Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 86 of 97
Found at i:33840229 original size:103 final size:101
Alignment explanation
Indices: 33840014--33840550 Score: 468
Period size: 103 Copynumber: 5.2 Consensus size: 101
33840004 GCAGCAAAAC
* * * * *
33840014 AAACCAGCTTTTACTCCTCCTAACCGGCGACCAAAAACCAGCTTTT-ACTC-CTCCTAACCGGCG
1 AAACCAGCTTTTACT-CTCCTAACCGGAG-GCAAAAACCAGCTTTTAACTCTC-CCTCACCAGCA
** * *
33840077 GCATGC-ATCCAGCTTTTAACT-CTCCTAACCGGCGGCATG
63 GCAAACAAACCAGCTTTT-ACTCCTCCTAACCGGCGGCA-A
* * ** *
33840116 CATCCAGCTTTTACTCCTCCTAACCGGAGGCATGCATCCAGC-TTTAACTCTCCCTCACCAGCAG
1 AAACCAGCTTTTACT-CTCCTAACCGGAGGCA-AAAACCAGCTTTTAACTCTCCCTCACCAGCAG
*
33840180 CAAACAAACCAGCTTTTGCTCCTCCTAACCGGCGGCCAA
64 CAAACAAACCAGCTTTTACTCCTCCTAACCGGCGG-CAA
* * * * * *
33840219 AAACCAGCTTTAACTCTCCCTCACCAGCA-GCAAACAAACCAGCTTTT-ACTC-CTCCTAAACGG
1 AAACCAGCTTTTACTCT-CCTAACC-GGAGGC-AA-AAACCAGCTTTTAACTCTC-CCTCACCAG
* *
33840281 CGGTC-AA-GAACCAGCTTTTAACT-CTCCTAACCGGCGGCAA
61 CAG-CAAACAAACCAGCTTTT-ACTCCTCCTAACCGGCGGCAA
** *
33840321 ACAACCCAGCTTTTACCTCTCCTAACCGGCTGTAAAAACCAGCTTTTAACTCTCCCTCACCAGCA
1 A-AA-CCAGCTTTTA-CTCTCCTAACCGGAGGCAAAAACCAGCTTTTAACTCTCCCTCACCAGCA
*
33840386 GCAAAACAAACCAGCTTTTACTCCTCCTAAACGGCGGTCAA
63 GC-AAACAAACCAGCTTTTACTCCTCCTAACCGGCGG-CAA
* * * * * *
33840427 GAACCAGCTTTTAACTCTCCTAACCGGCGGCAAAAACCAACTTTTAAGTCTCCCTCACCGGCGGC
1 AAACCAGCTTTT-ACTCTCCTAACCGGAGGCAAAAACCAGCTTTTAACTCTCCCTCACCAGCAGC
*
33840492 AAACAACCCAGCTTTTAC-CTCTCCTAACCGGCGGCAA
65 AAACAAACCAGCTTTTACTC-CTCCTAACCGGCGGCAA
33840529 AAACCCAGCTTTTAACTCTCCT
1 AAA-CCAGCTTTT-ACTCTCCT
33840551 GCACCCACCC
Statistics
Matches: 357, Mismatches: 50, Indels: 55
0.77 0.11 0.12
Matches are distributed among these distances:
101 5 0.01
102 75 0.21
103 136 0.38
104 103 0.29
105 35 0.10
106 3 0.01
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.22
Consensus pattern (101 bp):
AAACCAGCTTTTACTCTCCTAACCGGAGGCAAAAACCAGCTTTTAACTCTCCCTCACCAGCAGCA
AACAAACCAGCTTTTACTCCTCCTAACCGGCGGCAA
Found at i:33840263 original size:172 final size:172
Alignment explanation
Indices: 33839947--33840493 Score: 530
Period size: 172 Copynumber: 3.2 Consensus size: 172
33839937 AGCAGATAAC
*
33839947 CCAGC-TTCAACTCTCCGTAACCGGCGGCAAGCATCCAGCTTTAACTCTCCCTCACCAGCAGCAA
1 CCAGCTTTTAACTCTCC-TAACCGGCGGCAAGCATCCAGCTTTAACTCTCCCTCACCAGCAGCAA
* *
33840011 AACAAACCAGCTTTTACTCCTCCTAACCGGCGACCAAAAACCAGCTTTTACTCCTCCTAACCGGC
65 AACAAACCAGCTTTTACTCCTCCTAACCGGCGACCAAAAACCAGCTTTAACTCCTCCTAACCAGC
* ** * * * *
33840076 GGCATGCATCCAGCTTTTAACT-CTCCTAACCGGCGG-CATGCAT
130 AGCAAACAACCAGCTTTT-ACTCCTCCTAAACGGCGGTCAAG-AA
* *
33840119 CCAGCTTTT-ACTCCTCCTAACCGGAGGCATGCATCCAGCTTTAACTCTCCCTCACCAGCAGC-A
1 CCAGCTTTTAACT-CTCCTAACCGGCGGCAAGCATCCAGCTTTAACTCTCCCTCACCAGCAGCAA
* * *
33840182 AACAAACCAGCTTTTGCTCCTCCTAACCGGCGGCCAAAAACCAGCTTTAACT-CTCCCTCACCAG
65 AACAAACCAGCTTTTACTCCTCCTAACCGGCGACCAAAAACCAGCTTTAACTCCT-CCTAACCAG
33840246 CAGCAAACAAACCAGCTTTTACTCCTCCTAAACGGCGGTCAAGAA
129 CAGCAAAC-AACCAGCTTTTACTCCTCCTAAACGGCGGTCAAGAA
* * * * * *
33840291 CCAGCTTTTAACTCTCCTAACCGGCGGCAAACAACCCAGCTTTTAC-CTCTCCTAACCGGCTG--
1 CCAGCTTTTAACTCTCCTAACCGGCGGCAAGC-ATCCAGCTTTAACTCTC-CCTCACCAGCAGCA
* * * * *
33840353 TAA-AAACCAGCTTTTAACT-CTCCCTCACCAGC-AGCAAAACAAACCAGCTTTTACTCCTCCTA
64 AAACAAACCAGCTTTT-ACTCCT-CCTAACCGGCGA-C-CAA-AAACCAGCTTTAACTCCTCCTA
* * * * * *
33840415 AACGGCGGTC-AAGAACCAGCTTTTAACT-CTCCTAACCGGCGG-CAAAAA
124 ACCAGCAG-CAAACAACCAGCTTTT-ACTCCTCCTAAACGGCGGTCAAGAA
* * *
33840463 CCAACTTTTAAGTCTCCCTCACCGGCGGCAA
1 CCAGCTTTTAACTCT-CCTAACCGGCGGCAA
33840494 ACAACCCAGC
Statistics
Matches: 317, Mismatches: 40, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
170 2 0.01
171 79 0.25
172 134 0.42
173 72 0.23
174 27 0.09
175 3 0.01
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.22
Consensus pattern (172 bp):
CCAGCTTTTAACTCTCCTAACCGGCGGCAAGCATCCAGCTTTAACTCTCCCTCACCAGCAGCAAA
ACAAACCAGCTTTTACTCCTCCTAACCGGCGACCAAAAACCAGCTTTAACTCCTCCTAACCAGCA
GCAAACAACCAGCTTTTACTCCTCCTAAACGGCGGTCAAGAA
Found at i:33840330 original size:138 final size:137
Alignment explanation
Indices: 33840015--33840550 Score: 585
Period size: 138 Copynumber: 3.9 Consensus size: 137
33840005 CAGCAAAACA
*
33840015 AACCAGCTTTT-ACTCCTCCTAACCGGCGACCAAAAA-CCAGCTTTTACTCCTCCTAACCGGCGG
1 AACCAGCTTTTAACT-CTCCTAACCGGCG-GCAAAAACCCAGCTTTTACTCCTCCTAACCGGCGG
** * * * * ** * *
33840078 CATGCATCCAGCTTTTAACTCT-CCTAACCGGCGGCATGC-ATCCAGCTTTTACTCCTCCTAACC
64 CA-AAAACCAGCTTTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTACTCCTCCTAAAC
* *
33840141 GGAGG-CATG
128 GGCGGTCAAG
* * * * * *
33840150 CATCCAGC-TTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTGCTCCTCCTAACCGGCG
1 -AACCAGCTTTTAACTCT-CCTAACCGGCGGCAAA-AACCCAGCTTTTACTCCTCCTAACCGGCG
33840214 GCCAAAAACCAGC-TTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTACTCCTCCTAAA
63 G-CAAAAACCAGCTTTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTACTCCTCCTAAA
33840278 CGGCGGTCAAG
127 CGGCGGTCAAG
*
33840289 AACCAGCTTTTAACTCTCCTAACCGGCGGCAAACAACCCAGCTTTTAC-CTCTCCTAACCGGCTG
1 AACCAGCTTTTAACTCTCCTAACCGGCGGCAAA-AACCCAGCTTTTACTC-CTCCTAACCGGCGG
*
33840353 TAAAAACCAGCTTTTAACTCTCCCTCACCAGCAGCAAAACAAACCAGCTTTTACTCCTCCTAAAC
64 CAAAAACCAGCTTTTAACTCTCCCTCACCAGCAGC-AAACAAACCAGCTTTTACTCCTCCTAAAC
33840418 GGCGGTCAAG
128 GGCGGTCAAG
* * *
33840428 AACCAGCTTTTAACTCTCCTAACCGGCGGCAAAAA-CCAACTTTTAAGT-CTCCCTCACCGGCGG
1 AACCAGCTTTTAACTCTCCTAACCGGCGGCAAAAACCCAGCTTTT-ACTCCT-CCTAACCGGCGG
* * * * *
33840491 CAAACAACCCAGCTTTTACCTCT-CCTAACCGGCGGCAAA-AACCCAGCTTTTAACT-CTCCT
64 CAAA-AA-CCAGCTTTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTT-ACTCCTCCT
33840551 GCACCCACCC
Statistics
Matches: 346, Mismatches: 36, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
135 9 0.03
136 28 0.08
137 81 0.23
138 118 0.34
139 96 0.28
140 14 0.04
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.22
Consensus pattern (137 bp):
AACCAGCTTTTAACTCTCCTAACCGGCGGCAAAAACCCAGCTTTTACTCCTCCTAACCGGCGGCA
AAAACCAGCTTTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTACTCCTCCTAAACGGC
GGTCAAG
Found at i:33840517 original size:69 final size:68
Alignment explanation
Indices: 33839947--33840548 Score: 516
Period size: 69 Copynumber: 8.7 Consensus size: 68
33839937 AGCAGATAAC
* * * * * * *
33839947 CCAGC-TTCAACTCTCCGTAACCGGCGGCAAGCATCCAGCTTTAACTCTC-CCTCACCAGCAGCA
1 CCAGCTTTTAACTCTCC-TAACCGGCGGCAA-AAACCAGCTTTTACTCTCTCCTAACCGGCGGC-
33840010 AAACAAA
63 AAAC-AA
*
33840017 CCAGCTTTT-ACTCCTCCTAACCGGCGACCAAAAACCAGCTTTTACTC-CTCCTAACCGGCGGCA
1 CCAGCTTTTAACT-CTCCTAACCGGCG-GCAAAAACCAGCTTTTACTCTCTCCTAACCGGCGGCA
** *
33840080 TGCAT
64 AACAA
** * * *
33840085 CCAGCTTTTAACTCTCCTAACCGGCGGCATGCATCCAGCTTTTACTC-CTCCTAACCGGAGGCAT
1 CCAGCTTTTAACTCTCCTAACCGGCGGCA-AAAACCAGCTTTTACTCTCTCCTAACCGGCGGCAA
* *
33840149 GCAT
65 ACAA
* * * *
33840153 CCAGC-TTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTGCTC-CTCCTAACCGGCGGC
1 CCAGCTTTTAACTCT-CCTAACCGGCGGC-AA-AAACCAGCTTTTACTCTCTCCTAACCGGCGG-
33840216 CAAA-AA
62 CAAACAA
* * * *
33840222 CCAGC-TTTAACTCTCCCTCACCAGCAGCAAACAAACCAGCTTTTACTC-CTCCTAAACGGCGGT
1 CCAGCTTTTAACTCT-CCTAACCGGCGGC-AA-AAACCAGCTTTTACTCTCTCCTAACCGGCGG-
*
33840285 C-AAGAA
62 CAAACAA
* *
33840291 CCAGCTTTTAACTCTCCTAACCGGCGGCAAACAACCCAGCTTTTAC-CTCTCCTAACCGGCTGTA
1 CCAGCTTTTAACTCTCCTAACCGGCGGCAAA-AA-CCAGCTTTTACTCTCTCCTAACCGGCGGCA
33840355 AA-AA
64 AACAA
* * * *
33840359 CCAGCTTTTAACTCTCCCTCACCAGCAGCAAAACAAACCAGCTTTTACTC-CTCCTAAACGGCGG
1 CCAGCTTTTAACTCT-CCTAACCGGCGGC--AA-AAACCAGCTTTTACTCTCTCCTAACCGGCGG
*
33840423 TC-AAGAA
62 -CAAACAA
* * *
33840430 CCAGCTTTTAACTCTCCTAACCGGCGGCAAAAACCAACTTTTAAGTCTC-CCTCACCGGCGGCAA
1 CCAGCTTTTAACTCTCCTAACCGGCGGCAAAAACCAGCTTTT-ACTCTCTCCTAACCGGCGGCAA
33840494 ACAA
65 ACAA
*
33840498 CCCAGCTTTTACCTCTCCTAACCGGCGGCAAAAACCCAGCTTTTAACTCTC
1 -CCAGCTTTTAACTCTCCTAACCGGCGGCAAAAA-CCAGCTTTT-ACTCTC
33840549 CTGCACCCAC
Statistics
Matches: 451, Mismatches: 53, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
67 24 0.05
68 115 0.25
69 180 0.40
70 100 0.22
71 31 0.07
72 1 0.00
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.22
Consensus pattern (68 bp):
CCAGCTTTTAACTCTCCTAACCGGCGGCAAAAACCAGCTTTTACTCTCTCCTAACCGGCGGCAAA
CAA
Found at i:33840841 original size:16 final size:16
Alignment explanation
Indices: 33840820--33840853 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33840810 ACCTCTCTCT
33840820 TTTTTTCATTTCTTCA
1 TTTTTTCATTTCTTCA
*
33840836 TTTTTTCATTTTTTCA
1 TTTTTTCATTTCTTCA
33840852 TT
1 TT
33840854 ATCATCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTCATTTCTTCA
Found at i:33860258 original size:23 final size:23
Alignment explanation
Indices: 33860232--33860276 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
33860222 TACTTTAAAA
33860232 ATATTTAATAAAATTTTTTTATC
1 ATATTTAATAAAATTTTTTTATC
* *
33860255 ATATTTAATTACATTTTTTTAT
1 ATATTTAATAAAATTTTTTTAT
33860277 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTTAATAAAATTTTTTTATC
Found at i:33885716 original size:25 final size:26
Alignment explanation
Indices: 33885683--33885748 Score: 125
Period size: 25 Copynumber: 2.6 Consensus size: 26
33885673 TGAATCATAA
33885683 TAATATTTAAATTATAAATAAAATAT
1 TAATATTTAAATTATAAATAAAATAT
33885709 TAAT-TTTAAATTATAAATAAAATAT
1 TAATATTTAAATTATAAATAAAATAT
33885734 TAATATTTAAATTAT
1 TAATATTTAAATTAT
33885749 CAATTATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 25 0.64
26 14 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATATTTAAATTATAAATAAAATAT
Found at i:33885888 original size:26 final size:26
Alignment explanation
Indices: 33885850--33885916 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
33885840 TTAATCATAA
* * *
33885850 TAATATTTCAATTGTAAATAAAATGT
1 TAATATTTAAATTATAAATAAAATAT
*
33885876 TAATGA-TTAAATTATATATAAAATAT
1 TAAT-ATTTAAATTATAAATAAAATAT
33885902 TAATATTTAAATTAT
1 TAATATTTAAATTAT
33885917 CAATTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 33 0.94
27 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (26 bp):
TAATATTTAAATTATAAATAAAATAT
Found at i:33885934 original size:19 final size:19
Alignment explanation
Indices: 33885881--33885939 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 19
33885871 AATGTTAATG
33885881 ATTAA-ATTATATATAAAAT
1 ATTAATATTAT-TATAAAAT
* *
33885900 ATTAATATTTAAATTATCAATT
1 ATTAATA-TT--ATTATAAAAT
33885922 ATTAATATTATTATAAAA
1 ATTAATATTATTATAAAA
33885940 AGAAAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 12 0.38
20 1 0.03
21 4 0.12
22 13 0.41
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATATTATTATAAAAT
Found at i:33885999 original size:168 final size:160
Alignment explanation
Indices: 33885675--33885974 Score: 449
Period size: 168 Copynumber: 1.8 Consensus size: 160
33885665 TTAATATGTG
*
33885675 AATCATAATAATATTTAAATTATAAATAAAATATTAATTTTAAATTATAAATAAAATATTAATAT
1 AATCATAATAATATTTAAATTATAAATAAAATATTAATATTAAATTATAAATAAAATATTAATAT
*
33885740 TTAAATTATCAATTATTAATATTATTATAAAAAAGAAAAAAGAAAAAAGTTTAAAATTTTAATTA
66 TTAAATTATCAATTATTAATATTATTAT-------AAAAAAGAAAAAAGTTTAAAATTTTAATAA
*
33885805 TATATTATAAAAATTAACATAAAATTATCTATATTTT
124 TATATTATAAAAATTAAAATAAAATTATCTATATTTT
* * * *
33885842 AATCATAATAATATTTCAATTGTAAATAAAATGTTAATGATTAAATTATATATAAAATATTAATA
1 AATCATAATAATATTTAAATTATAAATAAAATATTAAT-ATTAAATTATAAATAAAATATTAATA
*
33885907 TTTAAATTATCAATTATTAATATTATTAT-AAAAAGAAAAAAGTTTAAATTTTTAATAATATATT
65 TTTAAATTATCAATTATTAATATTATTATAAAAAAGAAAAAAGTTTAAAATTTTAATAATATATT
33885971 ATAA
130 ATAA
33885975 GATTATATTA
Statistics
Matches: 125, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
160 37 0.30
167 35 0.28
168 53 0.42
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (160 bp):
AATCATAATAATATTTAAATTATAAATAAAATATTAATATTAAATTATAAATAAAATATTAATAT
TTAAATTATCAATTATTAATATTATTATAAAAAAGAAAAAAGTTTAAAATTTTAATAATATATTA
TAAAAATTAAAATAAAATTATCTATATTTT
Found at i:33886231 original size:25 final size:26
Alignment explanation
Indices: 33886180--33886231 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
33886170 ATTAATATTT
33886180 TAAAATATTAATTACTGAATTATAAA
1 TAAAATATTAATTACTGAATTATAAA
* *
33886206 TAAAATATTAA-TATTTAATTATAAA
1 TAAAATATTAATTACTGAATTATAAA
33886231 T
1 T
33886232 TATTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAAATATTAATTACTGAATTATAAA
Found at i:33886250 original size:21 final size:19
Alignment explanation
Indices: 33886202--33886257 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
33886192 TACTGAATTA
*
33886202 TAAATAAAATATTAATATT
1 TAAATAAATTATTAATATT
33886221 TAATTATAAATTATTAATATTTT
1 TAA--ATAAATTATTAATA--TT
33886244 TAAATAAATT-TTAA
1 TAAATAAATTATTAA
33886258 AATAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 20 0.62
23 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATAAATTATTAATATT
Found at i:33886258 original size:28 final size:28
Alignment explanation
Indices: 33886197--33886279 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 28
33886187 TTAATTACTG
* * *
33886197 AATTAT-AAATAA-AATA-TTAATATTT
1 AATTATAAAATAATAATATTTAAAAATA
* * **
33886222 AATTATAAATTATTAATATTTTTAAATA
1 AATTATAAAATAATAATATTTAAAAATA
*
33886250 AATTTTAAAATAATAATATTTAAAAATA
1 AATTATAAAATAATAATATTTAAAAATA
33886278 AA
1 AA
33886280 AATAAATAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
25 6 0.14
26 4 0.09
27 4 0.09
28 29 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AATTATAAAATAATAATATTTAAAAATA
Found at i:33886275 original size:16 final size:16
Alignment explanation
Indices: 33886246--33886283 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33886236 AATATTTTTA
*
33886246 AATAA-ATTTTAAAAT
1 AATAATATTTAAAAAT
33886261 AATAATATTTAAAAAT
1 AATAATATTTAAAAAT
*
33886277 AAAAATA
1 AATAATA
33886284 AATAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATATTTAAAAAT
Found at i:33886347 original size:22 final size:22
Alignment explanation
Indices: 33886322--33886396 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
33886312 ATTAAAATAT
*
33886322 TAATAAAATATTAATATTTAAA
1 TAATAAATTATTAATATTTAAA
* *
33886344 TAATCAATTATTAATATTTTAA
1 TAATAAATTATTAATATTTAAA
33886366 TAAATTATAATTATTAATATTTTAAA
1 T-AA-TA-AATTATTAATA-TTTAAA
*
33886392 AAATA
1 TAATA
33886397 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 20 0.47
23 2 0.05
24 3 0.07
25 13 0.30
26 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAAATTATTAATATTTAAA
Found at i:33886383 original size:25 final size:25
Alignment explanation
Indices: 33886340--33886399 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
33886330 TATTAATATT
*
33886340 TAAATAATCAATTATTAATATTTTAA
1 TAAATTAT-AATTATTAATATTTTAA
33886366 TAAATTATAATTATTAATATTTTAA
1 TAAATTATAATTATTAATATTTTAA
*
33886391 -AAAATATAA
1 TAAATTATAA
33886400 AATAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 8 0.25
25 17 0.53
26 7 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAATTATAATTATTAATATTTTAA
Found at i:33890142 original size:41 final size:41
Alignment explanation
Indices: 33890096--33890179 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
33890086 TTTCATGTAT
* *
33890096 ATATTATATTAAATTAGCAAATAAAATTACTTAGAGATTAA
1 ATATTATATTAAATTAGCAAATAAAATTACTTAAAAATTAA
* * ** *
33890137 ATATTATATTGATTTAGTTAATAAAATTATTTAAAAATTAA
1 ATATTATATTAAATTAGCAAATAAAATTACTTAAAAATTAA
33890178 AT
1 AT
33890180 GAAAAATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (41 bp):
ATATTATATTAAATTAGCAAATAAAATTACTTAAAAATTAA
Found at i:33904654 original size:375 final size:374
Alignment explanation
Indices: 33903965--33904716 Score: 1360
Period size: 375 Copynumber: 2.0 Consensus size: 374
33903955 GAATTTACTA
*
33903965 AAATGCCCTTACCATCATTGTTGGTCAAACCATTCTCACTCAAGATCTCCATAAGCTTGTTGACT
1 AAATGCCCTTACCATCATTGCTGGTCAAACCATTCTCACTCAAGATCTCCATAAGCTTGTTGACT
* *
33904030 TGTTGCTGCAGGTTGACATCTGGGACATGGTGCTTGTTCCATTTATTTCTTTTACTTGTTCTAGA
66 TGTTGCTGCAGGTTGACATCTGGGACATGGTGCTTGTTCCATTCATTTCTTTTACTTGTTATAGA
* * *
33904095 TAAGTCTCCTTAGCTGATGTATCATTTGATACTGTCACGCTTGTCACTGCTGTTTTGCCTTTCTT
131 TAAGTCTCCTCAGCTGATGTATCATTTGATACTGTCACACATGTCACTGCTGTTTTGCCTTTCTT
33904160 AACATTAAGCTTTCCTTTTGTGAATTTGAAATCTTCAAGATAGCCAATGATTCTATAACATTTCT
196 AACATTAAGCTTTCCTTTTGTGAATTTGAAATCTTCAAGATAGCCAATGATTCTATAACATTTCT
*
33904225 CCTTAATGTATCCCTTCTTCCCATAGTGGCTACATATTAAGTCCTTCCTGTTTTTTTCTTCTTTG
261 CCTTAATATATCCCTTCTTCCCATAGTGGCTACATATTAAGTCCTTCCTGTTTTTTTCTTCTTTG
* *
33904290 TATTAGCTGCAGCAAGCATAGCTGATGATTCAAGCATAGGTTGTGTTTG
326 TATTAGCTGCAGCAAGCATAGCTGATAATTCAAGCATAGGTTGTGTCTG
33904339 AAATGCCCTTACCATCATTGCTGGTCAAACCATTCTCACTCAAGATCTCCATAAGCTTGTTGACT
1 AAATGCCCTTACCATCATTGCTGGTCAAACCATTCTCACTCAAGATCTCCATAAGCTTGTTGACT
*
33904404 TGTTGCTGTAGGTTAGACATCTGGGACATGGTGCTTGTTCCATTCATTTCTTTTACTTGTTATAG
66 TGTTGCTGCAGGTT-GACATCTGGGACATGGTGCTTGTTCCATTCATTTCTTTTACTTGTTATAG
*
33904469 ATAAGTCTCCTCAGCTGATGTATCATTTGATATTGTCACACATGTCACTGCTGTTTTGCCTTTCT
130 ATAAGTCTCCTCAGCTGATGTATCATTTGATACTGTCACACATGTCACTGCTGTTTTGCCTTTCT
33904534 TAACATTAAGCTTTCCTTTTGTGAATTTGAAATCTTCAAGATAGCCAATGATTCTATAACATTTC
195 TAACATTAAGCTTTCCTTTTGTGAATTTGAAATCTTCAAGATAGCCAATGATTCTATAACATTTC
* * *
33904599 TCTTTAATATGTCTCTTCTTCCCATAGTGGCTACATATTAAGTCCTTCCTGTTTTTTTCTTCTTT
260 TCCTTAATATATCCCTTCTTCCCATAGTGGCTACATATTAAGTCCTTCCTGTTTTTTTCTTCTTT
*
33904664 GTATTAGCTGCAGTAAGCATAGCTGATAATTCAAGCATAGGTTGTGTCTG
325 GTATTAGCTGCAGCAAGCATAGCTGATAATTCAAGCATAGGTTGTGTCTG
33904714 AAA
1 AAA
33904717 CAAGATATTT
Statistics
Matches: 362, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
374 77 0.21
375 285 0.79
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (374 bp):
AAATGCCCTTACCATCATTGCTGGTCAAACCATTCTCACTCAAGATCTCCATAAGCTTGTTGACT
TGTTGCTGCAGGTTGACATCTGGGACATGGTGCTTGTTCCATTCATTTCTTTTACTTGTTATAGA
TAAGTCTCCTCAGCTGATGTATCATTTGATACTGTCACACATGTCACTGCTGTTTTGCCTTTCTT
AACATTAAGCTTTCCTTTTGTGAATTTGAAATCTTCAAGATAGCCAATGATTCTATAACATTTCT
CCTTAATATATCCCTTCTTCCCATAGTGGCTACATATTAAGTCCTTCCTGTTTTTTTCTTCTTTG
TATTAGCTGCAGCAAGCATAGCTGATAATTCAAGCATAGGTTGTGTCTG
Found at i:33914072 original size:5 final size:6
Alignment explanation
Indices: 33914057--33914090 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33914047 TGAGCCATAT
* *
33914057 GGGGGA GGGGGA GGGGGA GGGGGA AGGGGC GGGG
1 GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA GGGG
33914091 CATGTCACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.03, G:0.82, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:33918242 original size:28 final size:28
Alignment explanation
Indices: 33918210--33918309 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
33918200 GACATATAAC
*
33918210 AACTTTTTCATCATGACGTGTAACAATT
1 AACTTTTTCAACATGACGTGTAACAATT
* *
33918238 AACTTTTTCAACATGATGTGTAAAAATT
1 AACTTTTTCAACATGACGTGTAACAATT
* *
33918266 ATA-TTTTTCAACATGACATATAACAATT
1 A-ACTTTTTCAACATGACGTGTAACAATT
33918294 -ACATTTTTCAACATGA
1 AAC-TTTTTCAACATGA
33918310 GGGGTAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 1 0.02
28 60 0.97
29 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (28 bp):
AACTTTTTCAACATGACGTGTAACAATT
Found at i:33918344 original size:27 final size:28
Alignment explanation
Indices: 33918273--33918349 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
33918263 ATTATATTTT
* * * * *
33918273 TCAACATGACATATAACAATTACATTTT
1 TCAACATGACGTATAATAACTACAATTA
* **
33918301 TCAACATGAGGGGTAATAACTA-AATTA
1 TCAACATGACGTATAATAACTACAATTA
33918328 TCAACATGACGTATAATAACTA
1 TCAACATGACGTATAATAACTA
33918350 TATTTTTTAA
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (28 bp):
TCAACATGACGTATAATAACTACAATTA
Found at i:33918355 original size:55 final size:56
Alignment explanation
Indices: 33918241--33918362 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 56
33918231 AACAATTAAC
* * * * * *
33918241 TTTTTCAACATGATGTGTAAAAATTATATTTTTCAACATGACATATAACAATTACA
1 TTTTTCAACATGAGGGGTAAAAACTATAATTATCAACATGACATATAACAACTACA
* * * *
33918297 TTTTTCAACATGAGGGGTAATAACTA-AATTATCAACATGACGTATAATAACTATA
1 TTTTTCAACATGAGGGGTAAAAACTATAATTATCAACATGACATATAACAACTACA
*
33918352 TTTTTTAACAT
1 TTTTTCAACAT
33918363 AATGAGTAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
55 33 0.60
56 22 0.40
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (56 bp):
TTTTTCAACATGAGGGGTAAAAACTATAATTATCAACATGACATATAACAACTACA
Found at i:33918483 original size:27 final size:26
Alignment explanation
Indices: 33918457--33918506 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
33918447 ATAATAATTA
*
33918457 AATTTTAAAATATGGTGTGTAACATT
1 AATTTTAAAATATGGTGTATAACATT
* **
33918483 ACTTTTTCAATATGGTGTATAACA
1 AATTTTAAAATATGGTGTATAACA
33918507 ATTATATTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (26 bp):
AATTTTAAAATATGGTGTATAACATT
Found at i:33918519 original size:27 final size:26
Alignment explanation
Indices: 33918465--33918519 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
33918455 TAAATTTTAA
* *
33918465 AATATGGTGTGTAACATTACTTTTTC
1 AATATGGTGTATAACATTACTTTGTC
33918491 AATATGGTGTATAACAATTA-TATTGTC
1 AATATGGTGTATAAC-ATTACT-TTGTC
33918518 AA
1 AA
33918520 AATGACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (26 bp):
AATATGGTGTATAACATTACTTTGTC
Found at i:33918526 original size:106 final size:106
Alignment explanation
Indices: 33918394--33918596 Score: 284
Period size: 106 Copynumber: 1.9 Consensus size: 106
33918384 CAATATAATA
**
33918394 TATAACAACTACATTATCAAAATGACATGTAACAATTATTTCCAACATAACGTATA-ATAATTAA
1 TATAACAACTACATTATCAAAATGACATAAAACAATTATTTCCAACATAACGTATACA-AATTAA
*
33918458 ATTTTAAAATATGGT-GTGTAACATTACTTTTTCAATATGGTG
65 ATTTTAAAATATGATAG-GTAACATTACTTTTTCAATATGGTG
* * * * * *
33918500 TATAACAATTATATTGTCAAAATGACATAAAACAATTATTTTCAATATAGCGTATACAAATTAAA
1 TATAACAACTACATTATCAAAATGACATAAAACAATTATTTCCAACATAACGTATACAAATTAAA
*
33918565 TTTTAAAATGTGATAGGTAACATTACTTTTTC
66 TTTTAAAATATGATAGGTAACATTACTTTTTC
33918597 CAACATGACG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
106 83 0.98
107 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.37
Consensus pattern (106 bp):
TATAACAACTACATTATCAAAATGACATAAAACAATTATTTCCAACATAACGTATACAAATTAAA
TTTTAAAATATGATAGGTAACATTACTTTTTCAATATGGTG
Found at i:33921520 original size:46 final size:44
Alignment explanation
Indices: 33921466--33921612 Score: 122
Period size: 46 Copynumber: 3.3 Consensus size: 44
33921456 TGTTAAAAAA
*
33921466 TAAA-AATATTCTGAACAATAAAATCAAAATAACTTTTATTATAAT
1 TAAATAATATTTTG-ACAATAAAA-CAAAATAACTTTTATTATAAT
* * *
33921511 TAAATAATATTTTCACCAA-AATACAAACAT-ATTTTTATTATAAT
1 TAAATAATATTTTGA-CAATAAAACAAA-ATAACTTTTATTATAAT
* * * * *
33921555 TTAATAATATTTTG-TATTAAAAGCTAATTAAACCTTTTATTATAAT
1 TAAATAATATTTTGACAATAAAA-CAAAAT-AA-CTTTTATTATAAT
33921601 TAAATAATATTT
1 TAAATAATATTT
33921613 AATGTTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 32 0.40
45 11 0.14
46 33 0.41
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (44 bp):
TAAATAATATTTTGACAATAAAACAAAATAACTTTTATTATAAT
Found at i:33921582 original size:23 final size:22
Alignment explanation
Indices: 33921539--33921582 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
33921529 AAATACAAAC
* **
33921539 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAAAAGCTAATA
33921561 ATATTTTGTATTAAAAGCTAAT
1 ATATTTT-TATTAAAAGCTAAT
33921583 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAAAAGCTAATA
Found at i:33921651 original size:30 final size:32
Alignment explanation
Indices: 33921617--33921682 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
33921607 ATATTTAATG
33921617 TTAAAAAATA-AAAT-ATATTCTTCATTAAAT
1 TTAAAAAATACAAATAATATTCTTCATTAAAT
* * *
33921647 TTAAACAATACTAAATAATATTCTTTATTACAT
1 TTAAAAAATAC-AAATAATATTCTTCATTAAAT
33921680 TTA
1 TTA
33921683 TTATATTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 9 0.30
32 4 0.13
33 17 0.57
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (32 bp):
TTAAAAAATACAAATAATATTCTTCATTAAAT
Found at i:33921727 original size:45 final size:43
Alignment explanation
Indices: 33921653--33921750 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 43
33921643 AAATTTAAAC
* * * *
33921653 AATACTAAATAATATTCTTTATTACATTTATTATATTCAAATAA
1 AATATTAAATAATATACTTTATAACATTTAATATATT-AAATAA
*
33921697 TAATATTAAATAATATACTTTATAATATTTAATATATTAAATAA
1 -AATATTAAATAATATACTTTATAACATTTAATATATTAAATAA
33921741 AAT-TTAAATA
1 AATATTAAATA
33921751 TTTTTATTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 7 0.15
43 3 0.06
44 6 0.12
45 32 0.67
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (43 bp):
AATATTAAATAATATACTTTATAACATTTAATATATTAAATAA
Found at i:33925431 original size:23 final size:23
Alignment explanation
Indices: 33925401--33925455 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
33925391 CATTTTATCC
33925401 CAAAAAAAACCTAAACCACAT-AA
1 CAAAAAAAA-CTAAACCACATAAA
* **
33925424 CAAAAAAAATTAAATTACATAAA
1 CAAAAAAAACTAAACCACATAAA
33925447 CAAAAAAAA
1 CAAAAAAAA
33925456 TCAAATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (23 bp):
CAAAAAAAACTAAACCACATAAA
Found at i:33925456 original size:23 final size:22
Alignment explanation
Indices: 33925418--33925462 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
33925408 AACCTAAACC
*
33925418 ACATAACAAAAAAAATTAAATT
1 ACATAACAAAAAAAATCAAATT
33925440 ACATAAACAAAAAAAATCAAATT
1 ACAT-AACAAAAAAAATCAAATT
33925463 TTGATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (22 bp):
ACATAACAAAAAAAATCAAATT
Found at i:33926003 original size:27 final size:27
Alignment explanation
Indices: 33925957--33926008 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33925947 AGATGAGGAG
* *
33925957 GAGGAGGAGGAGGATACTGATGTGGTA
1 GAGGAGGAAGAGGATACTGACGTGGTA
* *
33925984 GAGGAGGAAGATGATGCTGACGTGG
1 GAGGAGGAAGAGGATACTGACGTGG
33926009 AAATTGACGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.48, T:0.17
Consensus pattern (27 bp):
GAGGAGGAAGAGGATACTGACGTGGTA
Found at i:33929621 original size:32 final size:32
Alignment explanation
Indices: 33929585--33929654 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
33929575 ACGTCAATAT
*
33929585 TGCCACGCCATCATATTAGTGTCACGTGACAC
1 TGCCACGCCATCACATTAGTGTCACGTGACAC
* * * *
33929617 TGCCACGTCATCACATTGGTGTTACGTGGCAC
1 TGCCACGCCATCACATTAGTGTCACGTGACAC
*
33929649 TACCAC
1 TGCCAC
33929655 ATCATTATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (32 bp):
TGCCACGCCATCACATTAGTGTCACGTGACAC
Found at i:33931284 original size:52 final size:52
Alignment explanation
Indices: 33931206--33931305 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
33931196 TCAAGTTTTT
*
33931206 ATATTGTTTTATTTTCATCATCTTCAAACTTCAAAAGAATTTCAATGGCTTG
1 ATATTATTTTATTTTCATCATCTTCAAACTTCAAAAGAATTTCAATGGCTTG
* * * * *
33931258 ATATTATTTTGTTTTCATTATCTTCAAGCTTTAAATGAATTTCAATGG
1 ATATTATTTTATTTTCATCATCTTCAAACTTCAAAAGAATTTCAATGG
33931306 TTAGTCTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (52 bp):
ATATTATTTTATTTTCATCATCTTCAAACTTCAAAAGAATTTCAATGGCTTG
Found at i:33933623 original size:13 final size:14
Alignment explanation
Indices: 33933597--33933640 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
33933587 TTAAAAAATT
33933597 AATATTTAACTTTAA
1 AATATTTAA-TTTAA
33933612 AA-ATTTAATTTAA
1 AATATTTAATTTAA
*
33933625 AATATTAATATTTAA
1 AATATTTA-ATTTAA
33933640 A
1 A
33933641 TTATACAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 10 0.38
15 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
AATATTTAATTTAA
Found at i:33939511 original size:21 final size:23
Alignment explanation
Indices: 33939457--33939520 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 23
33939447 ATTAAATAGA
33939457 ATAAGATTGAAAAAATAAACAAAT
1 ATAA-ATTGAAAAAATAAACAAAT
* *
33939481 ATAAA-T-AAAAAAT-AA-TATT
1 ATAAATTGAAAAAATAAACAAAT
33939500 ATAAATTGAAAAAA-AAACAAA
1 ATAAATTGAAAAAATAAACAAA
33939521 AAAAACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
19 7 0.22
20 3 0.09
21 15 0.47
22 2 0.06
23 1 0.03
24 4 0.12
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (23 bp):
ATAAATTGAAAAAATAAACAAAT
Found at i:33942318 original size:15 final size:16
Alignment explanation
Indices: 33942280--33942325 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
33942270 AGACAAATTA
*
33942280 AAAATATT-ATTAATC
1 AAAATATTAATTTATC
33942295 AAAATTATTAATTTATC
1 AAAA-TATTAATTTATC
33942312 -AAATATTAATTTAT
1 AAAATATTAATTTAT
33942326 GGTCTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 7 0.25
17 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATATTAATTTATC
Found at i:33947261 original size:45 final size:45
Alignment explanation
Indices: 33947197--33947287 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
33947187 TACCTTCAAA
*
33947197 AGCTTAACCTCAAGTTTTGATG-TCTTTATCAAGGTCACACATCAT
1 AGCTTAACCTCAAGTTTTGATGTTC-TCATCAAGGTCACACATCAT
*
33947242 AGCTTAAGCTCAAGTTTTGATGTTCTCATCAAGGTCACACATCAT
1 AGCTTAACCTCAAGTTTTGATGTTCTCATCAAGGTCACACATCAT
33947287 A
1 A
33947288 TCTACGGGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
AGCTTAACCTCAAGTTTTGATGTTCTCATCAAGGTCACACATCAT
Found at i:33953702 original size:15 final size:16
Alignment explanation
Indices: 33953667--33953715 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
33953657 CACTATCATG
33953667 AAAATCACGAAAAAAT
1 AAAATCACGAAAAAAT
*
33953683 AAAATCAC-ACAAAAT
1 AAAATCACGAAAAAAT
* * *
33953698 CAAATTAAGAAAAAAT
1 AAAATCACGAAAAAAT
33953714 AA
1 AA
33953716 TGGAAAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.14
Consensus pattern (16 bp):
AAAATCACGAAAAAAT
Found at i:33954372 original size:22 final size:22
Alignment explanation
Indices: 33954344--33954417 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
33954334 ATTTTTAACA
33954344 AAATATTAATATTTTAAAATAT
1 AAATATTAATATTTTAAAATAT
*
33954366 TAATATTAA-ATTTT-AAATA-
1 AAATATTAATATTTTAAAATAT
*
33954385 AAATATTAATA-TTTAAATTAT
1 AAATATTAATATTTTAAAATAT
*
33954406 CAATTATTAATA
1 -AAATATTAATA
33954418 ACATATATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.25
20 10 0.23
21 5 0.11
22 18 0.41
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATTAATATTTTAAAATAT
Found at i:33954399 original size:19 final size:20
Alignment explanation
Indices: 33954331--33954402 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 20
33954321 CTCATTGATT
*
33954331 TTAAT-TTTT-AACAAAATA
1 TTAATATTTTAAATAAAATA
*
33954349 TTAATATTTTAAAATATTAATA
1 TTAATATTTT-AAATA-AAATA
33954371 TTAA-ATTTTAAATAAAATA
1 TTAATATTTTAAATAAAATA
33954390 TTAATA-TTTAAAT
1 TTAATATTTTAAAT
33954403 TATCAATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.11
19 19 0.41
20 6 0.13
21 8 0.17
22 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATATTTTAAATAAAATA
Found at i:33954400 original size:40 final size:42
Alignment explanation
Indices: 33954333--33954415 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
33954323 CATTGATTTT
* *
33954333 AATTTTTAACAAAATATTAATATTTTAAAATATTAA-TATTA
1 AATTTTAAACAAAATATTAATATTTTAAAATATCAATTATTA
* *
33954374 AATTTTAAATAAAATATTAATA-TTTAAATTATCAATTATTA
1 AATTTTAAACAAAATATTAATATTTTAAAATATCAATTATTA
33954415 A
1 A
33954416 TAACATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 11 0.30
41 26 0.70
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (42 bp):
AATTTTAAACAAAATATTAATATTTTAAAATATCAATTATTA
Found at i:33954573 original size:5 final size:5
Alignment explanation
Indices: 33954563--33954595 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
33954553 TAATATTAAA
33954563 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
33954596 AATTAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:33954576 original size:9 final size:9
Alignment explanation
Indices: 33954559--33954630 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
33954549 TTATTAATAT
33954559 TAAAA-AAA
1 TAAAATAAA
33954567 TAAAATAAA
1 TAAAATAAA
33954576 TAAAATAAAA
1 TAAAAT-AAA
33954586 TAAAATAAA
1 TAAAATAAA
*
33954595 -AAATTAATCA
1 TAAAATAA--A
**
33954605 TAATAATATT
1 TAA-AATAAA
*
33954615 TAAACTAAA
1 TAAAATAAA
33954624 TAAAATA
1 TAAAATA
33954631 TTAATATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
8 11 0.22
9 21 0.42
10 13 0.26
11 2 0.04
12 3 0.06
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAATAAA
Found at i:33954662 original size:128 final size:130
Alignment explanation
Indices: 33954445--33954706 Score: 331
Period size: 128 Copynumber: 2.0 Consensus size: 130
33954435 TTCCTATTTA
* * *
33954445 AAAACAAAATAAATTAAAAATAAATAAACATAATATCATTTAAATTATATAAACAATATTAATAA
1 AAAACAAAATAAAATAAAAATAAATAAACATAATATCATTTAAACTAAATAAACAATATTAATAA
33954510 TTAAATCATCAATTATTAACATTTTAAATACAAT-ACCAATTATTAATATTAAAAAAATAAAAT-
66 TTAAATCATCAATTATTAACATTTTAAATA-AATAACCAATTATTAAT-TT--AAAAATAAAATA
33954573 AAAT
127 AAAT
* * *
33954577 AAAATAAAATAAAAT-AAAA-AATTAATCATAATAAT-ATTTAAACTAAAT-AA-AATATTAATA
1 AAAACAAAATAAAATAAAAATAAATAAACATAAT-ATCATTTAAACTAAATAAACAATATTAATA
* * * * *
33954637 TTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATTATTAATTTAAAAATAAAATAAAA
65 ATTAAATCATCAATTATTAACATTTTAAATAAATAACCAATTATTAATTTAAAAATAAAATAAAA
33954702 T
130 T
33954703 AAAA
1 AAAA
33954707 NNNNNNNNNN
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
125 11 0.09
126 8 0.07
127 5 0.04
128 49 0.42
129 2 0.02
130 22 0.19
131 6 0.05
132 13 0.11
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (130 bp):
AAAACAAAATAAAATAAAAATAAATAAACATAATATCATTTAAACTAAATAAACAATATTAATAA
TTAAATCATCAATTATTAACATTTTAAATAAATAACCAATTATTAATTTAAAAATAAAATAAAAT
Found at i:33954699 original size:27 final size:27
Alignment explanation
Indices: 33954639--33954695 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
33954629 TATTAATATT
* * **
33954639 TAAATTATCTATTATTAATATTTTAAA
1 TAAATAATCAATTATTAATATTAAAAA
33954666 TAAATAATCAATTATTAAT-TTAAAAA
1 TAAATAATCAATTATTAATATTAAAAA
33954692 TAAA
1 TAAA
33954696 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (27 bp):
TAAATAATCAATTATTAATATTAAAAA
Found at i:33954781 original size:27 final size:27
Alignment explanation
Indices: 33954745--33954884 Score: 115
Period size: 27 Copynumber: 5.1 Consensus size: 27
33954735 ATTAATATTA
33954745 AAATTATCAATTATTAATATTTTAAAT
1 AAATTATCAATTATTAATATTTTAAAT
33954772 AAATTATCAATTATTAATATTTTAAAAAT
1 AAATTATCAATTATTAATATTTT--AAAT
* * * * ** **
33954801 AAAATA-AAATTAATCATAATAATATTT
1 AAATTATCAATTATTAAT-ATTTTAAAT
* *
33954828 AAATTATTAATTATTAATATTTTAATT
1 AAATTATCAATTATTAATATTTTAAAT
* *
33954855 AAATT-TTAGATTATTAATA-TTTAAAA
1 AAATTATCA-ATTATTAATATTTTAAAT
33954881 AAAT
1 AAAT
33954885 CTAATAAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
26 12 0.13
27 51 0.56
28 16 0.18
29 12 0.13
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (27 bp):
AAATTATCAATTATTAATATTTTAAAT
Found at i:33954936 original size:8 final size:8
Alignment explanation
Indices: 33954923--33954956 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
33954913 ATAAAAAATA
33954923 TTTTTATT
1 TTTTTATT
33954931 TTTTTA-T
1 TTTTTATT
33954938 TTTTTATTT
1 TTTTTA-TT
33954947 TTTTTATT
1 TTTTTATT
33954955 TT
1 TT
33954957 AAAATTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
8 10 0.42
9 7 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:33954943 original size:15 final size:16
Alignment explanation
Indices: 33954923--33954956 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33954913 ATAAAAAATA
33954923 TTTTTA-TTTTTTTAT
1 TTTTTATTTTTTTTAT
33954938 TTTTTATTTTTTTTAT
1 TTTTTATTTTTTTTAT
33954954 TTT
1 TTT
33954957 AAAATTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTATTTTTTTTAT
Found at i:33955067 original size:16 final size:16
Alignment explanation
Indices: 33955046--33955078 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33955036 AGTAATAATT
*
33955046 ATTTTATTTTATTTTC
1 ATTTTATTATATTTTC
33955062 ATTTTATTATATTTTC
1 ATTTTATTATATTTTC
33955078 A
1 A
33955079 CATGATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTATATTTTC
Found at i:33955777 original size:28 final size:31
Alignment explanation
Indices: 33955713--33955777 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
33955703 CATAGAATTT
*
33955713 TAATTATTTATTTAATTATAGTTTTATTGTAA
1 TAATTATTTA-TTAATTATAATTTTATTGTAA
*
33955745 TAATTATTTA-TAATTA-AATTTTTTTGTAA
1 TAATTATTTATTAATTATAATTTTATTGTAA
33955774 -AATT
1 TAATT
33955778 TCTTTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.13
29 11 0.35
30 6 0.19
32 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (31 bp):
TAATTATTTATTAATTATAATTTTATTGTAA
Found at i:33955787 original size:29 final size:30
Alignment explanation
Indices: 33955713--33955788 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
33955703 CATAGAATTT
*
33955713 TAATTATTTATTTAATTATAGTTTTATTGTAA
1 TAATTA-TT-TTTAATTATAATTTTATTGTAA
* *
33955745 TAATTATTTATAATTA-AATTTTTTTGTAA
1 TAATTATTTTTAATTATAATTTTATTGTAA
*
33955774 -AATTTCTTTTTAATT
1 TAA-TTATTTTTAATT
33955789 TGCAAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 21 0.55
30 7 0.18
31 2 0.05
32 6 0.16
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (30 bp):
TAATTATTTTTAATTATAATTTTATTGTAA
Found at i:33959436 original size:22 final size:23
Alignment explanation
Indices: 33959397--33959444 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
33959387 TTTTATGTAC
*
33959397 TTTACTTGATGACAATTTTATTT
1 TTTACTTGATGACAATTTAATTT
33959420 TTTAC-TGATGATC-ATTTAATTT
1 TTTACTTGATGA-CAATTTAATTT
33959442 TTT
1 TTT
33959445 TTCTAAGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTACTTGATGACAATTTAATTT
Found at i:33972950 original size:31 final size:31
Alignment explanation
Indices: 33972884--33972963 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
33972874 TATGTCATAT
* *
33972884 GGATTAAATTGAATAAAAATATATAATATAA
1 GGATTAAATTGAATAAAATTAGATAATATAA
*
33972915 GGATTAAATTGAATAAAATTGAGAT-GT-TAA
1 GGATTAAATTGAATAAAATT-AGATAATATAA
33972945 GGGATTAAATTGAA-AAAAT
1 -GGATTAAATTGAATAAAAT
33972964 ATTCTTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
30 8 0.18
31 33 0.75
32 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (31 bp):
GGATTAAATTGAATAAAATTAGATAATATAA
Found at i:33975566 original size:18 final size:17
Alignment explanation
Indices: 33975538--33975585 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
33975528 ACACATATAT
33975538 ATAATTATTTGAACAAAC
1 ATAATT-TTTGAACAAAC
* *
33975556 TTAATTGTTTGATCAAAC
1 ATAATT-TTTGAACAAAC
33975574 ATAATTTTTGAA
1 ATAATTTTTGAA
33975586 TAGATATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (17 bp):
ATAATTTTTGAACAAAC
Found at i:33982134 original size:335 final size:336
Alignment explanation
Indices: 33981524--33982869 Score: 2464
Period size: 335 Copynumber: 4.0 Consensus size: 336
33981514 GGGAAAAGGG
*
33981524 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATGTTGGTTGAT
1 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
* *
33981589 GACCAGTCACTTTCAAACCTTGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
66 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
33981654 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
131 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
* *
33981719 TATAAAAACTCAAAATAAGTTCAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
196 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
* **
33981784 TTTGCTTCCCCCATAAAAAGAGTT-AAAAGCATTATGGGTTGAGGAATTGTTAAACAAAGGACTC
261 TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
33981848 AAAGATGCATC
326 AAAGATGCATC
*
33981859 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAAAAGGGAGTTATATTGGTTGAT
1 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
*
33981924 GATCAGTCACTTTCAAACCTTGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
66 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
* *
33981989 ATTGTGTACCCTAAGGCC-AAGGGACCTTCATATGTAATAAACTGAAAATAATATGCATTAATGG
131 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAAT-AACTGAAAATAATATGCATTAATGG
* *
33982053 CTATAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCGT
195 CTACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCAT
* **
33982118 ATTTGCTTCCCCCATAAAAAGAGTT-AAAAGCATTATGGGTTGAGGAATTGTTAAACAAAGGACT
260 ATTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACT
33982182 CAAAGATGCATC
325 CAAAGATGCATC
33982194 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
1 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
33982259 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
66 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
33982324 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
131 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
*
33982389 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATATTTGGTAACTCAAATTAAGGAAGAGCATA
196 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
33982454 TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
261 TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
*
33982519 AACGATGCATC
326 AAAGATGCATC
33982530 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
1 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
33982595 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
66 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
33982660 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
131 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
* *
33982725 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATATTTGGTAACTCAAATTAAGGAAGAGCGTA
196 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
33982790 TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
261 TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
33982855 AAAGATGGCATC
326 AAAGAT-GCATC
33982867 AAA
1 AAA
33982870 TCCACATTCA
Statistics
Matches: 987, Mismatches: 20, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
334 19 0.02
335 565 0.57
336 395 0.40
337 8 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (336 bp):
AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
AAAGATGCATC
Found at i:33982804 original size:671 final size:672
Alignment explanation
Indices: 33981524--33982869 Score: 2482
Period size: 671 Copynumber: 2.0 Consensus size: 672
33981514 GGGAAAAGGG
*
33981524 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATGTTGGTTGAT
1 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
*
33981589 GACCAGTCACTTTCAAACCTTGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
66 GACCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
33981654 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
131 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
* *
33981719 TATAAAAACTCAAAATAAGTTCAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
196 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
* **
33981784 TTTGCTTCCCCCATAAAAAGAGTTAAAAGCATTATGGGTTGAGGAATTGTTAAACAAAGGACTCA
261 TTTGCTTCCCCCATAAAAAGAGTTAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTCA
33981849 AAGATGCATCAAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAAAAGGGAGTTAT
326 AAGATGCATCAAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAAAAGGGAGTTAT
*
33981914 ATTGGTTGATGATCAGTCACTTTCAAACCTTGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGG
391 ATTGGTTGATGATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGG
*
33981979 GCTATTCCCCATTGTGTACCCTAAGGCCAAGGGACCTTCATATGTAATAAACTGAAAATAATATG
456 GCTATTCCCCATCGTGTACCCTAAGGCCAAGGGACCTTCATATGTAATAAACTGAAAATAATATG
*
33982044 CATTAATGGCTATAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAG
521 CATTAATGGCTACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAG
* **
33982109 GAAGAGCGTATTTGCTTCCCCCATAAAAAGAGTT-AAAAGCATTATGGGTTGAGGAATTGTTAAA
586 GAAGAGCGTATTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAA
33982173 CAAAGGACTCAAAGAT-GCATC
651 CAAAGGACTCAAAGATGGCATC
33982194 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
1 AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
*
33982259 GATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
66 GACCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
33982324 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
131 ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
*
33982389 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATATTTGGTAACTCAAATTAAGGAAGAGCATA
196 TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
33982454 TTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
261 TTTGCTTCCCCCATAAAAAGAGTT-AAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTC
* *
33982519 AACGATGCATCAAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTA
325 AAAGATGCATCAAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAAAAGGGAGTTA
33982584 TATTGGTTGATGATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAG
390 TATTGGTTGATGATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAG
*
33982649 GGCTATTCCCCATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAAT-AACTGAAAATAATA
455 GGCTATTCCCCATCGTGTACCCTAAGGCC-AAGGGACCTTCATATGTAATAAACTGAAAATAATA
*
33982713 TGCATTAATGGCTACAAAAACTCAAAATAAGTTAAATAGTGTTTTATATTTGGTAACTCAAATTA
519 TGCATTAATGGCTACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTA
33982778 AGGAAGAGCGTATTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTA
584 AGGAAGAGCGTATTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTA
33982843 AACAAAGGACTCAAAGATGGCATC
649 AACAAAGGACTCAAAGATGGCATC
33982867 AAA
1 AAA
33982870 TCCACATTCA
Statistics
Matches: 653, Mismatches: 19, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
670 278 0.43
671 305 0.47
672 62 0.09
673 8 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (672 bp):
AAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAACAGGGAGTTATATTGGTTGAT
GACCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGGGCTATTCCCC
ATCGTGTACCCTAAGGCCGAGGGGACCTTCATATGTAATAACTGAAAATAATATGCATTAATGGC
TACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAGGAAGAGCATA
TTTGCTTCCCCCATAAAAAGAGTTAAAAGCACTATGGGCAGAGGAATTGTTAAACAAAGGACTCA
AAGATGCATCAAAAGGACCAACAGGATCATAGAAAACAATTGTCCCACCAAAAAAAGGGAGTTAT
ATTGGTTGATGATCAGTCACTTTCAAACCTAGGGGAGTGGTGGTGATGTCTAAGAAATGGGGAGG
GCTATTCCCCATCGTGTACCCTAAGGCCAAGGGACCTTCATATGTAATAAACTGAAAATAATATG
CATTAATGGCTACAAAAACTCAAAATAAGTTAAATAGTGTTTTATAATTGGTAACTCAAATTAAG
GAAGAGCGTATTTGCTTCCCCCATAAAAAGAGTTAAAAAGCACTATGGGCAGAGGAATTGTTAAA
CAAAGGACTCAAAGATGGCATC
Found at i:33993484 original size:15 final size:16
Alignment explanation
Indices: 33993464--33993498 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
33993454 TAAATGTGTT
33993464 TATATTTAAAA-TATA
1 TATATTTAAAAGTATA
33993479 TATA-TTAAAAGTATA
1 TATATTTAAAAGTATA
33993494 TATAT
1 TATAT
33993499 AATAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TATATTTAAAAGTATA
Found at i:33994667 original size:15 final size:14
Alignment explanation
Indices: 33994647--33994681 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
33994637 AATAATTATT
33994647 ATATATATACTTTTA
1 ATATATATA-TTTTA
33994662 ATATATATATTTTA
1 ATATATATATTTTA
33994676 A-ATATA
1 ATATATA
33994682 AACATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 6 0.30
15 9 0.45
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATATATATTTTA
Found at i:33994924 original size:39 final size:40
Alignment explanation
Indices: 33994881--33994964 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 40
33994871 AACATTTCTT
* * * *
33994881 TTTAACCAAAAA-TCTATGTTACCTCCT-TTGTTTTGCAAG
1 TTTAACCAAAAACT-TATATGACCTCCTAATGTTTTGCAAA
33994920 TTTAA-CAAAAACTTATATGACCTCCTAATGTTTTGCAAA
1 TTTAACCAAAAACTTATATGACCTCCTAATGTTTTGCAAA
33994959 TTTAAC
1 TTTAAC
33994965 ATTTCTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
38 17 0.45
39 21 0.55
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (40 bp):
TTTAACCAAAAACTTATATGACCTCCTAATGTTTTGCAAA
Found at i:33995623 original size:22 final size:22
Alignment explanation
Indices: 33995554--33995623 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
33995544 TAGGAATTAG
33995554 ATTCAATCATAACATGAAACAA
1 ATTCAATCATAACATGAAACAA
* * *
33995576 ATTTGTAAT-ATCAA-AGGAATCAA
1 A-TT-CAATCAT-AACATGAAACAA
33995599 ATTCAATCATAACATGAAACAA
1 ATTCAATCATAACATGAAACAA
33995621 ATT
1 ATT
33995624 AAAAAGACGA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
21 5 0.14
22 15 0.41
23 12 0.32
24 5 0.14
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.27
Consensus pattern (22 bp):
ATTCAATCATAACATGAAACAA
Found at i:33996095 original size:29 final size:29
Alignment explanation
Indices: 33996062--33996128 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
33996052 AATTTGCACT
*
33996062 ACTTGAAATCAAGT-ATTAGCGTGATTTTA
1 ACTTGAAATCAA-TAATTAGCATGATTTTA
* **
33996091 ACTTGAAGTTGATAATTAGCATGATTTTA
1 ACTTGAAATCAATAATTAGCATGATTTTA
*
33996120 ACTTCAAAT
1 ACTTGAAAT
33996129 TTATTTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (29 bp):
ACTTGAAATCAATAATTAGCATGATTTTA
Found at i:33996408 original size:10 final size:10
Alignment explanation
Indices: 33996378--33996437 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
33996368 AGACACCTAA
33996378 AAAATA-AAT
1 AAAATATAAT
* *
33996387 AAAAAAT-TT
1 AAAATATAAT
*
33996396 AAATTATAAT
1 AAAATATAAT
*
33996406 AAAATAAAAT
1 AAAATATAAT
33996416 AAAATATAA-
1 AAAATATAAT
*
33996425 AAAATAAAAT
1 AAAATATAAT
33996435 AAA
1 AAA
33996438 GAAAATAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
9 19 0.49
10 20 0.51
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATATAAT
Found at i:33996413 original size:5 final size:5
Alignment explanation
Indices: 33996403--33996437 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
33996393 TTTAAATTAT
*
33996403 AATAA AATAA AATAA AATAT AA-AA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
33996438 GAAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 24 0.89
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:33996428 original size:19 final size:20
Alignment explanation
Indices: 33996378--33996437 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
33996368 AGACACCTAA
**
33996378 AAAATA-AATAAAA-AATTT
1 AAAATATAATAAAATAAAAT
*
33996396 AAATTATAATAAAATAAAAT
1 AAAATATAATAAAATAAAAT
33996416 AAAATATAA-AAAATAAAAT
1 AAAATATAATAAAATAAAAT
33996435 AAA
1 AAA
33996438 GAAAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 5 0.14
19 20 0.56
20 11 0.31
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATAATAAAATAAAAT
Found at i:33996430 original size:14 final size:14
Alignment explanation
Indices: 33996411--33996445 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
33996401 ATAATAAAAT
33996411 AAAATAAAATATAA-
1 AAAATAAAATA-AAG
33996425 AAAATAAAATAAAG
1 AAAATAAAATAAAG
33996439 AAAATAA
1 AAAATAA
33996446 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAATAAAATAAAG
Found at i:33996451 original size:24 final size:24
Alignment explanation
Indices: 33996403--33996453 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
33996393 TTTAAATTAT
*
33996403 AATAAAATAAAATAAAATATAAAA
1 AATAAAATAAAAGAAAATATAAAA
33996427 AATAAAAT-AAAGAAAATAATTAAAA
1 AATAAAATAAAAGAAAAT-A-TAAAA
33996452 AA
1 AA
33996454 AAGAAGAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 9 0.38
25 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (24 bp):
AATAAAATAAAAGAAAATATAAAA
Found at i:33997742 original size:8 final size:8
Alignment explanation
Indices: 33997725--33997762 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
33997715 ATACGGATCT
33997725 AAAT-AAA
1 AAATAAAA
33997732 AAATAAAA
1 AAATAAAA
33997740 AAATAATAA
1 AAATAA-AA
*
33997749 AAATAAAT
1 AAATAAAA
33997757 AAATAA
1 AAATAA
33997763 TCCATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 4 0.14
8 16 0.57
9 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAATAAAA
Found at i:33997752 original size:17 final size:17
Alignment explanation
Indices: 33997730--33997763 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33997720 GATCTAAATA
33997730 AAAAATAAAAAAATAAT
1 AAAAATAAAAAAATAAT
*
33997747 AAAAATAAATAAATAAT
1 AAAAATAAAAAAATAAT
33997764 CCATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATAAAAAAATAAT
Found at i:34005707 original size:29 final size:29
Alignment explanation
Indices: 34005662--34005719 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
34005652 GCAGGAAGTT
34005662 AGAATGGAATTTAAGGATGTCAGCCTAAA
1 AGAATGGAATTTAAGGATGTCAGCCTAAA
*
34005691 AGAATGGAATTTGAGGATGTCAGCCTAAA
1 AGAATGGAATTTAAGGATGTCAGCCTAAA
34005720 CGGGACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (29 bp):
AGAATGGAATTTAAGGATGTCAGCCTAAA
Found at i:34006568 original size:62 final size:62
Alignment explanation
Indices: 34006496--34006791 Score: 472
Period size: 62 Copynumber: 4.8 Consensus size: 62
34006486 AATTTAATTG
*
34006496 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATCTTAATTTTGTTT
1 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
* * *
34006558 AAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTATTT
1 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
* *
34006620 AAATCGAACCTGTTGTGAGATAAGTCGAGCCTAGATTAAGTCTAGGAATTTCAA--TT-TTT
1 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
* * *
34006679 AAATCGAACTTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTGTTT
1 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
* *
34006741 AAATCAAACCTGTTGTGAGATAGGTCGAGCCTATATTAAGTCTAGGAATTT
1 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTT
34006792 NNNNNNNNNN
Statistics
Matches: 213, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
59 52 0.24
60 2 0.01
61 2 0.01
62 157 0.74
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (62 bp):
AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
Found at i:34006742 original size:121 final size:122
Alignment explanation
Indices: 34006486--34006791 Score: 474
Period size: 121 Copynumber: 2.5 Consensus size: 122
34006476 AACATTAAGG
* *
34006486 AATTTAATTGAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATCTTAAT
1 AATTTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAAT-TTAA-
*
34006551 TTTGTTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTT
64 TTTGTTTAAATCAAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTT
*
34006610 AATTTTATTTAAATCGAACCTGTTGTGAGATAAGTCGAGCCTAGATTAAGTCTAGGAATTTCAA-
1 AATTTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTT-AAT
* *
34006674 TT-TTTAAATCGAACTTATTGTGAGATAGGTCGAGCCTAGATTAAGTCT-AGAAATTTT
65 TTGTTTAAATCAAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAG-AATTTT
* * *
34006731 AATTTTGTTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTATATTAAGTCTAGGAATTT
1 AATTTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTT
34006792 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
120 2 0.01
121 106 0.62
122 2 0.01
123 2 0.01
124 58 0.34
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (122 bp):
AATTTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTAATT
TGTTTAAATCAAACCTATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTT
Found at i:34012003 original size:21 final size:22
Alignment explanation
Indices: 34011970--34012037 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 22
34011960 CGATGAACAG
*
34011970 TTCTTCTTC-TTCTCCTTCTTT
1 TTCTCCTTCTTTCTCCTTCTTT
34011991 TTCTCC-TCTTTCTTCCTCTGCTTT
1 TTCTCCTTCTTTC-TCCT-T-CTTT
*
34012015 TCCTCCTTCTTTCT-C-TCTTT
1 TTCTCCTTCTTTCTCCTTCTTT
34012035 TTC
1 TTC
34012038 AGACTCCGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
20 8 0.21
21 9 0.23
22 4 0.10
23 2 0.05
24 10 0.26
25 6 0.15
ACGTcount: A:0.00, C:0.37, G:0.01, T:0.62
Consensus pattern (22 bp):
TTCTCCTTCTTTCTCCTTCTTT
Found at i:34014961 original size:75 final size:75
Alignment explanation
Indices: 34014799--34014980 Score: 204
Period size: 75 Copynumber: 2.4 Consensus size: 75
34014789 TATTGGAGAA
* * * * *
34014799 TTCTCTTGGTTACTAGTGTTCGCAGCTTCATCAGGGGCAATAGCTACATCCTGCGCTACGAAGGA
1 TTCTCTTGGTTATTACTGTTCGCAGCTTCATCAGAGGCAATAACTACAACCTGCGCTACGAAGGA
* * *
34014864 GAGAGTAGGG
66 GAGAGGAAGC
* ** * *
34014874 TTCTCTTGGTTATTATTGTTCGCAGCTTCATCAGAGTTAGTAACTACAACCTGTGCTAC-AAGGG
1 TTCTCTTGGTTATTACTGTTCGCAGCTTCATCAGAGGCAATAACTACAACCTGCGCTACGAA-GG
34014938 AGAGAGGAAGC
65 AGAGAGGAAGC
* **
34014949 TTCTCTTGGTTATTGCTGTTCGCTCCTTCATC
1 TTCTCTTGGTTATTACTGTTCGCAGCTTCATC
34014981 CATCTGAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 2 0.02
75 88 0.98
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (75 bp):
TTCTCTTGGTTATTACTGTTCGCAGCTTCATCAGAGGCAATAACTACAACCTGCGCTACGAAGGA
GAGAGGAAGC
Found at i:34015882 original size:53 final size:53
Alignment explanation
Indices: 34015791--34015891 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
34015781 CTTTCTCTAG
* * *
34015791 ATTAAACTAAAATTTTACTATAAATTATGAAAATTAATATTTTAAATTTTAAA
1 ATTAAACTAAAATTTTAATAAAAATTATGAAAATTAATATTTAAAATTTTAAA
*
34015844 ATTAAATTAAAATTTTAATAAAAATTAT-AATACA-TAATATTTAAAATT
1 ATTAAACTAAAATTTTAATAAAAATTATGAA-A-ATTAATATTTAAAATT
34015892 AAATTAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 2 0.05
53 39 0.93
54 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (53 bp):
ATTAAACTAAAATTTTAATAAAAATTATGAAAATTAATATTTAAAATTTTAAA
Found at i:34016010 original size:27 final size:27
Alignment explanation
Indices: 34015956--34016010 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34015946 AAATAATGGT
* * *
34015956 ATTAATTATAAATTATTAATATTTTAA
1 ATTAAATATAAATTATTAACATTCTAA
*
34015983 ATTAAATATAAATTATTAGCATTCTAA
1 ATTAAATATAAATTATTAACATTCTAA
34016010 A
1 A
34016011 AATAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTAAATATAAATTATTAACATTCTAA
Found at i:34016020 original size:27 final size:27
Alignment explanation
Indices: 34015962--34016021 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
34015952 TGGTATTAAT
* * *
34015962 TATAAATTATTAATATTTTAAATTAAA
1 TATAAATTATTAACATTTAAAAATAAA
*
34015989 TATAAATTATTAGCATTCTAAAAATAAA
1 TATAAATTATTAACATT-TAAAAATAAA
34016017 -ATAAA
1 TATAAA
34016022 ATAAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (27 bp):
TATAAATTATTAACATTTAAAAATAAA
Found at i:34016112 original size:27 final size:27
Alignment explanation
Indices: 34016077--34016128 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34016067 TTAATGTTTT
*
34016077 AATTGTAAAATATTAATACTTTAAATG
1 AATTATAAAATATTAATACTTTAAATG
* *
34016104 AATTATAAATTATTAATATTTTAAA
1 AATTATAAAATATTAATACTTTAAA
34016129 CTATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
AATTATAAAATATTAATACTTTAAATG
Found at i:34016501 original size:171 final size:174
Alignment explanation
Indices: 34016249--34016573 Score: 455
Period size: 171 Copynumber: 1.9 Consensus size: 174
34016239 ACAAAAGATA
*
34016249 TTTTTGTTTTTTTTTAGGTCACATATTCCTTTGTTATTTCAAAACTACTTTTATGAACCAAATAT
1 TTTTTGTTTTTTTTTA-GTCACATATTCCTTTGATATTTCAAAACTACTTTTATGAACCAAATAT
* * *
34016314 TAGAAAAAGTCATAATAGTCATTTCTACCCTATTCCATTTCATGAACCAAAGTATATAATAATT-
65 TAGAAAAAATCATAATAATCATTTCTACCCTATTCCATTTCATGAACCAAAATATATAATAATTA
*
34016378 TTATTATCTTA-TTTTATTCTCACGAAACAGAATAACAAAAGGCG
130 TTATTATCTAATTTTTATTCTCACGAAACAGAATAACAAAAGGCG
* ** *
34016422 TTTTTGTTTTTTTTTA-TCACATATTCTTTTGATA-TTCTAAAGTTACTTTTA-GCAATCAAATA
1 TTTTTGTTTTTTTTTAGTCACATATTCCTTTGATATTTC-AAAACTACTTTTATG-AACCAAATA
* * *
34016484 TTA-AAATAAATCATAATAATCATTTCTATCCTATTCTATTTCATGAATCAAAATATATAATAAT
64 TTAGAAA-AAATCATAATAATCATTTCTACCCTATTCCATTTCATGAACCAAAATATATAATAAT
*
34016548 TATTCTTATCTAATTTTTATTCTCAC
128 TATTATTATCTAATTTTTATTCTCAC
34016574 AAAATAACTA
Statistics
Matches: 134, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
170 7 0.05
171 90 0.67
172 9 0.07
173 28 0.21
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.45
Consensus pattern (174 bp):
TTTTTGTTTTTTTTTAGTCACATATTCCTTTGATATTTCAAAACTACTTTTATGAACCAAATATT
AGAAAAAATCATAATAATCATTTCTACCCTATTCCATTTCATGAACCAAAATATATAATAATTAT
TATTATCTAATTTTTATTCTCACGAAACAGAATAACAAAAGGCG
Found at i:34017984 original size:35 final size:35
Alignment explanation
Indices: 34017938--34018007 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
34017928 TATGATTTTC
34017938 AACAAAGTATAATTAAGTGAAGCTAAATGGCATAG
1 AACAAAGTATAATTAAGTGAAGCTAAATGGCATAG
34017973 AACAAAGTATAATTAAGTGAAGCTAAATGGCATAG
1 AACAAAGTATAATTAAGTGAAGCTAAATGGCATAG
34018008 GTGAAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.23
Consensus pattern (35 bp):
AACAAAGTATAATTAAGTGAAGCTAAATGGCATAG
Found at i:34023861 original size:5 final size:5
Alignment explanation
Indices: 34023851--34024016 Score: 56
Period size: 5 Copynumber: 32.4 Consensus size: 5
34023841 TAATGTCATA
*
34023851 TATTT TATTTT TATTTT TATTT ATAATTT TA-TA TATTT TATTT T-TATT
1 TATTT TA-TTT TA-TTT TATTT -T-ATTT TATTT TATTT TATTT TAT-TT
* * * * * * * **
34023899 TCTTT AATAT AATTT T-TTA TATTAT ATATTT TATTT TAATT TCTTT TA-CC
1 TATTT TATTT TATTT TATTT TATT-T -TATTT TATTT TATTT TATTT TATTT
* * * *
34023949 TATAT TATGTA AATTT TAATT TATTT TATTT TATTT T-TTT TAATTTT
1 TATTT TAT-TT TATTT TATTT TATTT TATTT TATTT TATTT T-A-TTT
* *
34023996 TATAT TA-TA TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TA
34024017 GTTAAAACAT
Statistics
Matches: 118, Mismatches: 28, Indels: 30
0.67 0.16 0.17
Matches are distributed among these distances:
4 15 0.13
5 73 0.62
6 18 0.15
7 12 0.10
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (5 bp):
TATTT
Found at i:34023864 original size:6 final size:6
Alignment explanation
Indices: 34023853--34023899 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
34023843 ATGTCATATA
*
34023853 TTTTAT TTTTAT TTTTAT TTATAAT TTTATAT ATTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TT-TTAT TTT-TAT -TTTTAT TTTTAT TT
34023900 CTTTAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 23 0.64
7 10 0.28
8 3 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:34023872 original size:33 final size:33
Alignment explanation
Indices: 34023835--34023899 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
34023825 CTCTTTCATA
*
34023835 TATTTTTAATGTCATATATTTTATTTTTATTTT
1 TATTTATAATGTCATATATTTTATTTTTATTTT
* *
34023868 TATTTATAATTTTATATATTTTATTTTTATTT
1 TATTTATAATGTCATATATTTTATTTTTATTT
34023900 CTTTAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (33 bp):
TATTTATAATGTCATATATTTTATTTTTATTTT
Found at i:34023920 original size:34 final size:34
Alignment explanation
Indices: 34023848--34023935 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
34023838 TTTTAATGTC
*
34023848 ATATATTTTATTTTTA-TTTTTATTTATAATTTT
1 ATATATTTTATTTTTATTTTTTATATATAATTTT
34023881 ATATATTTTATTTTTATTTCTTTA-ATATAATTTT
1 ATATATTTTATTTTTATTT-TTTATATATAATTTT
* *
34023915 TTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
34023936 AATTTCTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 16 0.33
34 21 0.43
35 12 0.24
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (34 bp):
ATATATTTTATTTTTATTTTTTATATATAATTTT
Found at i:34024010 original size:21 final size:20
Alignment explanation
Indices: 34023968--34024015 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
34023958 TAAATTTTAA
* * *
34023968 TTTA-TTTTATTTTATTTTT
1 TTTATTTTTATATTATATAT
34023987 TTTAATTTTTATATTATATAT
1 TTT-ATTTTTATATTATATAT
34024008 TTTATTTT
1 TTTATTTT
34024016 AGTTAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 6 0.25
21 15 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTATTTTTATATTATATAT
Found at i:34027908 original size:3 final size:3
Alignment explanation
Indices: 34027893--34027930 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
34027883 TCTAGAATCA
*
34027893 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
34027931 GTACTCCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:34031570 original size:26 final size:26
Alignment explanation
Indices: 34031541--34031595 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
34031531 ATAGAATGTG
34031541 TAAGAAAATATCAACTTTTGTGTTGA
1 TAAGAAAATATCAACTTTTGTGTTGA
34031567 TAAGAAAATATCAACTTTTGTGTTGA
1 TAAGAAAATATCAACTTTTGTGTTGA
34031593 TAA
1 TAA
34031596 CTTTTACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (26 bp):
TAAGAAAATATCAACTTTTGTGTTGA
Found at i:34031661 original size:2 final size:2
Alignment explanation
Indices: 34031654--34031678 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34031644 GGTTAAGTTC
34031654 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34031679 TAGTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34042171 original size:31 final size:31
Alignment explanation
Indices: 34042136--34042196 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
34042126 TTTAAAATGA
34042136 CTATTACTATCTCT-CTCATAGTATTAGCTAG
1 CTATTACTATCTCTCCT-ATAGTATTAGCTAG
*
34042167 CTATTACTATCTCTCCTATGGTATTAGCTA
1 CTATTACTATCTCTCCTATAGTATTAGCTA
34042197 TTCCTCACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.43
Consensus pattern (31 bp):
CTATTACTATCTCTCCTATAGTATTAGCTAG
Found at i:34042723 original size:22 final size:21
Alignment explanation
Indices: 34042679--34042718 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
34042669 ATTAATTTTT
34042679 ATTTATAATTTAAATATTAATA
1 ATTTATAATTT-AATATTAATA
34042701 ATTTATAATTT-ATATTAA
1 ATTTATAATTTAATATTAA
34042719 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATAATTTAATATTAATA
Found at i:34042728 original size:28 final size:28
Alignment explanation
Indices: 34042671--34042729 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
34042661 TTTTAAATAT
* * **
34042671 TAATTTTTATTTATAATTTAAATATTAA
1 TAATTTTAATTTATAATTAAAATAAAAA
34042699 TAATTTATAATTTAT-ATTAAAATAAAAA
1 TAATTT-TAATTTATAATTAAAATAAAAA
34042727 TAA
1 TAA
34042730 ATAATCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TAATTTTAATTTATAATTAAAATAAAAA
Found at i:34045986 original size:34 final size:34
Alignment explanation
Indices: 34045899--34046006 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 34
34045889 TAATGAGAAC
* *
34045899 AACTAGAATAAATAAAACATTACTTCACACAAA-
1 AACTAGAACAAGTAAAACATTACTTCACACAAAT
* *
34045932 AGTACTAGAACAAGTGAAACATTACTTCATACAAAT
1 A--ACTAGAACAAGTAAAACATTACTTCACACAAAT
34045968 AACTA-ATACAAGTAAAACAATTACTTCACACAGAAT
1 AACTAGA-ACAAGTAAAAC-ATTACTTCACACA-AAT
34046004 AAC
1 AAC
34046007 CACTTCAGAC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
33 2 0.03
34 14 0.22
35 40 0.63
36 7 0.11
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (34 bp):
AACTAGAACAAGTAAAACATTACTTCACACAAAT
Found at i:34047241 original size:14 final size:14
Alignment explanation
Indices: 34047206--34047250 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
34047196 ATAATTGATA
*
34047206 ATTTAAATATTAAT
1 ATTTTAATATTAAT
34047220 ATTTT-AT-TT-AT
1 ATTTTAATATTAAT
34047231 ATTTTAATATTAAT
1 ATTTTAATATTAAT
34047245 ATTTTA
1 ATTTTA
34047251 TTAAAAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 7 0.26
12 4 0.15
13 4 0.15
14 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAATATTAAT
Found at i:34047252 original size:19 final size:19
Alignment explanation
Indices: 34047174--34047252 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 19
34047164 TAAATAGGAA
*
34047174 TAAT-TTATAATTTATTTTAT
1 TAATATTAT-ATTTATATT-T
* *
34047194 TAATAATTGATAATTTAAATAT
1 TAAT-ATT-AT-ATTTATATTT
*
34047216 TAATATTTTATTTATATTT
1 TAATATTATATTTATATTT
34047235 TAATATTAATATTT-TATT
1 TAATATT-ATATTTATATT
34047253 AAAAGTTGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
19 19 0.40
20 10 0.21
21 3 0.06
22 7 0.15
23 9 0.19
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TAATATTATATTTATATTT
Found at i:34055448 original size:15 final size:15
Alignment explanation
Indices: 34055428--34055464 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
34055418 AATTTATTTT
34055428 AATTATTAAATAAAA
1 AATTATTAAATAAAA
34055443 AATTATT--ATAAAA
1 AATTATTAAATAAAA
*
34055456 AATCATTAA
1 AATTATTAA
34055465 GAGAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 12 0.63
15 7 0.37
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTATTAAATAAAA
Found at i:34055924 original size:16 final size:16
Alignment explanation
Indices: 34055903--34055934 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34055893 TTATTATGTG
34055903 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
34055919 AAAATAAAATAGAATA
1 AAAATAAAATAAAATA
34055935 GTTATTACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:34056044 original size:8 final size:8
Alignment explanation
Indices: 34056031--34056060 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
34056021 TTGAAATAAG
34056031 AAAAAAAT
1 AAAAAAAT
34056039 -AAAAAAT
1 AAAAAAAT
34056046 AAAAAAAT
1 AAAAAAAT
34056054 AAAAAAA
1 AAAAAAA
34056061 CTCTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:34056051 original size:15 final size:15
Alignment explanation
Indices: 34056031--34056059 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34056021 TTGAAATAAG
34056031 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
34056046 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
34056060 ACTCTTTATT
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:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:34056154 original size:25 final size:26
Alignment explanation
Indices: 34056109--34056178 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
34056099 TTTATTTTTG
*
34056109 AATATTAATAATTTATAATTTATTGAT
1 AATATTAATAATTAAT-ATTTATTGAT
* *
34056136 AATATTAAT-ATTAATATTTCTTTAT
1 AATATTAATAATTAATATTTATTGAT
*
34056161 AAT-TTAATCATTAATATT
1 AATATTAATAATTAATATT
34056179 ATAAAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 5 0.13
25 20 0.51
26 5 0.13
27 9 0.23
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (26 bp):
AATATTAATAATTAATATTTATTGAT
Found at i:34056280 original size:27 final size:27
Alignment explanation
Indices: 34056240--34056295 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
34056230 TTTTATTTTA
* *
34056240 TATTTTAAATATTAATAATTTG-TAATT
1 TATTTAAAAGATTAATAA-TTGATAATT
*
34056267 TATTTAAAAGATTATTAATTGATAATT
1 TATTTAAAAGATTAATAATTGATAATT
34056294 TA
1 TA
34056296 AATATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (27 bp):
TATTTAAAAGATTAATAATTGATAATT
Found at i:34058707 original size:15 final size:15
Alignment explanation
Indices: 34058689--34058750 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
34058679 TGAAGAAGTG
34058689 GAGGTAGAAGAAGAA
1 GAGGTAGAAGAAGAA
*
34058704 GAGGAAGAA-ATAGAA
1 GAGGTAGAAGA-AGAA
**
34058719 GAGG-AGGTGGAAGAA
1 GAGGTA-GAAGAAGAA
*
34058734 GAGGTTGAAGAAGAA
1 GAGGTAGAAGAAGAA
34058749 GA
1 GA
34058751 TCAAGATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.42, T:0.08
Consensus pattern (15 bp):
GAGGTAGAAGAAGAA
Found at i:34064497 original size:12 final size:11
Alignment explanation
Indices: 34064474--34064520 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
34064464 ATTTCCATTG
*
34064474 TTCTCATCTTC
1 TTCTCTTCTTC
34064485 TTCTGCTTCTTC
1 TTCT-CTTCTTC
34064497 TTCTC--CTTC
1 TTCTCTTCTTC
34064506 TTCTCTTTCTTC
1 TTCTC-TTCTTC
34064518 TTC
1 TTC
34064521 ATTATCATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 9 0.29
11 5 0.16
12 17 0.55
ACGTcount: A:0.02, C:0.36, G:0.02, T:0.60
Consensus pattern (11 bp):
TTCTCTTCTTC
Found at i:34068753 original size:26 final size:22
Alignment explanation
Indices: 34068696--34068746 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
34068686 TTGAGTAAGG
* *
34068696 CTTCTTCTCGAACACGTTCATT
1 CTTCTTTTCTAACACGTTCATT
34068718 CTTCTTTTCTAACACGTTCATT
1 CTTCTTTTCTAACACGTTCATT
34068740 CTTCTTT
1 CTTCTTT
34068747 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.06, T:0.49
Consensus pattern (22 bp):
CTTCTTTTCTAACACGTTCATT
Found at i:34080727 original size:2 final size:2
Alignment explanation
Indices: 34080720--34080757 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34080710 AACTTCCTCC
34080720 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
34080758 TTATATTACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:34081144 original size:18 final size:18
Alignment explanation
Indices: 34081103--34081146 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34081093 AAAAACTCTT
* *
34081103 AAAAAAAAGTAAATTTTT
1 AAAAAAAAGTAAAATTTA
**
34081121 TTAAAAAAGTAAAATTTA
1 AAAAAAAAGTAAAATTTA
34081139 AAAAAAAA
1 AAAAAAAA
34081147 ACTTTTGGAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAAAAAAGTAAAATTTA
Found at i:34081956 original size:216 final size:217
Alignment explanation
Indices: 34081582--34082017 Score: 649
Period size: 216 Copynumber: 2.0 Consensus size: 217
34081572 TGCAGAGAAT
* *
34081582 TTCTGTTCTACGTCTCGATTGTTCACACATTAACATCTTCGATCACGATAGGTTATTTGACATGT
1 TTCTGTTCTACGTCTCGATTGTTCACACATTAACATATTCGATCACAATAGGTTATTTGACATGT
*
34081647 CAATTTTTACGTATTTTTATAATATCATTTATAAATTAACTATTTATGACGTGTTTCATTACGTT
66 CAATTTTTACGTATTCTTATAATATCATTTATAAATTAACTATTTATGACGTGTTTCATTACGTT
*
34081712 TTTTATTTATCACGTGTTTTGTTTCGTTA-ATAATTTTGTTAAAGGTATTAAGATTTTTTTAATA
131 TTTTATCTATCACGTGTTTTGTTTCGTTATATAATTTTGTTAAAGGTATTAAGATTTTTTTAATA
* *
34081776 GTTTGAAATTTGATAATATAAA
196 GTTAGAAAATTGATAATATAAA
* * * * *
34081798 TTCTGTTCTACGTCTTGATTGTTCACATATTAGCATATTCGGTCACAATAGTTTATTTGACATGT
1 TTCTGTTCTACGTCTCGATTGTTCACACATTAACATATTCGATCACAATAGGTTATTTGACATGT
* * * * * *
34081863 TAATTTTTACGTATTCTTATAATATTATTTGTAAATTAATTATTTATGATGTGTTTCATTATGTT
66 CAATTTTTACGTATTCTTATAATATCATTTATAAATTAACTATTTATGACGTGTTTCATTACGTT
* * * * *
34081928 TTTTATCTATCACGTGTTTTGTTTCGTTATTATTATTTTTTTAGAGGTTTTAGGATTTTTTTAAT
131 TTTTATCTATCACGTGTTTTGTTTCGTTA-TATAATTTTGTTAAAGGTATTAAGATTTTTTTAAT
*
34081993 AGTTAGAAAATTGATGATATAAA
195 AGTTAGAAAATTGATAATATAAA
34082016 TT
1 TT
34082018 TGACATCATC
Statistics
Matches: 195, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
216 144 0.74
218 51 0.26
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.50
Consensus pattern (217 bp):
TTCTGTTCTACGTCTCGATTGTTCACACATTAACATATTCGATCACAATAGGTTATTTGACATGT
CAATTTTTACGTATTCTTATAATATCATTTATAAATTAACTATTTATGACGTGTTTCATTACGTT
TTTTATCTATCACGTGTTTTGTTTCGTTATATAATTTTGTTAAAGGTATTAAGATTTTTTTAATA
GTTAGAAAATTGATAATATAAA
Found at i:34083619 original size:44 final size:44
Alignment explanation
Indices: 34083566--34083649 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
34083556 AATAAATTTT
34083566 TTTTTGAATAAAATTATTTTGAATGAAACCTCTTCATATTAAAC
1 TTTTTGAATAAAATTATTTTGAATGAAACCTCTTCATATTAAAC
34083610 TTTTTGAATAAAATTATTTTGAATGAAACCTCTTCATATT
1 TTTTTGAATAAAATTATTTTGAATGAAACCTCTTCATATT
34083650 CAAGCGCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (44 bp):
TTTTTGAATAAAATTATTTTGAATGAAACCTCTTCATATTAAAC
Found at i:34089089 original size:19 final size:19
Alignment explanation
Indices: 34089065--34089112 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
34089055 TATTGTCATG
34089065 GAAAAACATTACCTAGATA
1 GAAAAACATTACCTAGATA
34089084 GAAAAACATTACCTAGATA
1 GAAAAACATTACCTAGATA
34089103 GAAAAACATT
1 GAAAAACATT
34089113 GTCTGCTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (19 bp):
GAAAAACATTACCTAGATA
Found at i:34091259 original size:25 final size:25
Alignment explanation
Indices: 34091214--34091262 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
34091204 TTTTATTTTA
*
34091214 AATTAAATAAATTTTTATAATTAAT
1 AATTAAATAAATTATTATAATTAAT
*
34091239 AATT-AATTAATTATTATTAATTAA
1 AATTAAATAAATTATTA-TAATTAA
34091263 AATGTTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTAAATAAATTATTATAATTAAT
Found at i:34099504 original size:60 final size:60
Alignment explanation
Indices: 34099239--34099516 Score: 222
Period size: 60 Copynumber: 4.7 Consensus size: 60
34099229 AACACTTTGT
* * * * * * * **
34099239 TTGATCTATCTCAAAATAGGTTCCA-TTT-AAAATTCAAAATTCTTAAATTTAATCTAAAT
1 TTGACCTATCTCAAAACAGGTTCAATTTTAAAAATT-AAAATTCTTAGACTTGATTTAAGC
* * *
34099298 TTGTCCTATCTCAAAACAGGTTCAA-TTT-AAAATTAAGATTCTTAGACTTGATCTAAGC
1 TTGACCTATCTCAAAACAGGTTCAATTTTAAAAATTAAAATTCTTAGACTTGATTTAAGC
* * * * * * ** * *
34099356 TTGACTTATTTGAAAACATGTTCGATTTTAAGAATTGCAATTCCTAGACTTGATTTAGGC
1 TTGACCTATCTCAAAACAGGTTCAATTTTAAAAATTAAAATTCTTAGACTTGATTTAAGC
* * * * * * * *
34099416 TTAACTTATTTCATAATAAGTGCGATTTTAAAAATTAAAATTCTTAGACTTGATTTAAGC
1 TTGACCTATCTCAAAACAGGTTCAATTTTAAAAATTAAAATTCTTAGACTTGATTTAAGC
* * *
34099476 TCGACCTATCTCACAACAGGTTCAATTTTAAAAATTGAAAT
1 TTGACCTATCTCAAAACAGGTTCAATTTTAAAAATTAAAAT
34099517 GCCAATTTAG
Statistics
Matches: 173, Mismatches: 44, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
58 37 0.21
59 33 0.19
60 103 0.60
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (60 bp):
TTGACCTATCTCAAAACAGGTTCAATTTTAAAAATTAAAATTCTTAGACTTGATTTAAGC
Found at i:34111406 original size:15 final size:16
Alignment explanation
Indices: 34111376--34111409 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
34111366 AAATATATAA
*
34111376 AATAAGTAATATTATT
1 AATAACTAATATTATT
34111392 AATAACTAA-ATTATT
1 AATAACTAATATTATT
34111407 AAT
1 AAT
34111410 TTTATATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAACTAATATTATT
Found at i:34122856 original size:31 final size:31
Alignment explanation
Indices: 34122813--34122874 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
34122803 TATGAATCAT
* *
34122813 TATAGACTTGCCATACTT-GGCACAAAAGACA
1 TATAGACATGCCATA-TTGGGCAAAAAAGACA
34122844 TATAGACATGCCATATTGGGCAAAAAAGACA
1 TATAGACATGCCATATTGGGCAAAAAAGACA
34122875 AAGATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (31 bp):
TATAGACATGCCATATTGGGCAAAAAAGACA
Found at i:34123219 original size:31 final size:31
Alignment explanation
Indices: 34123184--34123278 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
34123174 TGTGTATCTG
*
34123184 TATGTCTTTTGTGCCAATTATGGCATGTCTA
1 TATGTCTTTTGTGCCAAGTATGGCATGTCTA
* * *
34123215 TATGTCTTTTGTGCTAAGTATGACATGGCTA
1 TATGTCTTTTGTGCCAAGTATGGCATGTCTA
*
34123246 TATGTCTTTTGTGCCAAGTATGGCAAGTCTA
1 TATGTCTTTTGTGCCAAGTATGGCATGTCTA
34123277 TA
1 TA
34123279 ATGATTCATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (31 bp):
TATGTCTTTTGTGCCAAGTATGGCATGTCTA
Found at i:34130256 original size:2 final size:2
Alignment explanation
Indices: 34130249--34130280 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34130239 TTAAGTCTAA
34130249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34130281 TGCAAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34133359 original size:20 final size:21
Alignment explanation
Indices: 34133336--34133375 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
34133326 AAGTGAGTTA
*
34133336 TTTTAATTTTA-TGTTATTTC
1 TTTTAATTTAATTGTTATTTC
34133356 TTTTAATTTAATTGTTATTT
1 TTTTAATTTAATTGTTATTT
34133376 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTAATTTAATTGTTATTTC
Found at i:34133384 original size:25 final size:25
Alignment explanation
Indices: 34133337--34133384 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
34133327 AGTGAGTTAT
*
34133337 TTTAATTTTATGTTATTTCTTTTAA
1 TTTAATTTTATGTTATTACTTTTAA
*
34133362 TTTAATTGTTAT-TTATTAGTTTT
1 TTTAATT-TTATGTTATTACTTTT
34133385 TATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTAATTTTATGTTATTACTTTTAA
Found at i:34141524 original size:24 final size:25
Alignment explanation
Indices: 34141491--34141542 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
34141481 TGCATTTTTA
* * *
34141491 ATTTCTTCACATAT-TTCCCCACAT
1 ATTTCATCACATATCTTACCCAAAT
*
34141515 ATTTCATCACGTATCTTACCCAAAT
1 ATTTCATCACATATCTTACCCAAAT
34141540 ATT
1 ATT
34141543 ACCTTAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTCATCACATATCTTACCCAAAT
Found at i:34144600 original size:20 final size:20
Alignment explanation
Indices: 34144558--34144600 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
34144548 ATATCCATTT
*
34144558 TTTATAAAAGATTAATAAAA
1 TTTATAAAAGATTAAAAAAA
34144578 TTTATAAAA-ATTAAAAAATA
1 TTTATAAAAGATTAAAAAA-A
34144598 TTT
1 TTT
34144601 TAAGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTATAAAAGATTAAAAAAA
Found at i:34158166 original size:2 final size:2
Alignment explanation
Indices: 34158154--34158199 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
34158144 CTGTTGAACT
*
34158154 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34158196 TA TA
1 TA TA
34158200 AATAAANNNN
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:34167682 original size:12 final size:12
Alignment explanation
Indices: 34167646--34167686 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
34167636 TCTCTCTGCA
34167646 CTCTTTCTCTCT
1 CTCTTTCTCTCT
*
34167658 CTCTCTCTCTCT
1 CTCTTTCTCTCT
34167670 CTCTTTCGT-TCT
1 CTCTTTC-TCTCT
34167682 CTCTT
1 CTCTT
34167687 CGTGCCTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 25 0.96
13 1 0.04
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.56
Consensus pattern (12 bp):
CTCTTTCTCTCT
Done.