA-AGACT-AAACACAATTCCAGCATGCATTA
1 TTTAAATAGACTGAAA-ACAATTCCAGCATGCATTA
43752 TTTAAATAGA
1 TTTAAATAGA
43762 GACAAAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
33 3 0.07
34 30 0.71
35 9 0.21
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.29
Consensus pattern (35 bp):
TTTAAATAGACTGAAAACAATTCCAGCATGCATTA
Found at i:47065 original size:2 final size:2
Alignment explanation
Indices: 47060--47140 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
47050 GAAAAGAGAG
47060 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
47102 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
47141 GTTAATTCTA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:47637 original size:21 final size:21
Alignment explanation
Indices: 47613--47769 Score: 167
Period size: 21 Copynumber: 7.4 Consensus size: 21
47603 TTTATTTTCA
47613 ACACTTTAATCTGTAAAATTC
1 ACACTTTAATCTGTAAAATTC
*
47634 ACACTTTTAA-GTGTAAAATTC
1 ACAC-TTTAATCTGTAAAATTC
*
47655 ACACCTTAATCTGTAAAA-TC
1 ACACTTTAATCTGTAAAATTC
* *
47675 TACACTTTTATCTGCAAAATTC
1 -ACACTTTAATCTGTAAAATTC
* *
47697 ACACTTTAATGTGTAAAATTA
1 ACACTTTAATCTGTAAAATTC
* *
47718 ACACTTTAATCTGTAAATTTT
1 ACACTTTAATCTGTAAAATTC
* *
47739 ACACTTTGAA-GTGTAAAAATGC
1 ACACTTT-AATCTGT-AAAATTC
47761 ACACTTTAA
1 ACACTTTAA
47770 GTACAAATCT
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.05
21 87 0.77
22 20 0.18
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (21 bp):
ACACTTTAATCTGTAAAATTC
Found at i:47712 original size:63 final size:63
Alignment explanation
Indices: 47613--47745 Score: 196
Period size: 63 Copynumber: 2.1 Consensus size: 63
47603 TTTATTTTCA
* *
47613 ACACTTTAATCTGTAAAATTCACACTTTTAAGTGTAAAATTCACACCTTAATCTGTAAAATCT
1 ACACTTTAATCTGCAAAATTCACACTTTTAAGTGTAAAATTAACACCTTAATCTGTAAAATCT
* * * *
47676 ACACTTTTATCTGCAAAATTCACAC-TTTAATGTGTAAAATTAACACTTTAATCTGTAAATTTT
1 ACACTTTAATCTGCAAAATTCACACTTTTAA-GTGTAAAATTAACACCTTAATCTGTAAAATCT
47739 ACACTTT
1 ACACTTT
47746 GAAGTGTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 5 0.08
63 58 0.92
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (63 bp):
ACACTTTAATCTGCAAAATTCACACTTTTAAGTGTAAAATTAACACCTTAATCTGTAAAATCT
Found at i:48730 original size:21 final size:21
Alignment explanation
Indices: 48704--48973 Score: 240
Period size: 21 Copynumber: 12.9 Consensus size: 21
48694 TTTACATAGT
*
48704 ATTTTACAGATTAGAGTGTGA
1 ATTTTACAGATTAAAGTGTGA
* * * *
48725 TTTTTACAGA-TATATTAGTAA
1 ATTTTACAGATTAAAGT-GTGA
* * *
48746 AATTTACAGATGAAAGTATGA
1 ATTTTACAGATTAAAGTGTGA
* *
48767 ATTGTACAGATTAAAGTGTAA
1 ATTTTACAGATTAAAGTGTGA
*
48788 AATTTACAGATTAAAGTGTGA
1 ATTTTACAGATTAAAGTGTGA
* ** *
48809 TTTTTACATTTTAAAGTGTGC
1 ATTTTACAGATTAAAGTGTGA
* *
48830 ATTTTACATATTAAAGTGTAA
1 ATTTTACAGATTAAAGTGTGA
* *
48851 AATTTACAGATTAAAGTGTAA
1 ATTTTACAGATTAAAGTGTGA
* *
48872 AATTTACAGATTTAAGTGTGA
1 ATTTTACAGATTAAAGTGTGA
* *
48893 ATTTTACAAATCAAAGTGTGA
1 ATTTTACAGATTAAAGTGTGA
** *
48914 ATTTTACAGATTAAACCG-AA
1 ATTTTACAGATTAAAGTGTGA
*
48934 ATTTTACAGACTT-AAGTGTAA
1 ATTTTACAGA-TTAAAGTGTGA
* *
48955 AATTTACAGATTAACGTGT
1 ATTTTACAGATTAAAGTGT
48974 TGAAAATGAA
Statistics
Matches: 199, Mismatches: 45, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
20 20 0.10
21 176 0.88
22 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (21 bp):
ATTTTACAGATTAAAGTGTGA
Found at i:51706 original size:2 final size:2
Alignment explanation
Indices: 51699--51753 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
51689 TAGATAAGTC
*
51699 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
51741 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
51754 AATTAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51842 original size:2 final size:2
Alignment explanation
Indices: 51835--51894 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
51825 AAAAGTCGTT
51835 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
51877 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
51895 CAATTCATGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52231 original size:3 final size:3
Alignment explanation
Indices: 52223--52250 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
52213 CGTCATTCAG
52223 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
52251 ATATCGACAC
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:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:53368 original size:16 final size:16
Alignment explanation
Indices: 53347--53377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53337 TCAAAGCTGG
*
53347 TCTAATTCCGTTCTGT
1 TCTAATTCAGTTCTGT
53363 TCTAATTCAGTTCTG
1 TCTAATTCAGTTCTG
53378 ATTTACTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (16 bp):
TCTAATTCAGTTCTGT
Found at i:54169 original size:27 final size:26
Alignment explanation
Indices: 54094--54184 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 26
54084 TTAATCCAGA
* *
54094 TGACCAGGATGTCAAACTTAGTAAAGG
1 TGACCAGGATGT-TAACTTATTAAAGG
*
54121 TGACCAGGATATATAACTTATTAAAGG
1 TGACCAGGATGT-TAACTTATTAAAGG
* *
54148 TGACCAGGATGTTAATCGTATTAGAGG
1 TGACCAGGATGTTAA-CTTATTAAAGG
*
54175 TGACTAGGAT
1 TGACCAGGAT
54185 ACGTATAGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (26 bp):
TGACCAGGATGTTAACTTATTAAAGG
Found at i:56892 original size:21 final size:21
Alignment explanation
Indices: 56866--56916 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
56856 TTTCTGTTTG
56866 CATTCAGTTCGAATTTGCTTT
1 CATTCAGTTCGAATTTGCTTT
*
56887 CATTCAGTTCGAATTTGTTTT
1 CATTCAGTTCGAATTTGCTTT
56908 CATTCAGTT
1 CATTCAGTT
56917 TGAACTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (21 bp):
CATTCAGTTCGAATTTGCTTT
Found at i:75076 original size:145 final size:144
Alignment explanation
Indices: 74809--75406 Score: 552
Period size: 145 Copynumber: 4.2 Consensus size: 144
74799 TCTGTCTGTC
* * * * * * *
74809 AGTGCAAGATTCTTGTCCTGTCAATATCTTTCTTATGGAGAAACATAGGAAGTTCTTACTTCACA
1 AGTGCAAAATTCGTGTCCGGTCCATATCTTTCTTATGAAAAAACATTGGAAGTTCTTACTTCACA
* * * * * *
74874 CAAAGATTGCTTATGACCGAAGGGCGTGTCCTAACCGTGAA-TCAAGATCATTTGGGCAAGGTCA
66 CAAAGATTGCTTCTGACCGAAGGGTGTGTCATAACCTTGAACT-AAGGTCATTCGGGCAAGGTCA
74938 ATGTCACTGGCAAAA
130 ATGTCACTGGCAAAA
* *
74953 ACGTGCAAAATTCGTGTCCGGTCCATACCTTTCTTATGAAAAAACATTGGAAGTT-TATACTTAA
1 A-GTGCAAAATTCGTGTCCGGTCCATATCTTTCTTATGAAAAAACATTGGAAGTTCT-TACTTCA
* *
75017 CATAAAGATTGCTTCTGACTC-AAGGGTGTGTCATAACCTTGAGCTAAGGTCATTCGGGCAAGGT
64 CACAAAGATTGCTTCTGAC-CGAAGGGTGTGTCATAACCTTGAACTAAGGTCATTCGGGCAAGGT
* *
75081 CAAAGTCACTAGCAGAAA
128 CAATGTCACTGGCA-AAA
* * * * *
75099 AGTGCACAATTGGTGTCCCGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACA
1 AGTGCAAAATTCGTGTCCGGTCCATATCTTTCTTATGAAAAAACATTGGAAGTTCTTACTTCACA
* * ** *** * * * * * * * *
75164 CAAATATTGCTTCTGGCTTAATAATGTGTAATGACCTTGAACCAATGTTATTTGGTCAAGGTCAC
66 CAAAGATTGCTTCTGACCGAAGGGTGTGTCATAACCTTGAACTAAGGTCATTCGGGCAAGGTCAA
75229 TGGT-A---G-AAAA
131 T-GTCACTGGCAAAA
* * * * *
75239 AGTG-AAACATTGGTGTCTGGTCCATATCTTTCTTA-CAAAACAGCATTGAAAGTTCTTACTTCA
1 AGTGCAAA-ATTCGTGTCCGGTCCATATCTTTCTTATGAAAA-AACATTGGAAGTTCTTACTTCA
* * * *
75302 CACAAAGATTGCTTCTGACCTAAGGGTGTGTCATGACCTTGAAC-CAGGTCATTCGGTCAAGGTC
64 CACAAAGATTGCTTCTGACCGAAGGGTGTGTCATAACCTTGAACTAAGGTCATTCGGGCAAGGTC
* *
75366 AAGGTCAGTGGCCAAAACA
129 AATGTCACTGG-C-AAA-A
* *
75385 AATGCAAAATTCATGTCCGGTC
1 AGTGCAAAATTCGTGTCCGGTC
75407 TTATGGACAA
Statistics
Matches: 367, Mismatches: 68, Indels: 36
0.78 0.14 0.08
Matches are distributed among these distances:
138 2 0.01
139 22 0.06
140 89 0.24
141 1 0.00
142 2 0.01
144 2 0.01
145 222 0.60
146 24 0.07
147 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (144 bp):
AGTGCAAAATTCGTGTCCGGTCCATATCTTTCTTATGAAAAAACATTGGAAGTTCTTACTTCACA
CAAAGATTGCTTCTGACCGAAGGGTGTGTCATAACCTTGAACTAAGGTCATTCGGGCAAGGTCAA
TGTCACTGGCAAAA
Found at i:76396 original size:2 final size:2
Alignment explanation
Indices: 76391--76460 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
76381 TCCGAGAAAG
76391 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
76433 TC T- TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
76461 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:76562 original size:2 final size:2
Alignment explanation
Indices: 76557--76604 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
76547 TCCGAGAAAG
76557 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
76599 TC TC TC
1 TC TC TC
76605 AGACACTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:80337 original size:196 final size:195
Alignment explanation
Indices: 79998--80388 Score: 755
Period size: 196 Copynumber: 2.0 Consensus size: 195
79988 AATACCTTGT
79998 TCCATAAACCAATGTGCCAAACAGAGTCAAATGCTTTCTCAAAATCTATAAACGCACAATATAAT
1 TCCATAAACCAATGTGCCAAACAGAGTCAAATGCTTTCTCAAAATCTATAAACGCACAATATAAT
80063 TTCATCTTATGAAATTTGAAGAGTTCGATAAGAGAATACAATGAAAAAATATGATCTATTGTACT
66 TTCATCTTATGAAATTTGAAGAGTTCGATAAGAGAATACAATGAAAAAATATGATCTATTGTACT
*
80128 ATGACCTCTACGAAAACCTGCTTGGTTCTCTAAAATGAGTTGAACATTGTCAGCATATTTGTTTA
131 ATGACCCCTACGAAAACCTGCTTGGTTCTCTAAAATGAGTTGAACATTGTCAGCATATTTGTTTA
80193 NTCCATAAACCAATGTGCCAAACAGAGTCAAATGCTTTCTCAAAATCTATAAACGCACAATATAA
1 -TCCATAAACCAATGTGCCAAACAGAGTCAAATGCTTTCTCAAAATCTATAAACGCACAATATAA
*
80258 TTTCATCTTATGCAATTTGAAGAGTTCGATAAGAGAATACAATGAAAAAATATGATCTATTGTAC
65 TTTCATCTTATGAAATTTGAAGAGTTCGATAAGAGAATACAATGAAAAAATATGATCTATTGTAC
80323 TATGACCCCTACGAAAACCTGCTTGGTTCTCTAAAATGAGTTGAACATTGTCAGCATATTTGTTT
130 TATGACCCCTACGAAAACCTGCTTGGTTCTCTAAAATGAGTTGAACATTGTCAGCATATTTGTTT
80388 A
195 A
80389 ACCTTTCATT
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
196 193 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (195 bp):
TCCATAAACCAATGTGCCAAACAGAGTCAAATGCTTTCTCAAAATCTATAAACGCACAATATAAT
TTCATCTTATGAAATTTGAAGAGTTCGATAAGAGAATACAATGAAAAAATATGATCTATTGTACT
ATGACCCCTACGAAAACCTGCTTGGTTCTCTAAAATGAGTTGAACATTGTCAGCATATTTGTTTA
Found at i:84421 original size:34 final size:34
Alignment explanation
Indices: 84391--84542 Score: 108
Period size: 34 Copynumber: 4.5 Consensus size: 34
84381 TTAAAGTGTT
*
84391 TGATTGTGTGTAACAGTATATGCATAAAAGTACC
1 TGATTGTGTGTAACAGTATATGCATAAAAGTGCC
* * ** * **
84425 TGATTGTGTGCAACAGTTTATGTGTTAAAGTGTG
1 TGATTGTGTGTAACAGTATATGCATAAAAGTGCC
* * ** * *
84459 TGAATGCGTGTAATGGTATATGTAGT-AAAGTGCG
1 TGATTGTGTGTAACAGTATATGCA-TAAAAGTGCC
* * * * *
84493 TGATTTTGTGTAACGGTATATACCTAAAAGTACC
1 TGATTGTGTGTAACAGTATATGCATAAAAGTGCC
*
84527 TGATTGTGTGCAACAG
1 TGATTGTGTGTAACAG
84543 CTTATGTGTT
Statistics
Matches: 88, Mismatches: 28, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
33 1 0.01
34 86 0.98
35 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.35
Consensus pattern (34 bp):
TGATTGTGTGTAACAGTATATGCATAAAAGTGCC
Found at i:84548 original size:102 final size:102
Alignment explanation
Indices: 84372--84559 Score: 297
Period size: 102 Copynumber: 1.8 Consensus size: 102
84362 TAACAGAATT
** *
84372 GTATATGTGTTAAAGTGTTTGATTGTGTGTAACAGTATATGCATAAAAGTACCTGATTGTGTGCA
1 GTATATGTGTTAAAGTGCGTGATTGTGTGTAACAGTATATACATAAAAGTACCTGATTGTGTGCA
*
84437 ACAGTTTATGTGTTAAAGTGTGTGAATGCGTGTAATG
66 ACAGCTTATGTGTTAAAGTGTGTGAATGCGTGTAATG
* * *
84474 GTATATGTAG-TAAAGTGCGTGATTTTGTGTAACGGTATATACCTAAAAGTACCTGATTGTGTGC
1 GTATATGT-GTTAAAGTGCGTGATTGTGTGTAACAGTATATACATAAAAGTACCTGATTGTGTGC
84538 AACAGCTTATGTGTTAAAGTGT
65 AACAGCTTATGTGTTAAAGTGT
84560 AATGGTATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 77 0.99
103 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (102 bp):
GTATATGTGTTAAAGTGCGTGATTGTGTGTAACAGTATATACATAAAAGTACCTGATTGTGTGCA
ACAGCTTATGTGTTAAAGTGTGTGAATGCGTGTAATG
Found at i:84689 original size:68 final size:68
Alignment explanation
Indices: 84556--84697 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 68
84546 ATGTGTTAAA
84556 GTGTAATGGTATATGTAGTAAAGTACCTGATGTCGTGTAATGGTATATGTAGTAAAGTACCTGAT
1 GTGTAATGGTATATGTAGTAAAGTACCTGATGTCGTGTAATGGTATATGTAGTAAAGTACCTGAT
*
84621 TTC
66 TGC
***
84624 GTGTAATGGTATATGTAGTAAAGTACCTGATGTCGTGTAATGGTATATGTAGTAAAGTGTTTGAT
1 GTGTAATGGTATATGTAGTAAAGTACCTGATGTCGTGTAATGGTATATGTAGTAAAGTACCTGAT
84689 TGC
66 TGC
84692 GTGTAA
1 GTGTAA
84698 CAGTATGTGA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (68 bp):
GTGTAATGGTATATGTAGTAAAGTACCTGATGTCGTGTAATGGTATATGTAGTAAAGTACCTGAT
TGC
Found at i:84697 original size:34 final size:34
Alignment explanation
Indices: 84556--84681 Score: 243
Period size: 34 Copynumber: 3.7 Consensus size: 34
84546 ATGTGTTAAA
84556 GTGTAATGGTATATGTAGTAAAGTACCTGATGTC
1 GTGTAATGGTATATGTAGTAAAGTACCTGATGTC
*
84590 GTGTAATGGTATATGTAGTAAAGTACCTGATTTC
1 GTGTAATGGTATATGTAGTAAAGTACCTGATGTC
84624 GTGTAATGGTATATGTAGTAAAGTACCTGATGTC
1 GTGTAATGGTATATGTAGTAAAGTACCTGATGTC
84658 GTGTAATGGTATATGTAGTAAAGT
1 GTGTAATGGTATATGTAGTAAAGT
84682 GTTTGATTGC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 90 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (34 bp):
GTGTAATGGTATATGTAGTAAAGTACCTGATGTC
Found at i:88259 original size:251 final size:253
Alignment explanation
Indices: 87814--88286 Score: 869
Period size: 251 Copynumber: 1.9 Consensus size: 253
87804 CTAAACACTT
87814 ATGATTCAATTGTCTGATCATATAGTCTAGTAAAAGCAATATTCAAACAACCAATGTATTAATTT
1 ATGATTCAATTGTCTGATCATATAGTCTAGTAAAAGCAATATTCAAACAACCAATGTATTAATTT
*
87879 ATTAGATAATGTCATTATATCCATCTAATGAATTACACGTGCTAAATTATATGTACCATCAATAA
66 ATTAGATAATGTCATTATATCCATCTAATGAATTACACGTGCTAAATTATATGCACCATCAATAA
*
87944 CATATTCTTCTTGAAATGACTTAATAGAGCTTATAACAATAAGATCTCACAAATTCTGAGAAAAT
131 CATATTCTTCTTGAAATGACTTAATAGAGCTTATAACAATAAGATCTAACAAATTCTGAGAAAAT
*
88009 AAATACCAAGAATTACCAATTCTATTGTATAACTGTTTATGTAAACCCACAAACTCTC
196 AAATACCAAAAATTACCAATTCTATTGTATAACTGTTTATGTAAACCCACAAACTCTC
88067 ATGATTCAATTGTCTGATCATATAGTCTAGTAAAAGCAATATT-AAA-AACCAATGTATTAATTT
1 ATGATTCAATTGTCTGATCATATAGTCTAGTAAAAGCAATATTCAAACAACCAATGTATTAATTT
* * *
88130 ATTAGATAATGTCATTATATCCATCTAATGAATTACATGTGCTAAATTATATGCACTATCAATCA
66 ATTAGATAATGTCATTATATCCATCTAATGAATTACACGTGCTAAATTATATGCACCATCAATAA
*
88195 CATATTCTTCTTGAAATGACTTAATAGAGCTTATAACAATAAGATTTAACAAATTCTGAGAAAAT
131 CATATTCTTCTTGAAATGACTTAATAGAGCTTATAACAATAAGATCTAACAAATTCTGAGAAAAT
88260 AAATACCAAAAATTACCAATTCTATTG
196 AAATACCAAAAATTACCAATTCTATTG
88287 AATATTAATG
Statistics
Matches: 213, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
251 167 0.78
252 3 0.01
253 43 0.20
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (253 bp):
ATGATTCAATTGTCTGATCATATAGTCTAGTAAAAGCAATATTCAAACAACCAATGTATTAATTT
ATTAGATAATGTCATTATATCCATCTAATGAATTACACGTGCTAAATTATATGCACCATCAATAA
CATATTCTTCTTGAAATGACTTAATAGAGCTTATAACAATAAGATCTAACAAATTCTGAGAAAAT
AAATACCAAAAATTACCAATTCTATTGTATAACTGTTTATGTAAACCCACAAACTCTC
Found at i:92428 original size:17 final size:18
Alignment explanation
Indices: 92394--92433 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
92384 GTGTTATAAA
92394 ATAATCATAGAATATAGT
1 ATAATCATAGAATATAGT
* *
92412 ATAAT-ATAGTATGTAGT
1 ATAATCATAGAATATAGT
92429 ATAAT
1 ATAAT
92434 TTACCAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (18 bp):
ATAATCATAGAATATAGT
Found at i:94181 original size:91 final size:91
Alignment explanation
Indices: 94026--94202 Score: 336
Period size: 91 Copynumber: 1.9 Consensus size: 91
94016 TCGAAGTATA
94026 TAAGTTGATATATGAGTTTACTTTGTAATAGGAGTAGTAAAATAATTTGACTATAACAATAGAAA
1 TAAGTTGATATATGAGTTTACTTTGTAATAGGAGTAGTAAAATAATTTGACTATAACAATAGAAA
* *
94091 CGGTTCCTGACAAAAGTCTTCACTCC
66 CGGTTCCTAAAAAAAGTCTTCACTCC
94117 TAAGTTGATATATGAGTTTACTTTGTAATAGGAGTAGTAAAATAATTTGACTATAACAATAGAAA
1 TAAGTTGATATATGAGTTTACTTTGTAATAGGAGTAGTAAAATAATTTGACTATAACAATAGAAA
94182 CGGTTCCTAAAAAAAGTCTTC
66 CGGTTCCTAAAAAAAGTCTTC
94203 CCCCCCCCCC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 84 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (91 bp):
TAAGTTGATATATGAGTTTACTTTGTAATAGGAGTAGTAAAATAATTTGACTATAACAATAGAAA
CGGTTCCTAAAAAAAGTCTTCACTCC
Found at i:100341 original size:34 final size:34
Alignment explanation
Indices: 100303--100408 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
100293 TTATGATATG
* *
100303 TGTGTTAAAGTGT-TCGATTGTGTGTAACTGTATA
1 TGTGTTGAAGTGTGT-GATTGTGTGTAACGGTATA
100337 TGTGTTGAAGTGTGTGATTGTGTGTAACGGTATA
1 TGTGTTGAAGTGTGTGATTGTGTGTAACGGTATA
* * *
100371 TGTGTTGAAGTGTGTGATTGTTTGAAACGGTATG
1 TGTGTTGAAGTGTGTGATTGTGTGTAACGGTATA
100405 TGTG
1 TGTG
100409 ATTGCGTGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 65 0.98
35 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.33, T:0.42
Consensus pattern (34 bp):
TGTGTTGAAGTGTGTGATTGTGTGTAACGGTATA
Found at i:100462 original size:34 final size:34
Alignment explanation
Indices: 100402--100479 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
100392 TTGAAACGGT
* * ** *
100402 ATGTGTGATTGCGTGTAGTGGAATATGTGTTTAA
1 ATGTGTGATTGCATGTAGTAGAATATGCATTAAA
*
100436 ATGTGTGATTGCATGTA-TAAGTATATGCATTAAA
1 ATGTGTGATTGCATGTAGT-AGAATATGCATTAAA
100470 ATGTGTGATT
1 ATGTGTGATT
100480 TTGTATAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.28, C:0.04, G:0.27, T:0.41
Consensus pattern (34 bp):
ATGTGTGATTGCATGTAGTAGAATATGCATTAAA
Found at i:108404 original size:2 final size:2
Alignment explanation
Indices: 108397--108450 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
108387 TTCTTTTAAG
108397 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
108439 CT CT CT CT CT CT
1 CT CT CT CT CT CT
108451 TAACATTTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:108594 original size:12 final size:12
Alignment explanation
Indices: 108577--108603 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
108567 AAACACACAA
108577 TCTCTCTCTCTT
1 TCTCTCTCTCTT
108589 TCTCTCTCTCTT
1 TCTCTCTCTCTT
108601 TCT
1 TCT
108604 ACTTTGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:108742 original size:2 final size:2
Alignment explanation
Indices: 108735--108778 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
108725 CAATAAACAT
108735 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
108777 TC
1 TC
108779 AAACACTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:108924 original size:2 final size:2
Alignment explanation
Indices: 108917--108991 Score: 141
Period size: 2 Copynumber: 37.0 Consensus size: 2
108907 CGTATGTATA
108917 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
108959 CT CT CT CT CGT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT
108992 TAAAGATTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 70 0.97
3 2 0.03
ACGTcount: A:0.00, C:0.49, G:0.01, T:0.49
Consensus pattern (2 bp):
CT
Found at i:109110 original size:12 final size:12
Alignment explanation
Indices: 109093--109117 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109083 TTGTTTTTAA
109093 TTTCTCTCTCTC
1 TTTCTCTCTCTC
109105 TTTCTCTCTCTC
1 TTTCTCTCTCTC
109117 T
1 T
109118 CCGACTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCTCTCTCTC
Found at i:109383 original size:2 final size:2
Alignment explanation
Indices: 109376--109439 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
109366 CTAACATGAA
* * *
109376 CT CT CT CT CT CC CT CT CT CT CT GT TT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
109418 CT CT CT CT CT CT CT CG CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
109440 GCTAAACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.48, G:0.03, T:0.48
Consensus pattern (2 bp):
CT
Found at i:109947 original size:38 final size:38
Alignment explanation
Indices: 109896--110125 Score: 397
Period size: 38 Copynumber: 6.1 Consensus size: 38
109886 AATTACACAG
* *
109896 TATAGCTACACAAACATAGTGATATTGCATGAATGCTA
1 TATAGCTACACAAACATAGTGATATTACATGAATACTA
*
109934 TATAGCTACACAAACATAGTGATATTACATGAATGCTA
1 TATAGCTACACAAACATAGTGATATTACATGAATACTA
*
109972 TATAGCTATACAAACATAGTGATATTACATGAATACTA
1 TATAGCTACACAAACATAGTGATATTACATGAATACTA
*
110010 TATAGCTACACAAACATAGTGCTATTACATGAATACTA
1 TATAGCTACACAAACATAGTGATATTACATGAATACTA
*
110048 TATAGCTACACAAACATAGTGCTATTACATGAATACTA
1 TATAGCTACACAAACATAGTGATATTACATGAATACTA
*
110086 TATAGCTACACAAACATAGTGATATTACAAGAATACTA
1 TATAGCTACACAAACATAGTGATATTACATGAATACTA
110124 TA
1 TA
110126 CCACATAAAC
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 185 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (38 bp):
TATAGCTACACAAACATAGTGATATTACATGAATACTA
Found at i:110095 original size:19 final size:19
Alignment explanation
Indices: 109997--110095 Score: 52
Period size: 19 Copynumber: 5.2 Consensus size: 19
109987 ATAGTGATAT
109997 TACATGAATACTATATAGC
1 TACATGAATACTATATAGC
*
110016 TACA-CAA-AC-ATAGT-GC
1 TACATGAATACTATA-TAGC
110032 TATTACATGAATACTATATAGC
1 ---TACATGAATACTATATAGC
*
110054 TACA-CAA-AC-ATAGT-GC
1 TACATGAATACTATA-TAGC
110070 TATTACATGAATACTATATAGC
1 ---TACATGAATACTATATAGC
110092 TACA
1 TACA
110096 CAAACATAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 32
0.62 0.04 0.33
Matches are distributed among these distances:
16 10 0.17
17 6 0.10
18 4 0.07
19 20 0.33
20 4 0.07
21 6 0.10
22 10 0.17
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.29
Consensus pattern (19 bp):
TACATGAATACTATATAGC
Found at i:110342 original size:19 final size:19
Alignment explanation
Indices: 110318--110360 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
110308 AACGCTATGT
110318 TGAAGACAAGCTAATACAG
1 TGAAGACAAGCTAATACAG
** *
110337 TGAAGATGAGTTAATACAG
1 TGAAGACAAGCTAATACAG
110356 TGAAG
1 TGAAG
110361 TCTCCGATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (19 bp):
TGAAGACAAGCTAATACAG
Found at i:114886 original size:2 final size:2
Alignment explanation
Indices: 114879--114912 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
114869 CTTTGATTTA
114879 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
114913 TTTCTGAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:114990 original size:2 final size:2
Alignment explanation
Indices: 114983--115050 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
114973 ACATGACATG
114983 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
115025 CT CT CT CT CT CT CT TT C- CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
115051 AAATTCTTTG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:134705 original size:33 final size:33
Alignment explanation
Indices: 134656--135761 Score: 1444
Period size: 33 Copynumber: 33.1 Consensus size: 33
134646 CACAGCCATA
* *
134656 GTTTGGATTTACTTACTGAATCATTCCTGGTGTC
1 GTTT-GATTGACTTACTGAATTATTCCTGGTGTC
* *
134690 GTTGGATTGATTTACTGAATTATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* *
134723 GTTTGATTGACTTACTGAATTGTCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
134756 GTTTGATTGACTTACTGAATTATCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* * *
134789 ATTGGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
134822 GTTTGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* * *
134855 GTTGGATTGACTTACTGAATCATTCCTGGTGTT
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
134888 GTTAGATTGACTTACTGAATTATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
134921 GTTTGATTGACTTACTGAATTATCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* *
134954 GTTTGATTGACTTACTGAATTATTCATGCTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
134987 GTTTGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* * *
135020 GTTTGATTGACTAACTGATTTATCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* * *
135053 TTTTGGTTGACTTGCTGAATTATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135086 GTTTGATTGACTTACTGAATTATCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135119 GTTTGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
** *
135152 GTTTGATTGACCGACTGAATTACTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* * * *
135185 GTTTGATTGACGTACAT-AATAAGTCCTGGTGTG
1 GTTTGATTGACTTAC-TGAATTATTCCTGGTGTC
*
135218 GTTTGATTGACTGACTGAATT-TTACCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATT--CCTGGTGTC
*
135252 GTTTGATTGACTTACTGAATAATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* *
135285 GTTTGATTGACTGACTGAATTATCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* *
135318 GTTTGATTGACTGACTGAATTATCCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* *
135351 GTTTGATTGACTTACTGAATTATCCCTGGTGTG
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135384 GTTTGATTGACTGACTGAATT-TTACCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATT--CCTGGTGTC
*
135418 GTTTGATTGACTTACTGAATAATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135451 GTTTGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
** ** **
135484 GTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTC
1 GTTTGATTGACTTACTG--AATT-ATT--CCTGGTGTC
* *
135522 GTTGGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135555 GTTGGATTGACTTACTGAATTATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135588 GTTGGATTGACTTACTGAATTATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
** ** **
135621 GTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTC
1 GTTTGATTGACTTACTG--AATT-ATT--CCTGGTGTC
* *
135659 GTTGGATTGACTTACTGAATCATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
*
135692 GTTGGATTGACTTACTGAATTATTCCTGGTGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
* * *
135725 GTTGGATTGACTTACTGAATTATGCCTGGCGTC
1 GTTTGATTGACTTACTGAATTATTCCTGGTGTC
135758 GTTT
1 GTTT
135762 AGTTGAATCT
Statistics
Matches: 948, Mismatches: 106, Indels: 37
0.87 0.10 0.03
Matches are distributed among these distances:
32 3 0.00
33 824 0.87
34 58 0.06
35 13 0.01
36 8 0.01
38 42 0.04
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (33 bp):
GTTTGATTGACTTACTGAATTATTCCTGGTGTC
Found at i:135504 original size:19 final size:19
Alignment explanation
Indices: 135480--135538 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
135470 TCATTCCTGG
135480 TGTCGTTTGATTGACTTAC
1 TGTCGTTTGATTGACTTAC
*
135499 TGTCGTTTGATTGAATTAC
1 TGTCGTTTGATTGACTTAC
*
135518 TGTCGTTGGATTGACTTAC
1 TGTCGTTTGATTGACTTAC
135537 TG
1 TG
135539 AATCATTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.46
Consensus pattern (19 bp):
TGTCGTTTGATTGACTTAC
Found at i:135537 original size:71 final size:71
Alignment explanation
Indices: 135447--135708 Score: 399
Period size: 71 Copynumber: 3.8 Consensus size: 71
135437 TAATTCCTGG
* *
135447 TGTCGTTTGATTGACTTACTGAATCATTCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTG
1 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGTCGTTTGATTG
135512 AATTAC
66 AATTAC
**
135518 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTG--AATT-ATT-
1 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGTCGTTTGATTG
** **
135579 -CCTGG
66 AATTAC
* *
135584 TGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTG
1 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGTCGTTTGATTG
135649 AATTAC
66 AATTAC
135655 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTG
1 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTG
135709 AATTATTCCT
Statistics
Matches: 168, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
66 53 0.32
68 5 0.03
69 5 0.03
71 105 0.62
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (71 bp):
TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGTCGTTTGATTG
AATTAC
Found at i:135569 original size:104 final size:104
Alignment explanation
Indices: 135414--135708 Score: 339
Period size: 104 Copynumber: 2.8 Consensus size: 104
135404 TTTACCCTGG
* *
135414 TGTCGTTTGATTGACTTACTGAATAATTCCTGGTGTCGTTTGATTGACTTACTGAATCATTCCTG
1 TGTCGTTGGATTGACTTACTGAATAATTCCTGGTGTCGTTGGATTGACTTACTGAATCATTCCTG
*
135479 GTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTAC
66 GTGTCGTTGGATTGACTTACTGTCGTTTGATTGAATTAC
* *
135518 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTG
1 TGTCGTTGGATTGACTTACTGAATAATTCCTGGTGTCGTTGGATTGACTTACTGAATCATTCCTG
** ** **
135583 GTGTCGTTGGATTGACTTACTG--AATT-ATT--CCTGG
66 GTGTCGTTGGATTGACTTACTGTCGTTTGATTGAATTAC
* ** * ** **
135617 TGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTCGTTGGATTGACTTACTGAATCAT
1 TGTCGTTGGATTGACTTAC--T-GAATAATT--CCTGGTGTCGTTGGATTGACTTACTGAATCAT
135682 TCCTGGTGTCGTTGGATTGACTTACTG
61 TCCTGGTGTCGTTGGATTGACTTACTG
135709 AATTATTCCT
Statistics
Matches: 166, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
99 19 0.11
101 4 0.02
102 7 0.04
104 136 0.82
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (104 bp):
TGTCGTTGGATTGACTTACTGAATAATTCCTGGTGTCGTTGGATTGACTTACTGAATCATTCCTG
GTGTCGTTGGATTGACTTACTGTCGTTTGATTGAATTAC
Found at i:135596 original size:137 final size:137
Alignment explanation
Indices: 135409--135761 Score: 652
Period size: 137 Copynumber: 2.6 Consensus size: 137
135399 TGAATTTTAC
* * * *
135409 CCTGGTGTCGTTTGATTGACTTACTGAATAATTCCTGGTGTCGTTTGATTGACTTACTGAATCAT
1 CCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTAT
135474 TCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTCGTTGGATTGACTTACTG
66 TCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTCGTTGGATTGACTTACTG
135539 AATCATT
131 AATCATT
135546 CCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTAT
1 CCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTAT
135611 TCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTCGTTGGATTGACTTACTG
66 TCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTCGTTGGATTGACTTACTG
135676 AATCATT
131 AATCATT
135683 CCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTAT
1 CCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTAT
* *
135748 GCCTGGCGTCGTTT
66 TCCTGGTGTCGTTT
135762 AGTTGAATCT
Statistics
Matches: 210, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 210 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (137 bp):
CCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTAT
TCCTGGTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTACTGTCGTTGGATTGACTTACTG
AATCATT
Found at i:135641 original size:19 final size:19
Alignment explanation
Indices: 135617--135675 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
135607 TTATTCCTGG
135617 TGTCGTTTGATTGACTTAC
1 TGTCGTTTGATTGACTTAC
*
135636 TGTCGTTTGATTGAATTAC
1 TGTCGTTTGATTGACTTAC
*
135655 TGTCGTTGGATTGACTTAC
1 TGTCGTTTGATTGACTTAC
135674 TG
1 TG
135676 AATCATTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.46
Consensus pattern (19 bp):
TGTCGTTTGATTGACTTAC
Found at i:135733 original size:104 final size:104
Alignment explanation
Indices: 135551--135741 Score: 364
Period size: 104 Copynumber: 1.8 Consensus size: 104
135541 TCATTCCTGG
*
135551 TGTCGTTGGATTGACTTACTGAATTATTCCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTG
1 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTG
*
135616 GTGTCGTTTGATTGACTTACTGTCGTTTGATTGAATTAC
66 GTGTCGTTGGATTGACTTACTGTCGTTTGATTGAATTAC
135655 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTG
1 TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTG
135720 GTGTCGTTGGATTGACTTACTG
66 GTGTCGTTGGATTGACTTACTG
135742 AATTATGCCT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 85 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.43
Consensus pattern (104 bp):
TGTCGTTGGATTGACTTACTGAATCATTCCTGGTGTCGTTGGATTGACTTACTGAATTATTCCTG
GTGTCGTTGGATTGACTTACTGTCGTTTGATTGAATTAC
Found at i:136323 original size:2 final size:2
Alignment explanation
Indices: 136316--136380 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
136306 CAGTACATTC
136316 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
136358 CT CT CT CT TT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
136381 AACTGTATTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:136575 original size:19 final size:19
Alignment explanation
Indices: 136540--136612 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
136530 ATACGGTATA
*
136540 AAAGACAATCAAACTGTTG
1 AAAGACAATCATACTGTTG
* * *
136559 TAGGACAATCATTCTGTTG
1 AAAGACAATCATACTGTTG
*
136578 AAAGACAGTCATACTGTTG
1 AAAGACAATCATACTGTTG
* *
136597 AACGACAGTCATACTG
1 AAAGACAATCATACTG
136613 CTGACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (19 bp):
AAAGACAATCATACTGTTG
Found at i:137052 original size:2 final size:2
Alignment explanation
Indices: 137039--137125 Score: 129
Period size: 2 Copynumber: 43.5 Consensus size: 2
137029 ATTAGCTACA
* * * *
137039 TC TC TT TC TC TC TC TG TC TC TC TC TC TG TC TC TC TC TC TG TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
137081 TC TG TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
137123 TC T
1 TC T
137126 ATACACATGA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.00, C:0.44, G:0.05, T:0.52
Consensus pattern (2 bp):
TC
Found at i:139005 original size:2 final size:2
Alignment explanation
Indices: 138998--139049 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
138988 ACCAGTATTG
138998 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
139040 CT CT CT CT CT
1 CT CT CT CT CT
139050 ACATAGGCCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:141138 original size:11 final size:11
Alignment explanation
Indices: 141122--141149 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
141112 ATCAATACTA
141122 AAAAAAAAACC
1 AAAAAAAAACC
141133 AAAAAAAAACC
1 AAAAAAAAACC
141144 AAAAAA
1 AAAAAA
141150 CAACAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACC
Found at i:142588 original size:2 final size:2
Alignment explanation
Indices: 142581--142644 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
142571 ATTGCCAGTA
142581 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
142623 TC TC TC TT TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC
142645 GTATCAAACA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:143691 original size:2 final size:2
Alignment explanation
Indices: 143684--143767 Score: 159
Period size: 2 Copynumber: 42.0 Consensus size: 2
143674 ACCAGTATTG
*
143684 CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
143726 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
143768 GACTCTCGCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:144761 original size:4 final size:4
Alignment explanation
Indices: 144737--144780 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
144727 ACACAATACA
*
144737 TTTC TTT- TTTC TTTC TATC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
144781 CTCTCTCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:144785 original size:2 final size:2
Alignment explanation
Indices: 144778--144835 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
144768 TTTCTTTCTT
* * * *
144778 TC TC TC TC TC TC TC TC TC AC TA TC TC TC TC TC TT TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
144820 TC TC TC TA TC TC TC TC
1 TC TC TC TC TC TC TC TC
144836 AATGACAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.05, C:0.47, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:146277 original size:2 final size:2
Alignment explanation
Indices: 146270--146311 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
146260 ATTGCCAGTA
146270 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
146312 GTATCAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:146412 original size:17 final size:17
Alignment explanation
Indices: 146386--146621 Score: 400
Period size: 17 Copynumber: 13.8 Consensus size: 17
146376 TAGAGATATN
*
146386 TAGCAGTGTTTACCCTT
1 TAGCAGTGTTTACTCTT
*
146403 TAGAAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146420 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146437 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146454 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146471 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146488 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
* *
146505 TAGCAGTGTTTACCCTC
1 TAGCAGTGTTTACTCTT
* *
146522 TAGCAGTGTTTACCCTC
1 TAGCAGTGTTTACTCTT
146539 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146556 TAGCAGTGTTTACTCTCTT
1 TAGCAGTGTTTA--CTCTT
146575 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146592 TAGCAGTGTTTACTCTT
1 TAGCAGTGTTTACTCTT
146609 TAGCAGTGTTTAC
1 TAGCAGTGTTTAC
146622 CAAAATCTGA
Statistics
Matches: 210, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
17 193 0.92
19 17 0.08
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.44
Consensus pattern (17 bp):
TAGCAGTGTTTACTCTT
Found at i:146848 original size:17 final size:17
Alignment explanation
Indices: 146826--146891 Score: 132
Period size: 17 Copynumber: 3.9 Consensus size: 17
146816 TCGGCCGCAN
146826 CTTTAGCAGTGTTTACT
1 CTTTAGCAGTGTTTACT
146843 CTTTAGCAGTGTTTACT
1 CTTTAGCAGTGTTTACT
146860 CTTTAGCAGTGTTTACT
1 CTTTAGCAGTGTTTACT
146877 CTTTAGCAGTGTTTA
1 CTTTAGCAGTGTTTA
146892 ACAAAATCTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 49 1.00
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (17 bp):
CTTTAGCAGTGTTTACT
Found at i:147053 original size:271 final size:271
Alignment explanation
Indices: 146553--147095 Score: 1025
Period size: 271 Copynumber: 2.0 Consensus size: 271
146543 AGTGTTTACT
146553 CTTTAGCAGTGTTTACTCTCTTTAGCAGTGTTTACTCTTTAGCAGTGTTTACTCTTTAGCAGTGT
1 CTTTAGCAGTGTTTAC-CTCTTTAGCAGTGTTTACTCTTTAGCAGTGTTTACTCTTTAGCAGTGT
*
146618 TTACCAAAATCTGACTCGTGTCATTGTTTTCAAAGCATGGGTTTCCCTAACACATTTTTAGCTAA
65 TTAACAAAATCTGACTCGTGTCATTGTTTTCAAAGCATGGGTTTCCCTAACACATTTTTAGCTAA
*
146683 CAGGAGCACAGCGTTTTTTGTTACAGATTTAAATGAAAAGTGCAACAGGTGTCCATGTGTTATTG
130 CAGGAGCACAGCGTTTTTTGTTACAGATTTAAATGAAAAGTGCAACAGGTGTCAATGTGTTATTG
146748 GTACTCGATCTTGTCGTTGATGAGATGGGTTTTCCAAGATTATAGTTTTCGTCGTAAAGAACATC
195 GTACTCGATCTTGTCGTTGATGAGATGGGTTTTCCAAGATTATAGTTTTCGTCGTAAAGAACATC
146813 ATATCGGCCGCA
260 ATATCGGCCGCA
146825 NCTTTAGCAGTGTTTA-CTCTTTAGCAGTGTTTACTCTTTAGCAGTGTTTACTCTTTAGCAGTGT
1 -CTTTAGCAGTGTTTACCTCTTTAGCAGTGTTTACTCTTTAGCAGTGTTTACTCTTTAGCAGTGT
*
146889 TTAACAAAATCTGACTCGTGTCATTGTTTTCAAAGCGTGGGTTTCCCTAACACATTTTTAGCTAA
65 TTAACAAAATCTGACTCGTGTCATTGTTTTCAAAGCATGGGTTTCCCTAACACATTTTTAGCTAA
146954 CAGGAGCACAGCGTTTTTTGTTACAGATTTAAATGAAAAGTGCAACAGGTGTCAATGTGTTATTG
130 CAGGAGCACAGCGTTTTTTGTTACAGATTTAAATGAAAAGTGCAACAGGTGTCAATGTGTTATTG
*
147019 GTACTCGATCTTGTCGTTGATGAGATGGGTTTTCCAAGGTTATAGTTTTCGTCGTAAAGAACATC
195 GTACTCGATCTTGTCGTTGATGAGATGGGTTTTCCAAGATTATAGTTTTCGTCGTAAAGAACATC
147084 ATATCGGCCGCA
260 ATATCGGCCGCA
147096 ATTTGATGTA
Statistics
Matches: 266, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
271 251 0.94
273 15 0.06
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (271 bp):
CTTTAGCAGTGTTTACCTCTTTAGCAGTGTTTACTCTTTAGCAGTGTTTACTCTTTAGCAGTGTT
TAACAAAATCTGACTCGTGTCATTGTTTTCAAAGCATGGGTTTCCCTAACACATTTTTAGCTAAC
AGGAGCACAGCGTTTTTTGTTACAGATTTAAATGAAAAGTGCAACAGGTGTCAATGTGTTATTGG
TACTCGATCTTGTCGTTGATGAGATGGGTTTTCCAAGATTATAGTTTTCGTCGTAAAGAACATCA
TATCGGCCGCA
Found at i:147767 original size:2 final size:2
Alignment explanation
Indices: 147754--147815 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
147744 CTTCTGTCTT
* * *
147754 TC TC TT TC TC TC TC TC TC TC TC TT TC TT TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
147796 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
147816 AATCATCATT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:148218 original size:45 final size:45
Alignment explanation
Indices: 147815--148221 Score: 661
Period size: 45 Copynumber: 9.0 Consensus size: 45
147805 CTCTCTCTCT
* *
147815 CAATCATCATTGGTAGACAGTTAACACGGATGTATGCTATATTAA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
*
147860 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTAA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
* * * *
147905 CAATCATCATTAGTAGACCGTTAACACGGATGCATGCTATATATA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
* * *
147950 CAATCATCATTGGTTGACTGTTAACACGGATGTATGCTGTATTAA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
* *
147995 CAATCATCATTGGTAGACAGTTAACACGGATGTATGCTATATTAA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
*
148040 CAATCATCATTGGTTGACTGTTAACACGGATGTATGCTATATTTA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
* *
148085 CATTCATCATTGGTAGACAGTTAACACGGATGTATGCTATATTTA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
*
148130 CATTCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
*
148175 CATTCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
1 CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
148220 CA
1 CA
148222 NNNNNNNNNN
Statistics
Matches: 339, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 339 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (45 bp):
CAATCATCATTGGTAGACTGTTAACACGGATGTATGCTATATTTA
Found at i:148532 original size:2 final size:2
Alignment explanation
Indices: 148525--148574 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
148515 TCAATACATT
148525 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
148567 TC TC TC TC
1 TC TC TC TC
148575 AATGACGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:153426 original size:27 final size:27
Alignment explanation
Indices: 153396--153450 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
153386 CATCATGTCG
*
153396 GTTGTAACCTAGTAAATCCCAATGTTA
1 GTTGTAACCTAGTAAATCACAATGTTA
**
153423 GTTGTAACCTAGTGCATCACAATGTTA
1 GTTGTAACCTAGTAAATCACAATGTTA
153450 G
1 G
153451 ATGAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
GTTGTAACCTAGTAAATCACAATGTTA
Found at i:153727 original size:35 final size:35
Alignment explanation
Indices: 153613--153710 Score: 160
Period size: 35 Copynumber: 2.8 Consensus size: 35
153603 TTGGTTTGTG
* *
153613 ATTATATTATGATAAAACAAAGGTTTGGATGTTTA
1 ATTATATTCTGATAAAACATAGGTTTGGATGTTTA
* *
153648 ATCATATTCTGATAAAATATAGGTTTGGATGTTTA
1 ATTATATTCTGATAAAACATAGGTTTGGATGTTTA
153683 ATTATATTCTGATAAAACATAGGTTTGG
1 ATTATATTCTGATAAAACATAGGTTTGG
153711 GTCGGTCATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (35 bp):
ATTATATTCTGATAAAACATAGGTTTGGATGTTTA
Found at i:153754 original size:35 final size:35
Alignment explanation
Indices: 153603--153757 Score: 120
Period size: 35 Copynumber: 4.5 Consensus size: 35
153593 AAGCATATAC
* * * * *
153603 TTGG-TTTGTGATTATATTATGATAAAACAAAGGT
1 TTGGATTTGTCATTATATTCTAATAAAATATAGGT
* * *
153637 TTGGATGTT-TAATCATATTCTGATAAAATATAGGT
1 TTGGAT-TTGTCATTATATTCTAATAAAATATAGGT
* * *
153672 TTGGATGTT-TAATTATATTCTGATAAAACATAGGT
1 TTGGAT-TTGTCATTATATTCTAATAAAATATAGGT
* ** *
153707 TTGGGTCGGTCATTATATTCTTAAT-AAATGTAGGT
1 TTGGATTTGTCATTATATTC-TAATAAAATATAGGT
153742 TTGGATTTGTCATTAT
1 TTGGATTTGTCATTAT
153758 GTTTTGATCC
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
34 4 0.04
35 91 0.91
36 5 0.05
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (35 bp):
TTGGATTTGTCATTATATTCTAATAAAATATAGGT
Found at i:153757 original size:70 final size:70
Alignment explanation
Indices: 153603--153781 Score: 168
Period size: 70 Copynumber: 2.6 Consensus size: 70
153593 AAGCATATAC
* * *
153603 TTGG-TTTGTGATTATATTATGATAAAACAAAGGTTTGGATGTTTAATCATATTCTGATAAAATA
1 TTGGATTTGTAATTATATTATGATAAAACAAAGGTTTGGATGTGTAATCATATTCTAATAAAATA
153667 TAGGT
66 TAGGT
* * * * *
153672 TTGGATGTT-TAATTATATTCTGATAAAACATAGGTTTGGGTCG-GTCATTATATTCTTAAT-AA
1 TTGGAT-TTGTAATTATATTATGATAAAACAAAGGTTTGGAT-GTGTAATCATATTC-TAATAAA
*
153734 ATGTAGGT
63 ATATAGGT
* * * ** *
153742 TTGGATTTGTCATTATGTTTTGATCCAACAAAGATTTGGA
1 TTGGATTTGTAATTATATTATGATAAAACAAAGGTTTGGA
153782 ATTTTAATTA
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
69 6 0.07
70 76 0.86
71 6 0.07
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (70 bp):
TTGGATTTGTAATTATATTATGATAAAACAAAGGTTTGGATGTGTAATCATATTCTAATAAAATA
TAGGT
Found at i:153813 original size:35 final size:35
Alignment explanation
Indices: 153753--153887 Score: 103
Period size: 35 Copynumber: 3.8 Consensus size: 35
153743 TGGATTTGTC
* * *
153753 ATTATGTTTTGATCCAACAAAGATTTGGAATTTTA
1 ATTATATTTTGATCAAACAAAGATTTAGAATTTTA
** *
153788 ATTATATTTTGATCAAACACGGATTTAGAGTTTTA
1 ATTATATTTTGATCAAACAAAGATTTAGAATTTTA
* * * *
153823 ATTGTATTGTGATTAAACATAA-A-TTCGAATTTGTA
1 ATTATATTTTGATCAAACA-AAGATTTAGAATTT-TA
* * * *
153858 GTTATATTATTTATCAAACATAGGTTTAGA
1 ATTATATT-TTGATCAAACAAAGATTTAGA
153888 TTTATAACTA
Statistics
Matches: 74, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
34 7 0.09
35 55 0.74
36 8 0.11
37 4 0.05
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (35 bp):
ATTATATTTTGATCAAACAAAGATTTAGAATTTTA
Found at i:158830 original size:12 final size:12
Alignment explanation
Indices: 158813--158837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
158803 AGCGGAACAA
158813 TCATATATAGTG
1 TCATATATAGTG
158825 TCATATATAGTG
1 TCATATATAGTG
158837 T
1 T
158838 TCAATTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TCATATATAGTG
Found at i:161180 original size:53 final size:53
Alignment explanation
Indices: 161099--161202 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
161089 GGTATATTGG
* *
161099 AGAATAATGTCCGCGGCATCTCTTTGATCTGGGCAATAACTGTAGTAGAATGA
1 AGAATAATGTCCGCGGCATCTCTATGATCTCGGCAATAACTGTAGTAGAATGA
*
161152 AGAATAATGTCCGCGGCATCTCTATGATCTCTGCAATAACTGTAGTAGAAT
1 AGAATAATGTCCGCGGCATCTCTATGATCTCGGCAATAACTGTAGTAGAAT
161203 AATAAATAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (53 bp):
AGAATAATGTCCGCGGCATCTCTATGATCTCGGCAATAACTGTAGTAGAATGA
Found at i:162146 original size:65 final size:64
Alignment explanation
Indices: 162011--162171 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 64
162001 CACATACATC
* * * * * *
162011 TATTATATTGCTTGAGTAATTGTGATATTTTCTCTATGTAGATAACACAAGACTATTACCATAG
1 TATTATAATGCTTGAGTAATTATGATATCTTCTCTATGTAGATAACACAAGAATATCACCACAG
* * *
162075 TTTTATAATGTTTGGGTAATTTATGATATCTTCTCTATGTAGATAACACAAGAATATC-CACACA
1 TATTATAATGCTTGAGTAA-TTATGATATCTTCTCTATGTAGATAACACAAGAATATCAC-CACA
162139 G
64 G
* * *
162140 TATTATAATTCTTGAGTAACTGTGATATCTTC
1 TATTATAATGCTTGAGTAATTATGATATCTTC
162172 GTTGGGTGCC
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 27 0.34
65 53 0.66
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (64 bp):
TATTATAATGCTTGAGTAATTATGATATCTTCTCTATGTAGATAACACAAGAATATCACCACAG
Found at i:162946 original size:34 final size:34
Alignment explanation
Indices: 162903--163117 Score: 225
Period size: 34 Copynumber: 6.3 Consensus size: 34
162893 TTGTATATGC
* * * *
162903 ATGTGTTAAAGCGCGCGATTGGGTGTAACGGTAT
1 ATGTGTTAAAGCGTGTGATTGCGTGTAACAGTAT
*
162937 ATGTGTTAAAGCGCGTGATTGCGTGTAACAGTAT
1 ATGTGTTAAAGCGTGTGATTGCGTGTAACAGTAT
* * * *
162971 TTGTGTTAAAGCGTGTGTTTGTGTGTAACATTAT
1 ATGTGTTAAAGCGTGTGATTGCGTGTAACAGTAT
* * * *
163005 ATGCGTGAAAGCGTGTGATTTG-ATGTAACGGTAT
1 ATGTGTTAAAGCGTGTGA-TTGCGTGTAACAGTAT
* * * *
163039 ATCTGTTAAAGTGTGTAATTGCGTGTAACATTAT
1 ATGTGTTAAAGCGTGTGATTGCGTGTAACAGTAT
* * *
163073 ATGTGTTAAAGTGTGTGATTGCATGTAACAGTAG
1 ATGTGTTAAAGCGTGTGATTGCGTGTAACAGTAT
*
163107 ATGCGTTAAAG
1 ATGTGTTAAAG
163118 TGCACGATTG
Statistics
Matches: 150, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
33 3 0.02
34 144 0.96
35 3 0.02
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.36
Consensus pattern (34 bp):
ATGTGTTAAAGCGTGTGATTGCGTGTAACAGTAT
Found at i:163127 original size:34 final size:34
Alignment explanation
Indices: 163056--163127 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
163046 AAAGTGTGTA
* * * * ***
163056 ATTGCGTGTAACATTATATGTGTTAAAGTGTGTG
1 ATTGCATGTAACAGTAGATGCGTTAAAGTGCACG
163090 ATTGCATGTAACAGTAGATGCGTTAAAGTGCACG
1 ATTGCATGTAACAGTAGATGCGTTAAAGTGCACG
163124 ATTG
1 ATTG
163128 TGTATAATGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (34 bp):
ATTGCATGTAACAGTAGATGCGTTAAAGTGCACG
Found at i:163140 original size:102 final size:102
Alignment explanation
Indices: 162907--163142 Score: 276
Period size: 102 Copynumber: 2.3 Consensus size: 102
162897 ATATGCATGT
* * * *
162907 GTTAAAGCGCGCGATTGGGTGTAACGGTATATGTGTTAAAGCGCGTGATTGCGTGTAACAGTATT
1 GTTAAAGCGCGCGATTGTGTGTAACGGTATATCTGTTAAAGCGCGTAATTGCGTGTAACAGTATA
* ** * *
162972 TGTGTTAAAGCGTGTGTTTGTGTGTAACATTATATGC
66 TGTGTTAAAGCGTGTGATTGCATGTAACAGTAGATGC
* * * * * *
163009 GTGAAAGCGTGTGATT-TGATGTAACGGTATATCTGTTAAAGTGTGTAATTGCGTGTAACATTAT
1 GTTAAAGCGCGCGATTGTG-TGTAACGGTATATCTGTTAAAGCGCGTAATTGCGTGTAACAGTAT
*
163073 ATGTGTTAAAGTGTGTGATTGCATGTAACAGTAGATGC
65 ATGTGTTAAAGCGTGTGATTGCATGTAACAGTAGATGC
* * * *
163111 GTTAAAGTGCACGATTGTGTATAATGGTATAT
1 GTTAAAGCGCGCGATTGTGTGTAACGGTATAT
163143 GTGATACAGT
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
101 1 0.01
102 106 0.97
103 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.36
Consensus pattern (102 bp):
GTTAAAGCGCGCGATTGTGTGTAACGGTATATCTGTTAAAGCGCGTAATTGCGTGTAACAGTATA
TGTGTTAAAGCGTGTGATTGCATGTAACAGTAGATGC
Found at i:163301 original size:34 final size:34
Alignment explanation
Indices: 163263--163365 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 34
163253 AAAGTTACTA
* *
163263 ATTGCGTGTAATGGAGTATGTGTTAAAGCGTGTG
1 ATTGCATGTAATGGAGTATGTGTTAAAGTGTGTG
* * * *
163297 ATTGCAAGT-ACGGTA-TATTTGTTAAAGTATGTG
1 ATTGCATGTAATGG-AGTATGTGTTAAAGTGTGTG
* * *
163330 ATTGAATGTAATGGAGTTTGTGTTAAAATGTGTG
1 ATTGCATGTAATGGAGTATGTGTTAAAGTGTGTG
163364 AT
1 AT
163366 CGTGTGTGAC
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
33 26 0.49
34 27 0.51
ACGTcount: A:0.28, C:0.04, G:0.29, T:0.39
Consensus pattern (34 bp):
ATTGCATGTAATGGAGTATGTGTTAAAGTGTGTG
Found at i:169207 original size:22 final size:22
Alignment explanation
Indices: 169165--169208 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
169155 TACATAAACA
* *
169165 TGAGTTTTCTCTTCACCTGATC
1 TGAGTTTTCTATTCACATGATC
*
169187 TGAGTTTTCTATTTACATGATC
1 TGAGTTTTCTATTCACATGATC
169209 AATATAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (22 bp):
TGAGTTTTCTATTCACATGATC
Found at i:174856 original size:15 final size:15
Alignment explanation
Indices: 174827--174877 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
174817 ATACATATTG
* *
174827 TATCATATGACACAA
1 TATCATATAATACAA
*
174842 TAAT-ATATATTACAA
1 T-ATCATATAATACAA
174857 TATCATATAATACAA
1 TATCATATAATACAA
*
174872 TTTCAT
1 TATCAT
174878 GTGATATNNN
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.07
15 25 0.86
16 2 0.07
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (15 bp):
TATCATATAATACAA
Found at i:176635 original size:19 final size:19
Alignment explanation
Indices: 176611--176652 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
176601 ATCAATCGGC
*
176611 ACCTGCAACAAAAACTTTA
1 ACCTGCAACAAAAACCTTA
**
176630 ACCTGCTCCAAAAACCTTA
1 ACCTGCAACAAAAACCTTA
176649 ACCT
1 ACCT
176653 CCTCCAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (19 bp):
ACCTGCAACAAAAACCTTA
Found at i:176657 original size:19 final size:19
Alignment explanation
Indices: 176619--176658 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
176609 GCACCTGCAA
* *
176619 CAAAAACTTTAACCTGCTC
1 CAAAAACCTTAACCTCCTC
176638 CAAAAACCTTAACCTCCTC
1 CAAAAACCTTAACCTCCTC
176657 CA
1 CA
176659 GCATCCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.23
Consensus pattern (19 bp):
CAAAAACCTTAACCTCCTC
Found at i:176910 original size:177 final size:176
Alignment explanation
Indices: 176548--176925 Score: 467
Period size: 177 Copynumber: 2.1 Consensus size: 176
176538 NNNNNNNNNN
* * * * * *
176548 ATCATCCATACAAGTTTGGTGAAGTTAGGACCAGTAGTAACTTAGATATTGCTATCAATCGGCAC
1 ATCATCCATGCAAGTTTGGTGAAGTAAGGACCAGCAGTAACTAAGATATTGATATCAAACGGCAC
*
176613 CTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCT
66 CTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCC
** * *
176678 CAGATTCAGCACTCAAGCCTGTTTTGTGCATCAGTATCATAAGACAC
131 CAGATTCAGCACTCAAGCCTGTTAAGTCCATAAGTATCA-AAGACAC
* * *
176725 ACCATCCATGCAAGTTCGGTGAAGTAAGGACCAGCAGTAACTAAGATATTGATATCAAAGGGCAC
1 ATCATCCATGCAAGTTTGGTGAAGTAAGGACCAGCAGTAACTAAGATATTGATATCAAACGGCAC
* * * **
176790 CTGCAACAAAAACTTTAACCTGGTCCAACAACCTTAACCTCCTCCAGCATCTGAAATTTAGTA-C
66 CTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTA-TAGC
* * **
176854 CCAGATTCAGCA-TCCAAGTCT-TTCAAGTCCATAAGTAGGTC-CAGATGC
130 CCAGATTCAGCACT-CAAGCCTGTT-AAGTCCATAAGTA--TCAAAGACAC
176902 ATCATCCATGCAAGTTTGGTGAAG
1 ATCATCCATGCAAGTTTGGTGAAG
176926 ATAGGACAAG
Statistics
Matches: 171, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
176 3 0.02
177 164 0.96
178 2 0.01
179 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (176 bp):
ATCATCCATGCAAGTTTGGTGAAGTAAGGACCAGCAGTAACTAAGATATTGATATCAAACGGCAC
CTGCAACAAAAACTTTAACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCC
CAGATTCAGCACTCAAGCCTGTTAAGTCCATAAGTATCAAAGACAC
Found at i:177000 original size:12 final size:12
Alignment explanation
Indices: 176991--177024 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
176981 CGGACGCCGA
176991 CGCCGACGCCAC
1 CGCCGACGCCAC
177003 CGCCGACGCCAC
1 CGCCGACGCCAC
*
177015 CGCTGACGCC
1 CGCCGACGCC
177025 GAGGGTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.56, G:0.26, T:0.03
Consensus pattern (12 bp):
CGCCGACGCCAC
Found at i:182262 original size:32 final size:34
Alignment explanation
Indices: 182211--182274 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
182201 TAAAACTAAT
*
182211 AAAGTATTTGAAATGTAATTAATTAC-ATTTATC
1 AAAGTAATTGAAATGTAATTAATTACAATTTATC
*
182244 AAAGTAATTGAGA-GTAATTAATTACAATTTA
1 AAAGTAATTGAAATGTAATTAATTACAATTTA
182275 AAAAATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (34 bp):
AAAGTAATTGAAATGTAATTAATTACAATTTATC
Found at i:182865 original size:27 final size:27
Alignment explanation
Indices: 182799--182865 Score: 73
Period size: 32 Copynumber: 2.3 Consensus size: 27
182789 GATTGCACTC
182799 AGTGACTCCATCACATCTACCTTGTTG
1 AGTGACTCCATCACATCTACCTTGTTG
182826 AGTGANGTAACTCCATCACATCCT-CCTTGTTG
1 AGT---G--ACTCCATCACAT-CTACCTTGTTG
182858 AGTGACTC
1 AGTGACTC
182866 AGTCATGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
27 7 0.21
29 1 0.03
30 1 0.03
32 23 0.68
33 2 0.06
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.31
Consensus pattern (27 bp):
AGTGACTCCATCACATCTACCTTGTTG
Found at i:193382 original size:21 final size:22
Alignment explanation
Indices: 193358--193409 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
193348 AAAATATGAT
193358 ATTCTAAATTCGAGA-TTCAAG
1 ATTCTAAATTCGAGATTTCAAG
* *
193379 ATTCCAAATTCGAGATTTCAAT
1 ATTCTAAATTCGAGATTTCAAG
193401 ATT-TAAATT
1 ATTCTAAATT
193410 AACTAATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (22 bp):
ATTCTAAATTCGAGATTTCAAG
Found at i:198910 original size:2 final size:2
Alignment explanation
Indices: 198903--198951 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
198893 TATTTATACA
198903 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
198945 TC TC TC T
1 TC TC TC T
198952 GACACAGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:203216 original size:27 final size:27
Alignment explanation
Indices: 203186--203244 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
203176 TATTATAGAG
*
203186 AATAGTCTTTATTTTTCAAACAAAATT
1 AATAATCTTTATTTTTCAAACAAAATT
203213 AATAATCTTTATTTTTCAAACAAAATT
1 AATAATCTTTATTTTTCAAACAAAATT
203240 AATAA
1 AATAA
203245 ACAGAAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (27 bp):
AATAATCTTTATTTTTCAAACAAAATT
Found at i:207105 original size:16 final size:16
Alignment explanation
Indices: 207084--207114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
207074 CGGAAATTAC
*
207084 TTCGTTATATCCGTAA
1 TTCGTTATAACCGTAA
207100 TTCGTTATAACCGTA
1 TTCGTTATAACCGTA
207115 TTAGAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (16 bp):
TTCGTTATAACCGTAA
Found at i:207124 original size:93 final size:93
Alignment explanation
Indices: 206941--207115 Score: 257
Period size: 93 Copynumber: 1.9 Consensus size: 93
206931 ATATATATAA
* * *
206941 AATACAGTAAAACTCGGTTATAGCGAAGTCCTAGGGACCAGTGGATCTACTTCGTTATATCCATA
1 AATACAGCAAAACTCGGTTATAACGAAGTCCTAGGGACCAGTGAATCTACTTCGTTATATCCATA
*
207006 ATTCGTTATATCCGTATCACGAATTCGT
66 ATTCGTTATAACCGTATCACGAATTCGT
207034 AATACAGCAAAACTCGGTTATAACGAAGTCACT-GGGACCACG-GAAAT-TACTTCGTTATATCC
1 AATACAGCAAAACTCGGTTATAACGAAGTC-CTAGGGACCA-GTG-AATCTACTTCGTTATATCC
*
207096 GTAATTCGTTATAACCGTAT
63 ATAATTCGTTATAACCGTAT
207116 TAGAAATTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
93 69 0.93
94 5 0.07
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (93 bp):
AATACAGCAAAACTCGGTTATAACGAAGTCCTAGGGACCAGTGAATCTACTTCGTTATATCCATA
ATTCGTTATAACCGTATCACGAATTCGT
Found at i:212350 original size:2 final size:2
Alignment explanation
Indices: 212345--212371 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
212335 ATATATATAT
212345 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
212372 TCGATCGCAA
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:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:212377 original size:4 final size:4
Alignment explanation
Indices: 212370--212418 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
212360 GAGAGAGAGA
* *
212370 GATC GATC GCAATC GATC GATT GAATC GATC GATT GATC GATC GATC GA
1 GATC GATC G--ATC GATC GATC G-ATC GATC GATC GATC GATC GATC GA
212419 CAGGCAGTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 31 0.82
5 3 0.08
6 4 0.11
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (4 bp):
GATC
Found at i:212398 original size:13 final size:13
Alignment explanation
Indices: 212370--212415 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
212360 GAGAGAGAGA
*
212370 GATCGATCGCAATC
1 GATCGATTG-AATC
212384 GATCGATTGAATC
1 GATCGATTGAATC
212397 GATCGATTG-ATC
1 GATCGATTGAATC
212409 GATCGAT
1 GATCGAT
212416 CGACAGGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 10 0.32
13 13 0.42
14 8 0.26
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (13 bp):
GATCGATTGAATC
Found at i:213714 original size:13 final size:13
Alignment explanation
Indices: 213696--213720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
213686 TGTAGGAAAC
213696 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
213709 TCTTTTTTTTTT
1 TCTTTTTTTTTT
213721 GTTAGAATAT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:218845 original size:188 final size:187
Alignment explanation
Indices: 218528--218903 Score: 725
Period size: 188 Copynumber: 2.0 Consensus size: 187
218518 GATTTTCGTA
*
218528 AAAATTTCAGATCTTGTAGATATTGATTAAAACCTTATATAGAATTTTTTATTTTAATGACGTCA
1 AAAATTTCAGATCTTGTAGATATTGATAAAAACCTTATATAGAATTTTTTATTTTAATGACGTCA
218593 TTTCCGTTCGGGAGATATTGACGTTTTAGTGAGTTTTAGAGGGTCATTTTGTCCTGCTATCTCCT
66 TTTCCGTTCGGGAGATATTGACGTTTTAGTGAGTTTTAGAGGGTCATTTTGTCCTGCTATCTCCT
218658 CCTAAACGAAAAAAGATATTGAATTCAAATTTTCAGGGATTGTAGACAAAAGATTGT
131 CCTAAACGAAAAAAGATATTGAATTCAAATTTTCAGGGATTGTAGACAAAAGATTGT
*
218715 NAAAATTTCAGATCTTGTAGATATTGATAAAAACCTTATATATAATTTTTTATTTTAATGACGTC
1 -AAAATTTCAGATCTTGTAGATATTGATAAAAACCTTATATAGAATTTTTTATTTTAATGACGTC
218780 ATTTCCGTTCGGGAGATATTGACGTTTTAGTGAGTTTTAGAGGGTCATTTTGTCCTGCTATCTCC
65 ATTTCCGTTCGGGAGATATTGACGTTTTAGTGAGTTTTAGAGGGTCATTTTGTCCTGCTATCTCC
218845 TCCTAAACGAAAAAAGATATTGAATTCAAATTTTCAGGGATTGTAGACAAAAGATTGT
130 TCCTAAACGAAAAAAGATATTGAATTCAAATTTTCAGGGATTGTAGACAAAAGATTGT
218903 A
1 A
218904 GATGTGTTTA
Statistics
Matches: 186, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
187 1 0.01
188 185 0.99
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (187 bp):
AAAATTTCAGATCTTGTAGATATTGATAAAAACCTTATATAGAATTTTTTATTTTAATGACGTCA
TTTCCGTTCGGGAGATATTGACGTTTTAGTGAGTTTTAGAGGGTCATTTTGTCCTGCTATCTCCT
CCTAAACGAAAAAAGATATTGAATTCAAATTTTCAGGGATTGTAGACAAAAGATTGT
Found at i:220062 original size:437 final size:438
Alignment explanation
Indices: 219074--220072 Score: 1716
Period size: 438 Copynumber: 2.3 Consensus size: 438
219064 TTATATTTAC
* * *
219074 AAGAGCTTTCGTTTGATAACAAGAAAAAGGGGCTGGTCCC-TCAATTTAGGGGCCAAATGGGCTC
1 AAGAACTTTCGTATGATACCAAGAAAAAGGGGCTGG-CCCTTCAATTTAGGGGCCAAATGGGCTC
* *
219138 TAAAGTCTTTCTTCCATAGCCCTTTACTGAGAAATATTTTGTAATATGTTAAAGAAGCAAAAATG
65 TAAAGTCTTTCTTCCATAGCACTTTACTGAGAAATATTTTGTAATATGTTTAAGAAGCAAAAATG
* * * *
219203 TTTATCTTTCATTAAAAAAACTATACATTATAAACTTTTTATTCTGCGTTACGTAATTAGGGGTT
130 TTCATCTTTCACTAAAAAAACTATACATTATAAAATTTGTATTCTGCGTTACGTAATTAGGGGTT
*
219268 TTAAGGTGCCAGAAGTCCAAAACTTCGATCGAATATATCTCAAAAAGGACAAATATTTTGAAAAG
195 TTAAGGGGCCAGAAGTCCAAAACTTCGATCGAATATATCTCAAAAAGGACAAATATTTTGAAAAG
*
219333 CAATATAGAATAAAAGATGCTTAGAATGATGTTTTAAACAATATTCAATCATAAAATGTTTCGTT
260 CAATATAGAATAAAAGATGCTTAGAATGATGTTTGAAACAATATTCAATCATAAAATGTTTCGTT
*
219398 ATCTGGCCCCATTAAGGAGATTAGGGGTCGGCCCCTAAAACGTCCTATCCCAGATAGCTCAAAAA
325 ATCTGGCCCCAATAAGGAGATTAGGGGTCGGCCCCTAAAACGTCCTATCCCAGATAGCTCAAAAA
219463 CGGCAAAGAATTTCTAAACACTTGTTGAACAAAATATGTTTAATATCAA
390 CGGCAAAGAATTTCTAAACACTTGTTGAACAAAATATGTTTAATATCAA
* *
219512 AAGAACTTTCGTATGATACCAAGAACAAGGGGCTAGCCCTTCAATTTAGGGGCCAAATGGGCTCT
1 AAGAACTTTCGTATGATACCAAGAAAAAGGGGCTGGCCCTTCAATTTAGGGGCCAAATGGGCTCT
*
219577 AAAGTCTTTCTTCCATAGCACTTTACTGAGAAATGTTTTGTAATATGTTTAAGAAGCAAAAATGT
66 AAAGTCTTTCTTCCATAGCACTTTACTGAGAAATATTTTGTAATATGTTTAAGAAGCAAAAATGT
*
219642 TCATCTTTCACTAATAAAACTATACATTATAAAATTTGTA-TCATGCGTTACGTAATTAGGGGTT
131 TCATCTTTCACTAAAAAAACTATACATTATAAAATTTGTATTC-TGCGTTACGTAATTAGGGGTT
*
219706 TTAAGGGGCCAGAAGTCCAAAACTTCGATTGAATATATCTCAAAAAGGACAAATATTTTGAAAAG
195 TTAAGGGGCCAGAAGTCCAAAACTTCGATCGAATATATCTCAAAAAGGACAAATATTTTGAAAAG
*
219771 CAATATAGAATAAAAGATGTTTAGAATGATGTTTGAAACAATATTCAATCATAAAA-GTTTCGTT
260 CAATATAGAATAAAAGATGCTTAGAATGATGTTTGAAACAATATTCAATCATAAAATGTTTCGTT
219835 ATCTGGCCCCAATAAGGAGATTAGGGGTCGGCCCCTAAAACGTCCTATCCCAGATAGCTCAAAAA
325 ATCTGGCCCCAATAAGGAGATTAGGGGTCGGCCCCTAAAACGTCCTATCCCAGATAGCTCAAAAA
219900 CGGCAAAGAATTTCTAAACACTTGTTGAACAAAATATGTTTAATATCAA
390 CGGCAAAGAATTTCTAAACACTTGTTGAACAAAATATGTTTAATATCAA
* ** * *
219949 AAGAACTTTCGTATGATGCGTAGAAAAAGGGGCTGGCCCTTCAATTTAGGGACCAAAAGGGCTCT
1 AAGAACTTTCGTATGATACCAAGAAAAAGGGGCTGGCCCTTCAATTTAGGGGCCAAATGGGCTCT
* * * *
220014 AAAGTCTTTCTTCCATAGCTCTTTACTGAAAAATATTTTGTTATATGTTTAGGAAGCAA
66 AAAGTCTTTCTTCCATAGCACTTTACTGAGAAATATTTTGTAATATGTTTAAGAAGCAA
220073 TATATTCATC
Statistics
Matches: 529, Mismatches: 30, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
437 238 0.45
438 291 0.55
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (438 bp):
AAGAACTTTCGTATGATACCAAGAAAAAGGGGCTGGCCCTTCAATTTAGGGGCCAAATGGGCTCT
AAAGTCTTTCTTCCATAGCACTTTACTGAGAAATATTTTGTAATATGTTTAAGAAGCAAAAATGT
TCATCTTTCACTAAAAAAACTATACATTATAAAATTTGTATTCTGCGTTACGTAATTAGGGGTTT
TAAGGGGCCAGAAGTCCAAAACTTCGATCGAATATATCTCAAAAAGGACAAATATTTTGAAAAGC
AATATAGAATAAAAGATGCTTAGAATGATGTTTGAAACAATATTCAATCATAAAATGTTTCGTTA
TCTGGCCCCAATAAGGAGATTAGGGGTCGGCCCCTAAAACGTCCTATCCCAGATAGCTCAAAAAC
GGCAAAGAATTTCTAAACACTTGTTGAACAAAATATGTTTAATATCAA
Found at i:222136 original size:2 final size:2
Alignment explanation
Indices: 222129--222174 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
222119 TTATGAGCTA
222129 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
222171 AG AG
1 AG AG
222175 CAAAAGTTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:225214 original size:3 final size:3
Alignment explanation
Indices: 225206--225235 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
225196 TCGAATCTAG
*
225206 TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
225236 ATCCAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:226073 original size:439 final size:440
Alignment explanation
Indices: 225255--226231 Score: 1645
Period size: 439 Copynumber: 2.2 Consensus size: 440
225245 TGTCCAAGCC
* * *
225255 GTAACTTAAATACCCTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTAAGAAG
1 GTAACTTAGATACCTTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTGAGAAG
* * * *
225320 GAGTGCACGCCACCAAAATTTTTGACCTTGACCTATTTTCCTTTTCAAGGTCAAGCGTTTTATAA
66 GAGTGCACGCCATCAAAATTTTTGACCTTGACCTATTATCATTTTCAAGGTCAAGCGTTATATAA
** * * *
225385 AAAATAGAGTTTGGACTATAACACAAGATTCCTTAAACATACAAACTTTTAACTTGTATCATAGA
131 AAAATAGAGTCCGGACCATAACACAAGACTCCTTAAACATACAAACTTTTAACTTGTATCATACA
*
225450 TAGATGGTATATAGTCCAGTTCAACCTTACCAAAATTTTTGACCTTGACCTTAAAATTTTATTTC
196 TAGATGGTATATAGTCCAGTTCAACCTTACCAAAATTTTTGACCTTGACCTAAAAATTTTATTTC
225515 AAGGTCAAATCAGAAAAAACTTCATTGTTCACCTCCTAAATATTCTTTGACAGAAGGACTTCAAA
261 AAGGTCAAATCAGAAAAAACTTCATTGTTCACCTCCTAAATATTCTTTGACAGAAGGACTTCAAA
225580 CTTTACACAAAGAACAATTATAATACACTGAGGTGTACTATTGATAAATATTTGACCTTGACCTT
326 CTTTACACAAAGAACAATTATAATACACTGAGGTGTACTATTGATAAATATTTGACCTTGACCTT
* * *
225645 GTTTTACTCAATGTCAACTTGAG-AAAAATAATTAAGTTTTGTCTGGGTG
391 GTTTTACTCAATGTCAAATTAAGAAAAAATAATTAAATTTTGTCTGGGTG
* *
225694 GTAACTTAGATACCTTTTGACATTAAGACTTCAAACTTAGAACGTAGGTAGATGGTATTGAGAAG
1 GTAACTTAGATACCTTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTGAGAAG
*
225759 AAGTGCACGCCATCAAAATTTTTGACCTTGACCTATTAT-ATTCTTCAAGGTCAAGCGTTATATA
66 GAGTGCACGCCATCAAAATTTTTGACCTTGACCTATTATCATT-TTCAAGGTCAAGCGTTATATA
* * * *
225823 AAAACTATAGTCCGGACCATAACACAAGACTCCTTAATCATACAATCTTTTAACTTGTATCATAC
130 AAAAATAGAGTCCGGACCATAACACAAGACTCCTTAAACATACAAACTTTTAACTTGTATCATAC
225888 ATAGATGGTATATAGTCCAGTTCAACCTTACCAAAATTTTTGACCTTGACCTAAAAATTTTATTT
195 ATAGATGGTATATAGTCCAGTTCAACCTTACCAAAATTTTTGACCTTGACCTAAAAATTTTATTT
*
225953 CAAGGTCAAATTAGAAAAAACTTCATTGTTCACCTCCTAAATATTCTTTGACAGAAGGACTTCAA
260 CAAGGTCAAATCAGAAAAAACTTCATTGTTCACCTCCTAAATATTCTTTGACAGAAGGACTTCAA
* *
226018 ACTTTACACAAAGAACGATTATAATACACTGAGGTGTACTATTGATTAATATTTGACCTTGACCT
325 ACTTTACACAAAGAACAATTATAATACACTGAGGTGTACTATTGATAAATATTTGACCTTGACCT
226083 TGTTTTACTCAATGTCAAATTAAGAAAAAATAATTAAATTTTGTCTGGGTG
390 TGTTTTACTCAATGTCAAATTAAGAAAAAATAATTAAATTTTGTCTGGGTG
* * *
226134 GTAACTTGGATACCTATTGACATTAAGGCTTCAAACTTGGAACATAGGTAGATGGTATTGAGAAG
1 GTAACTTAGATACCTTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTGAGAAG
*
226199 GAGTGCACGCC-TCCATAATTTTTGACCTTGACC
66 GAGTGCACGCCAT-CAAAATTTTTGACCTTGACC
226232 AATCTTGTGT
Statistics
Matches: 502, Mismatches: 33, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
438 2 0.00
439 386 0.77
440 114 0.23
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (440 bp):
GTAACTTAGATACCTTTTGACATTAAGACTTCAAACTTGGAACATAGGTAGATGGTATTGAGAAG
GAGTGCACGCCATCAAAATTTTTGACCTTGACCTATTATCATTTTCAAGGTCAAGCGTTATATAA
AAAATAGAGTCCGGACCATAACACAAGACTCCTTAAACATACAAACTTTTAACTTGTATCATACA
TAGATGGTATATAGTCCAGTTCAACCTTACCAAAATTTTTGACCTTGACCTAAAAATTTTATTTC
AAGGTCAAATCAGAAAAAACTTCATTGTTCACCTCCTAAATATTCTTTGACAGAAGGACTTCAAA
CTTTACACAAAGAACAATTATAATACACTGAGGTGTACTATTGATAAATATTTGACCTTGACCTT
GTTTTACTCAATGTCAAATTAAGAAAAAATAATTAAATTTTGTCTGGGTG
Found at i:227681 original size:18 final size:18
Alignment explanation
Indices: 227658--227757 Score: 121
Period size: 18 Copynumber: 5.6 Consensus size: 18
227648 TTTTAAGCAC
*
227658 AGTCTCGATACACAAAAG
1 AGTCTCTATACACAAAAG
* *
227676 AGTCTCTTTACACAAAAA
1 AGTCTCTATACACAAAAG
227694 AGTCTCTATACACAAAAG
1 AGTCTCTATACACAAAAG
* *
227712 AGTCTCTTTACACAAAAC
1 AGTCTCTATACACAAAAG
*
227730 AGTCTCTTTACACAGAAA-
1 AGTCTCTATACACA-AAAG
*
227748 AGTCTGTATA
1 AGTCTCTATA
227758 GACTTCAGCG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
18 69 0.96
19 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (18 bp):
AGTCTCTATACACAAAAG
Found at i:227705 original size:36 final size:36
Alignment explanation
Indices: 227658--227752 Score: 147
Period size: 36 Copynumber: 2.6 Consensus size: 36
227648 TTTTAAGCAC
*
227658 AGTCTCGATACACAAAAGAGTCTCTTTACACAAAAA
1 AGTCTCTATACACAAAAGAGTCTCTTTACACAAAAA
*
227694 AGTCTCTATACACAAAAGAGTCTCTTTACACAAAAC
1 AGTCTCTATACACAAAAGAGTCTCTTTACACAAAAA
*
227730 AGTCTCTTTACACAGAAA-AGTCT
1 AGTCTCTATACACA-AAAGAGTCT
227753 GTATAGACTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 52 0.95
37 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (36 bp):
AGTCTCTATACACAAAAGAGTCTCTTTACACAAAAA
Found at i:228886 original size:16 final size:16
Alignment explanation
Indices: 228867--228915 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
228857 GAGGCGTGTC
228867 AATTTCAAAAATACAA
1 AATTTCAAAAATACAA
*
228883 AATTTC-AAAGT-C--
1 AATTTCAAAAATACAA
228895 AATTTCAAAAATACAA
1 AATTTCAAAAATACAA
228911 AATTT
1 AATTT
228916 TCAACATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
14 2 0.07
15 4 0.15
16 11 0.41
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (16 bp):
AATTTCAAAAATACAA
Found at i:237963 original size:13 final size:13
Alignment explanation
Indices: 237945--237969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237935 ACTTTTGAAG
237945 GTTTTACATACAT
1 GTTTTACATACAT
237958 GTTTTACATACA
1 GTTTTACATACA
237970 CTGCATGATA
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
GTTTTACATACAT
Found at i:240051 original size:104 final size:104
Alignment explanation
Indices: 239868--240080 Score: 417
Period size: 104 Copynumber: 2.0 Consensus size: 104
239858 TTTTAATTAT
239868 ATATGCTTGTGAAACATTACGCGTGTCGCATTTTTTACAACTCTGCACCAAAAATGGTTAATTTT
1 ATATGCTTGTGAAACATTACGCGTGTCGCATTTTTTACAACTCTGCACCAAAAATGGTTAATTTT
*
239933 GATAATATTTAACCATCGAAATAAAATTATTTCTGAGAA
66 GATAATATTAAACCATCGAAATAAAATTATTTCTGAGAA
239972 ATATGCTTGTGAAACATTACGCGTGTCGCATTTTTTACAACTCTGCACCAAAAATGGTTAATTTT
1 ATATGCTTGTGAAACATTACGCGTGTCGCATTTTTTACAACTCTGCACCAAAAATGGTTAATTTT
240037 GATAATATTAAACCATCGAAATAAAATTATTTCTGAGAA
66 GATAATATTAAACCATCGAAATAAAATTATTTCTGAGAA
240076 ATATG
1 ATATG
240081 ACGTTGTAAA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 108 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (104 bp):
ATATGCTTGTGAAACATTACGCGTGTCGCATTTTTTACAACTCTGCACCAAAAATGGTTAATTTT
GATAATATTAAACCATCGAAATAAAATTATTTCTGAGAA
Found at i:242792 original size:30 final size:30
Alignment explanation
Indices: 242756--242814 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
242746 AATTCCAGCA
*
242756 ACATGATGCAACAACCCGGGTATTCAAGCC
1 ACATGATGCAACAACCCGGGTATCCAAGCC
* *
242786 ACATGATGCAGCAACCTGGGTATCCAAGC
1 ACATGATGCAACAACCCGGGTATCCAAGC
242815 ACCCTATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (30 bp):
ACATGATGCAACAACCCGGGTATCCAAGCC
Found at i:243789 original size:17 final size:17
Alignment explanation
Indices: 243767--243819 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
243757 ATCAACGTTT
*
243767 TTTTCCTTATTGTGACA
1 TTTTCCTTATTATGACA
** *
243784 TTTTCCCGATTTTGACA
1 TTTTCCTTATTATGACA
*
243801 TTTACCTTGATTATGACA
1 TTTTCCTT-ATTATGACA
243819 T
1 T
243820 GCCTAATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTTCCTTATTATGACA
Found at i:255787 original size:150 final size:151
Alignment explanation
Indices: 255558--255839 Score: 417
Period size: 150 Copynumber: 1.9 Consensus size: 151
255548 TGATTATAAA
* *
255558 TTTCTAATAACGGTACGTAATTTTATTATTCCATTTGATAAAATCAGATCTTCTGTAACATTCAA
1 TTTCTAATAACGGCACGTAATTTTATTATTCCATTTGATAAAATCAGATCTTCTGAAACATTCAA
* *
255623 CATGGTAAGATAATTATCTCATAATTCAGTAACTT-TTTTTGTTATCAATATTCTTCCAAAAAAA
66 CATGGTAAGATAATTATCTCATAATGCAGTAA-TTCTTTTTGCTATCAATATTCTTCCAAAAAAA
255687 ATATTAACTTGATTATAAATTG
130 ATATTAACTTGATTATAAATTG
* *
255709 TTTCTAATAACGGCACGTGA-TTTATTATTCCGTTTGATAAAATCAGATCTAT-TGAAACATTCA
1 TTTCTAATAACGGCACGTAATTTTATTATTCCATTTGATAAAATCAGATCT-TCTGAAACATTCA
* * * * * *
255772 ACATGTTAAGGTAATTATCTCATAATGCATTAATTCTTTTTGCTATCAATCTTTTTCCGAAAAAA
65 ACATGGTAAGATAATTATCTCATAATGCAGTAATTCTTTTTGCTATCAATATTCTTCCAAAAAAA
255837 ATA
130 ATA
255840 ATAATAACCT
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
149 2 0.02
150 96 0.82
151 19 0.16
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (151 bp):
TTTCTAATAACGGCACGTAATTTTATTATTCCATTTGATAAAATCAGATCTTCTGAAACATTCAA
CATGGTAAGATAATTATCTCATAATGCAGTAATTCTTTTTGCTATCAATATTCTTCCAAAAAAAA
TATTAACTTGATTATAAATTG
Found at i:257301 original size:179 final size:178
Alignment explanation
Indices: 257002--257335 Score: 580
Period size: 179 Copynumber: 1.9 Consensus size: 178
256992 GACATAATGA
* * *
257002 ACACGGCCAGTAAGAGGCTTAGCTAGCCTGCGAAAATGCGATATTTCGTATAATACAATTATAAT
1 ACACGGCCAGTAACAGGCCTAGCTAGCCTGCGAAAATGCGAAATTTCGTATAATACAATTATAAT
257067 GGGATATCTTTCGAGGGACTGGCTAACACCCTGTATCCCATATTTGGGCCTTCATATTTGGTGGG
66 GGGATATCTTTCGAGGGACTGGCTAACACCCTGTATCCCATATTTGGGCCTTCATATTTGGTGGG
*
257132 GATGGGGCCCCGGGGAAGCCTAGTCGACCCTCAAAAGGAATTGGGTTT
131 GATGGGGCCCCGGGGAAGCCCAGTCGACCCTCAAAAGGAATTGGGTTT
* *
257180 ACACGGCGATTAACAGGCCTAGCTAGCCTGGCGAAAATTG-GAAATTTCGTATAATACAATTATA
1 ACACGGCCAGTAACAGGCCTAGCTAGCCT-GCGAAAA-TGCGAAATTTCGTATAATACAATTATA
*
257244 ATGGGATATCTTTCGAGGGGCTGGCTAACACCCTGTATCCCATATTTGGGCCTTCATATTTGGTG
64 ATGGGATATCTTTCGAGGGACTGGCTAACACCCTGTATCCCATATTTGGGCCTTCATATTTGGTG
257309 GGGATGGGGCCCCGGGGAAGCCCAGTC
129 GGGATGGGGCCCCGGGGAAGCCCAGTC
257336 TCTTGTGTTT
Statistics
Matches: 147, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
178 25 0.17
179 120 0.82
180 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (178 bp):
ACACGGCCAGTAACAGGCCTAGCTAGCCTGCGAAAATGCGAAATTTCGTATAATACAATTATAAT
GGGATATCTTTCGAGGGACTGGCTAACACCCTGTATCCCATATTTGGGCCTTCATATTTGGTGGG
GATGGGGCCCCGGGGAAGCCCAGTCGACCCTCAAAAGGAATTGGGTTT
Found at i:262769 original size:179 final size:178
Alignment explanation
Indices: 262421--263193 Score: 1138
Period size: 179 Copynumber: 4.3 Consensus size: 178
262411 NNNNNNNNNN
262421 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAA-TCCT
1 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAATTCC-
* * *
262485 TTTGCTTTTGAGAGTCGACTGGGCTGT-CACGGGGACCCATCCTCACCAAATATGAATGTCCAAA
65 TTT-C----GAGAGTCGACTGGGCTGTAC-CGGGGCCCCATCCTCACCAAAAATGAAGGTCCAAA
*
262549 TATGGGATACAGGGTGTTAGCGATCCCCTTGAAAGAAATCCCGATATAACTGTATC
124 TATGGGATACAGGGTGTTAGCGAGCCCCTTGAAAGAAATCCC-ATATAACTGTATC
262605 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAATTCCT
1 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAATTCCT
* *
262670 TTCGAGATTCGACTGGGCTGTACCGGGGCCCCATCCTCACCAAAAATGAAGGTCCAAATATGTGA
66 TTCGAGAGTCGACTGGGCTGTACCGGGGCCCCATCCTCACCAAAAATGAAGGTCCAAATATGGGA
* * * * *
262735 TACAGGGTGTTAGCGAGCCCTTTGAAAAAAATCCCGGTATAACTATATT
131 TACAGGGTGTTAGCGAGCCCCTTGAAAGAAATCCC-ATATAACTGTATC
* *
262784 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTTAGCCTCTTACTGGCTGTGTAAACCCAATTTCT
1 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAATTCCT
* * * *
262849 TTTGAGAGTCGACTGGGCTGTCCCGGGGCCCCATCCTCACCAAATATGAAAGTCCAAATATGGGA
66 TTCGAGAGTCGACTGGGCTGTACCGGGGCCCCATCCTCACCAAAAATGAAGGTCCAAATATGGGA
* * *
262914 TACAGGGTGTTAGCGAGCCCTTTGAAGGAAATCCCATAATAACTGTATT
131 TACAGGGTGTTAGCGAGCCCCTTGAAAGAAATCCCAT-ATAACTGTATC
* *
262963 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTAACTGGCTGTGTAAACCCAATTTCT
1 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAATTCCT
* * * *
263028 TTTGAGGGTCGACTGGGCTGTACCGGGGCCCCATCCGCA-TAAAATATGAAGGTCCAAATATGGG
66 TTCGAGAGTCGACTGGGCTGTACCGGGGCCCCATCCTCACCAAAA-ATGAAGGTCCAAATATGGG
263092 ATACAGGGTGTTAGCGAGCCCCTTGAAAGAAATCCCATTATAACTGTATC
130 ATACAGGGTGTTAGCGAGCCCCTTGAAAGAAATCCCA-TATAACTGTATC
* * * * *
263142 ATACGAAATGTCGTATTTTCACCAGGCTAGCTTAGCCTCTTACCGGCCGTGT
1 ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGT
263194 TCATTATGTC
Statistics
Matches: 544, Mismatches: 40, Indels: 15
0.91 0.07 0.03
Matches are distributed among these distances:
178 4 0.01
179 471 0.87
180 2 0.00
183 1 0.00
184 63 0.12
185 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (178 bp):
ATACGAAATGTCGCATTTTCGCCAGGCTAGCTAAGCCTCTTACTGGCTGTGTAAACCCAATTCCT
TTCGAGAGTCGACTGGGCTGTACCGGGGCCCCATCCTCACCAAAAATGAAGGTCCAAATATGGGA
TACAGGGTGTTAGCGAGCCCCTTGAAAGAAATCCCATATAACTGTATC
Found at i:264353 original size:15 final size:15
Alignment explanation
Indices: 264335--264363 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
264325 ACAAAAAGAC
264335 TAATTAGTTATATAT
1 TAATTAGTTATATAT
264350 TAATTAGTTATATA
1 TAATTAGTTATATA
264364 ATAAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TAATTAGTTATATAT
Found at i:265691 original size:4 final size:4
Alignment explanation
Indices: 265682--265713 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
265672 TCGAACAAGA
265682 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
265714 GCTGTGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:268490 original size:22 final size:22
Alignment explanation
Indices: 268441--268495 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
268431 TGTGATCGTC
** * *
268441 TCGGGATCGAAATTTGTTGTGA
1 TCGGGATCGAAATTCATCGTAA
*
268463 TTGGGATCGAAATTCATCGTAA
1 TCGGGATCGAAATTCATCGTAA
268485 TCGGGATCGAA
1 TCGGGATCGAA
268496 TTTAACAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (22 bp):
TCGGGATCGAAATTCATCGTAA
Found at i:270956 original size:45 final size:45
Alignment explanation
Indices: 270893--271974 Score: 1522
Period size: 45 Copynumber: 24.1 Consensus size: 45
270883 AAAGCTTCCA
*
270893 TGTA-TGCTCAATGTC-AGGCCTTGTATTGCTGAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
*
270937 TGTATTGCTCTATGTC-AGGCCTTGTATTGCTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
270982 TGTATTGCTCAATGTC-AGGCCTTGTATTGCTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
* *
271027 TGTATTGCTCAGTGTC-AGGCCTTGTATTGCTCAATGTCAAGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
** * **
271071 TGTATTGCTCTTTGTC-AGGCTTTGTATCACTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
*
271116 TGTATTGCTCAGTGTC-AGGCCTTGTATTGCTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
**
271161 TGTATTGCTTTATGTC-AGGCCTTGTATTGCTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
* **
271206 TGTATTGCTCAATGTCAATGCCTTGTATTGCTCTTTGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
** *
271251 TGTATCACTCAATGTCAAGGCCTTGTATTGCTCAGTGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
*
271296 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCTATGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
**
271341 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCTTTGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
** *
271386 TGTATCACTCAATGTCAAGGCCTTGTATTGCTCAGTGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
* *
271431 TGTATTGCTGAATGTCAAGGCCTTGTATTGCTCTATGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
*
271476 TGTATTGCTCAATGTC-AGGCCTTGTATTGCTCAATGTTAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATG-TCAGGCCT
* **
271521 TGTATTGCTGAATGTCAAGGCCTTGTATTGCTCTTTGGT-AGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAAT-GTCAGGCCT
** *
271566 TGTATCACTCAATGTCAAGGCCTTGTATTGCTCAGTGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
* *
271611 TGTAATGCTCAATGTCAAGGCCTTGTATTGCTCTATGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
*
271656 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCTATGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
*
271701 TGTATTGCTCAATGTCAAGGCCTTGTATTACTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
** *
271747 TGTATTGCTCTTTGTC-AGGCCTTGTATTGCTCAGTGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
* * *
271791 TGTATTGCTCAATGTCAAAGCCTTGTAATACTCAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
**
271837 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGTTT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
* *
271882 TGTATTGCTTAATGTCAAGGCCTTGTATTGCTCTATGTCAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
* ** *
271927 TGTATTGCTCATTGTC-AGGCCTTGTATTTTTTAATGTCAAGGCCT
1 TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTC-AGGCCT
271972 TGT
1 TGT
271975 CATTTCAAGA
Statistics
Matches: 940, Mismatches: 87, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
44 101 0.11
45 739 0.79
46 99 0.11
47 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (45 bp):
TGTATTGCTCAATGTCAAGGCCTTGTATTGCTCAATGTCAGGCCT
Found at i:286874 original size:2 final size:2
Alignment explanation
Indices: 286867--286922 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
286857 TGATCCCTCC
286867 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
286909 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
286923 GTGTGTGTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:287050 original size:18 final size:19
Alignment explanation
Indices: 287022--287058 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
287012 GGTACTGAGT
*
287022 TATAGTTTATATGTTATAG
1 TATAGTTTATATATTATAG
287041 TATA-TTTATATATTATAG
1 TATAGTTTATATATTATAG
287059 ATGGTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TATAGTTTATATATTATAG
Found at i:287977 original size:33 final size:33
Alignment explanation
Indices: 287935--288005 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
287925 CTACGATATG
* *
287935 TTATACAAGCAGTAATCGTATGTGAGCATATCT
1 TTATACAAGCAGTAATCGTACGTGAGCAGATCT
*
287968 TTATACAAGCAGTGATCGTACGTGAGCAGATCT
1 TTATACAAGCAGTAATCGTACGTGAGCAGATCT
*
288001 ATATA
1 TTATA
288006 AGATCTCAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (33 bp):
TTATACAAGCAGTAATCGTACGTGAGCAGATCT
Found at i:294439 original size:1 final size:1
Alignment explanation
Indices: 294433--294457 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
294423 ACAATACCGA
294433 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
294458 GGGGGNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:296935 original size:22 final size:22
Alignment explanation
Indices: 296905--296987 Score: 130
Period size: 22 Copynumber: 3.8 Consensus size: 22
296895 AAGCCAGGTT
* * *
296905 TTATCTGGCGGCCGCCGGATAA
1 TTATGTGGCGGCCGCCAGAAAA
*
296927 TTATGTGGCGGCCGCCTGAAAA
1 TTATGTGGCGGCCGCCAGAAAA
296949 TTATGTGGCGGCCGCCAGAAAA
1 TTATGTGGCGGCCGCCAGAAAA
296971 TTATGTGGCGGCCGCCA
1 TTATGTGGCGGCCGCCA
296988 AATAAAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (22 bp):
TTATGTGGCGGCCGCCAGAAAA
Found at i:299977 original size:315 final size:314
Alignment explanation
Indices: 299405--300033 Score: 1249
Period size: 315 Copynumber: 2.0 Consensus size: 314
299395 TTAGCGAACC
299405 AGGTACTGATTGTAGAGTTATTCAGTTCCTTCCCAAACTAAAGGCGTGATCAGATGACATACACA
1 AGGTACTGATTGTAGAGTTATTCAGTTCCTTCCCAAACTAAAGGCGTGATCAGATGACATACACA
299470 GCCAATCCCAGAGTAATGAAATGGCTGTGTCTTCTTGGACTGGATTTTGGCACTTCTTATAGGGA
66 GCCAATCCCAGAGTAATGAAATGGCTGTGTCTTCTTGGACTGGATTTTGGCACTTCTTATAGGGA
299535 CCTGCAGACAGATGATATATCTTGTAACGATGACTTGTCAGATTGTAAATTCATTCAAATTGCGA
131 CCTGCAGACAGATGATATATCTTGTAACGATGACTTGTCAGATTGTAAATTCATTCAAATTGCGA
299600 GATAGGAAAGAGGTGTGAACCAGTGAAGTATGAAAAAATTACTGCTAAGGTTTCATTTTCACCCA
196 GATAGGAAAGAGGTGTGAACCAGTGAAGTATGAAAAAATTACTGCTAAGGTTTCATTTTCACCCA
299665 TGAAAATAAATGGATATCTGACCATTGATGACATAAAGAGTTTACATAAAAGTG
261 TGAAAATAAATGGATATCTGACCATTGATGACATAAAGAGTTTACATAAAAGTG
299719 NAGGTACTGATTGTAGAGTTATTCAGTTCCTTCCCAAACTAAAGGCGTGATCAGATGACATACAC
1 -AGGTACTGATTGTAGAGTTATTCAGTTCCTTCCCAAACTAAAGGCGTGATCAGATGACATACAC
299784 AGCCAATCCCAGAGTAATGAAATGGCTGTGTCTTCTTGGACTGGATTTTGGCACTTCTTATAGGG
65 AGCCAATCCCAGAGTAATGAAATGGCTGTGTCTTCTTGGACTGGATTTTGGCACTTCTTATAGGG
299849 ACCTGCAGACAGATGATATATCTTGTAACGATGACTTGTCAGATTGTAAATTCATTCAAATTGCG
130 ACCTGCAGACAGATGATATATCTTGTAACGATGACTTGTCAGATTGTAAATTCATTCAAATTGCG
299914 AGATAGGAAAGAGGTGTGAACCAGTGAAGTATGAAAAAATTACTGCTAAGGTTTCATTTTCACCC
195 AGATAGGAAAGAGGTGTGAACCAGTGAAGTATGAAAAAATTACTGCTAAGGTTTCATTTTCACCC
299979 ATGAAAATAAATGGATATCTGACCATTGATGACATAAAGAGTTTACATAAAAGTG
260 ATGAAAATAAATGGATATCTGACCATTGATGACATAAAGAGTTTACATAAAAGTG
300034 TGAAGATAAT
Statistics
Matches: 314, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
315 314 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (314 bp):
AGGTACTGATTGTAGAGTTATTCAGTTCCTTCCCAAACTAAAGGCGTGATCAGATGACATACACA
GCCAATCCCAGAGTAATGAAATGGCTGTGTCTTCTTGGACTGGATTTTGGCACTTCTTATAGGGA
CCTGCAGACAGATGATATATCTTGTAACGATGACTTGTCAGATTGTAAATTCATTCAAATTGCGA
GATAGGAAAGAGGTGTGAACCAGTGAAGTATGAAAAAATTACTGCTAAGGTTTCATTTTCACCCA
TGAAAATAAATGGATATCTGACCATTGATGACATAAAGAGTTTACATAAAAGTG
Done.