Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 12 of 328
Found at i:3633141 original size:17 final size:17
Alignment explanation
Indices: 3633103--3633138 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
3633093 AGGGCATCTT
3633103 AAAA-AAAAGAGAAAAG
1 AAAAGAAAAGAGAAAAG
3633119 AAAAGAAAAGA-AAAAG
1 AAAAGAAAAGAGAAAAG
3633135 AAAA
1 AAAA
3633139 AGAGAGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAGAAAAG
Found at i:3634186 original size:14 final size:13
Alignment explanation
Indices: 3634156--3634186 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
3634146 CGCCGAGGTA
3634156 TTTTTAATTTCTG
1 TTTTTAATTTCTG
3634169 TTTTTAATTTCTG
1 TTTTTAATTTCTG
3634182 TTTTT
1 TTTTT
3634187 CAAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:3634211 original size:86 final size:86
Alignment explanation
Indices: 3633990--3634443 Score: 491
Period size: 86 Copynumber: 5.1 Consensus size: 86
3633980 GGTATTTTGA
* * *
3633990 TGTTTTT-ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGT
1 TGTTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
3634054 CACACGCTGAGGTATTTTCAATTTC
63 -ACACGCTGAGGTATTTTCAATTTC
* * * * * *
3634079 CGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGG
1 TG-TTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
3634144 CACGCCGAGGTATTTTTAATTTC
64 CACGCTGAGGTATTTTCAATTTC
*
3634167 TGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
3634232 CGCTGAGGTATTTTCAATTTC
66 CGCTGAGGTATTTTCAATTTC
* **
3634253 TGTTTTTCAATTTTTGCCTTACAAATTCTGCTTTTCAAATCAACTCATATTGCGAGAGGTGAGTT
1 TGTTTTT-AATTTCTG--TT-----TT-T-C---AAAAATCAACTCATATTGCGAGAGGTGAGTT
3634318 GAGCCTCAGGACACGCTGAGGTATTTT-AATTTTC
53 GAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTC
* ** * *
3634352 TTTTTTTAA-TTCATGTTTCTAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGA
1 TGTTTTTAATTTC-TGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
3634416 CACGCTGAGGTAATTTCAATTTT
64 CACGCTGAGGTATTTTCAATTTC
3634439 TGTTT
1 TGTTT
3634444 GTCAAAACTC
Statistics
Matches: 312, Mismatches: 33, Indels: 42
0.81 0.09 0.11
Matches are distributed among these distances:
86 80 0.26
87 72 0.23
88 24 0.08
89 3 0.01
90 43 0.14
91 1 0.00
92 10 0.03
94 2 0.01
95 1 0.00
96 3 0.01
97 2 0.01
98 6 0.02
99 65 0.21
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (86 bp):
TGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTC
Found at i:3634435 original size:186 final size:186
Alignment explanation
Indices: 3634094--3634448 Score: 536
Period size: 186 Copynumber: 1.9 Consensus size: 186
3634084 TTTCAATTTA
* *
3634094 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAGGTATTT
** *
3634159 TTAATTTCTGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 TTAATTTCTGTTTTTAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
* * *
3634224 TCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTC
130 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAATTTTTGCCTTACAAATTC
* *
3634281 TGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTT
1 TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAGGTATTTT
* *
3634344 TAATTTTCTTTTTTTAA-TTCATGTTTCTAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAG
66 TAA-TTTCTGTTTTTAATTTC-TGTTT-TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
*
3634408 CCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTGTCAA
128 CCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAA
3634449 AACTCAACTC
Statistics
Matches: 152, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
184 9 0.06
185 65 0.43
186 70 0.46
187 8 0.05
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (186 bp):
TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAGGTATTTT
TAATTTCTGTTTTTAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
CAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAATTTTTGCCTTACAAATTC
Found at i:3634572 original size:75 final size:75
Alignment explanation
Indices: 3634486--3634921 Score: 613
Period size: 75 Copynumber: 5.9 Consensus size: 75
3634476 TTGAGCCTCA
* *
3634486 AGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCA
1 AGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
* * *
3634551 GGATACGCTG
66 AGACACGTTG
* * * *
3634561 AGGTAATTTCAATTTTTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 AGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
3634623 AGACACGTTG
66 AGACACGTTG
* * *
3634633 AGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA
1 AGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
3634698 AGACACGTTG
66 AGACACGTTG
*
3634708 AGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTC
1 AGGTATTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC
*
3634773 AAG--ACGCTG
65 AAGACACGTTG
* *
3634782 AGGTAATTTCAATTT-T-TTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AGGTATTTTCAATTTCTGTTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC
3634843 AAGACACGTTG
65 AAGACACGTTG
* *
3634854 AGGTATTTTCAATTTCTGTCTTTCAAAAAAAAT-AGCTCATATTGCGAGAGGTGAGTTGAACCTC
1 AGGTATTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC
3634918 AAGA
65 AAGA
3634922 GGCTGAGGTG
Statistics
Matches: 322, Mismatches: 27, Indels: 24
0.86 0.07 0.06
Matches are distributed among these distances:
70 39 0.12
72 86 0.27
73 6 0.02
74 22 0.07
75 122 0.38
76 47 0.15
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
AGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
AGACACGTTG
Found at i:3634830 original size:221 final size:217
Alignment explanation
Indices: 3634374--3634921 Score: 814
Period size: 221 Copynumber: 2.5 Consensus size: 217
3634364 ATGTTTCTAA
* * * * * *
3634374 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * *
3634439 TGT-TTGT--CAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCT-----CAAGGTATTTTC
66 TGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAAGGTATTTTC
* *
3634496 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGATACGCTG
130 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-GAGACGCTG
3634561 AGGTAATTTCAATTTTTGTTTGTC
194 AGGTAATTTCAATTTTTGTTTGTC
3634585 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3634649 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA-----AGGTAT
3634714 TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-AGAC
126 TTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAGAGAC
3634778 GCTGAGGTAATTTCAATTTTT-TTTGTC
190 GCTGAGGTAATTTCAATTTTTGTTTGTC
3634805 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3634870 TGTCTTTCAAAAAAAAT-AGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
66 TGTCTTT-AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
3634922 GGCTGAGGTG
Statistics
Matches: 308, Mismatches: 13, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
210 62 0.20
211 2 0.01
212 33 0.11
217 2 0.01
220 6 0.02
221 130 0.42
222 33 0.11
223 40 0.13
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (217 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAAGGTATTTTCA
ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAGAGACGCTGAG
GTAATTTCAATTTTTGTTTGTC
Found at i:3634846 original size:146 final size:143
Alignment explanation
Indices: 3634374--3634945 Score: 671
Period size: 147 Copynumber: 4.0 Consensus size: 143
3634364 ATGTTTCTAA
* * * *
3634374 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
* * *
3634439 TGTTTGTCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAG--G-T-A--T-TTTCA
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTCA
3634497 ATTTCTGTTTTTC
131 ATTTCTGTTTTTC
* * *
3634510 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
* * *
3634575 TTTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
64 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTA-
**
3634639 TTTCAATTTCTGTCTTTAAA
126 TTTCAATTTCTGT-TTT-TC
* * * *
3634659 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
* *
3634724 TGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAAT
66 TGTTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT-AT
3634789 TTCAATTT-T-TTTTGTC
127 TTCAATTTCTGTTTT-TC
* *
3634805 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
** * *
3634870 TGTCTT-TCAAAAAAAATAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAGGCTGAGGTGTT
66 TGT-TTGTCAAAAATCA-A-CTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGT-AT
*
3634934 TTCCATTTCTGT
127 TTCAATTTCTGT
3634946 CTTCAATTTC
Statistics
Matches: 380, Mismatches: 32, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
137 38 0.10
138 69 0.18
141 1 0.00
142 1 0.00
143 7 0.02
144 1 0.00
145 49 0.13
146 72 0.19
147 81 0.21
148 4 0.01
149 18 0.05
150 1 0.00
151 38 0.10
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (143 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTCA
ATTTCTGTTTTTC
Found at i:3635057 original size:15 final size:14
Alignment explanation
Indices: 3635021--3635053 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3635011 CGCTGAGGTA
3635021 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
3635035 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
3635049 TTTTC
1 TTTTC
3635054 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:3635129 original size:90 final size:90
Alignment explanation
Indices: 3634859--3635395 Score: 485
Period size: 89 Copynumber: 6.0 Consensus size: 90
3634849 CGTTGAGGTA
* * * *
3634859 TTTTCAATTTCTGTCTTTCAAAAAAAAT-AGCTCATATTGCGAGAGGTGAGTTGAACCTCA---A
1 TTTTCAATTTATGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCA
* * * * *
3634920 GAGGCTGAGGTGTTTTCCATTTC-TG
65 CACGCTGAGGTATTTTCAATTTCTTT
* * * * * * **
3634945 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTG-GAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGCA
* *
3635009 CACGCTGAGGTATTTTCAAATTCTGT
65 CACGCTGAGGTATTTTCAATTTCTTT
* *
3635035 TTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG-A
1 TTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCA
*
3635098 CACGCTGAGATATTTTCAATTTCTTTT
65 CACGCTGAGGTATTTTCAATTTC-TTT
*
3635125 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
* * **
3635190 CACGCCGATGTATTTTCAATTGATTT
65 CACGCTGAGGTATTTTCAATTTCTTT
* * * * *
3635216 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
** * ** *
3635279 CATACCGAGGTATTTTCAAAATCTAT
65 CACGCTGAGGTATTTTCAATTTCTTT
* * * *
3635305 TTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCT
1 TTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCA
* *
3635364 CACGTGCTGAGCTATTTTCAATTTCTGT
65 CAC--GCTGAGGTATTTTCAATTTCTTT
3635392 TTTT
1 TTTT
3635396 AATGTCTAGT
Statistics
Matches: 375, Mismatches: 61, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
85 26 0.07
86 32 0.09
87 55 0.15
88 3 0.01
89 111 0.30
90 91 0.24
91 38 0.10
92 19 0.05
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (90 bp):
TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
ACGCTGAGGTATTTTCAATTTCTTT
Found at i:3635205 original size:181 final size:177
Alignment explanation
Indices: 3634880--3635386 Score: 489
Period size: 176 Copynumber: 2.9 Consensus size: 177
3634870 TGTCTTTCAA
* * * * * *
3634880 AAAAAAT-AGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGAGGCTGAGGTGTTTTCCATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * * * *
3634942 C-TGTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTG-GAGTGGTGAGTTGAGCCTTGA
66 CTTTTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGA
* * *
3635005 CTCACACGCTGAGGTATTTTCAAATT-CTGTTTTTCAAATTT-TGTTTTTCC
129 CTCACACGCCGAGGTATTTTC-AATTGAT-TTTTTCAAATTTATG-CTTTCC
* *
3635055 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
3635120 CTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 C-TTTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-A
* * ** *
3635185 G-GTCACACGCCGATGTATTTTCAATTGATTTTTTTTAATTTATGCTTTGC
127 GACTCACACGCCGAGGTATTTTCAATTGATTTTTTCAAATTTATGCTTTCC
* * ** * *
3635235 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
* * * * *
3635299 ATCTATTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG
64 TTCTTTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
* ** * *
3635361 GCTCACGTGCTGAGCTATTTTCAATT
128 ACTCACACGCCGAGGTATTTTCAATT
3635387 TCTGTTTTTA
Statistics
Matches: 277, Mismatches: 41, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
175 8 0.03
176 84 0.30
178 19 0.07
179 41 0.15
180 63 0.23
181 61 0.22
182 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (177 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTTTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGACT
CACACGCCGAGGTATTTTCAATTGATTTTTTCAAATTTATGCTTTCC
Found at i:3636107 original size:18 final size:18
Alignment explanation
Indices: 3636084--3636137 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
3636074 CCACCACCAA
3636084 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
3636102 CT-C-C-A-CCAC-CTT-
1 CTCCACTAGCCACACTTG
3636114 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
3636132 CTCCAC
1 CTCCAC
3636138 CACCTACTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
12 2 0.07
13 4 0.13
14 5 0.17
15 2 0.07
16 5 0.17
17 4 0.13
18 8 0.27
ACGTcount: A:0.20, C:0.50, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:3636110 original size:30 final size:30
Alignment explanation
Indices: 3636074--3636172 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
3636064 CTAGCCTTTG
3636074 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
**
3636104 CCACCACCTTCTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
3636134 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
3636164 CCACCACCA
1 CCACCACCA
3636173 CTTGTACATA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.24, C:0.51, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:3636691 original size:24 final size:24
Alignment explanation
Indices: 3636643--3636772 Score: 88
Period size: 23 Copynumber: 5.5 Consensus size: 24
3636633 TTTTTTTTGT
*
3636643 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATTTCTTAATAATA
*
3636666 TATTATGTATATATTCTT-TTAATA
1 TATTATGTATAT-TTCTTAATAATA
* * **
3636690 TATTAGGTATA-TTCTAAATTCTA
1 TATTATGTATATTTCTTAATAATA
* * * *
3636713 TATTACGTATATATATT-ATACTA
1 TATTATGTATATTTCTTAATAATA
* * *
3636736 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATTTC-TTAATAATA
*
3636761 TATTATTTATAT
1 TATTATGTATAT
3636773 ATATATATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.05
23 36 0.43
24 23 0.27
25 21 0.25
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTATGTATATTTCTTAATAATA
Found at i:3636748 original size:25 final size:26
Alignment explanation
Indices: 3636657--3636778 Score: 82
Period size: 25 Copynumber: 5.0 Consensus size: 26
3636647 ATTATATTTC
* *
3636657 TTAATATTATATTATGTATATAT-TC
1 TTAATACTATATTATGTATATATATA
* * * *
3636682 TT-TTAATATATTAGGTATAT-TCTA
1 TTAATACTATATTATGTATATATATA
* *
3636706 --AATTCTATATTACG--TATATATA
1 TTAATACTATATTATGTATATATATA
* *
3636728 TT-ATACTATTTTATGTATATATCT-
1 TTAATACTATATTATGTATATATATA
*
3636752 TTAATACTATATTATTTATATATATA
1 TTAATACTATATTATGTATATATATA
3636778 T
1 T
3636779 ATTTTTTCTA
Statistics
Matches: 72, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 20 0.28
24 18 0.25
25 27 0.38
26 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
TTAATACTATATTATGTATATATATA
Found at i:3636770 original size:29 final size:27
Alignment explanation
Indices: 3636737--3636848 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 27
3636727 ATTATACTAT
3636737 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAAT-CTATATTA
* ** *
3636766 TTTATATATATATATTTTTTCTACATGTTA
1 TTTATGTATATAT-TTTAATCT--ATATTA
3636796 TCTTATGTATATATTTTAAT-TATATTA
1 T-TTATGTATATATTTTAATCTATATTA
*
3636823 TGTATGTAT-T-TTTTACA-CTATATTA
1 TTTATGTATATATTTTA-ATCTATATTA
3636848 T
1 T
3636849 GTACATATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.07
25 10 0.15
26 7 0.10
27 6 0.09
28 2 0.03
29 17 0.25
30 10 0.15
31 11 0.16
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTATGTATATATTTTAATCTATATTA
Found at i:3636823 original size:22 final size:23
Alignment explanation
Indices: 3636793--3636859 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
3636783 TTTCTACATG
*
3636793 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
3636815 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
3636840 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
3636860 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:3636870 original size:27 final size:25
Alignment explanation
Indices: 3636804--3636875 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
3636794 TATCTTATGT
* *
3636804 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
3636828 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
3636853 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
3636876 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:3636949 original size:25 final size:24
Alignment explanation
Indices: 3636921--3636976 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3636911 GTTATATTTT
*
3636921 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
3636946 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
3636969 CACTATTA
1 CACTATTA
3636977 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:3644332 original size:15 final size:17
Alignment explanation
Indices: 3644295--3644338 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
3644285 CTAATATCCT
3644295 AATCCAAAAATTATCAG
1 AATCCAAAAATTATCAG
*
3644312 AATCCAAAAGTTA-CA-
1 AATCCAAAAATTATCAG
3644327 AATCCAACAAAT
1 AATCCAA-AAAT
3644339 GATGTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (17 bp):
AATCCAAAAATTATCAG
Found at i:3653076 original size:19 final size:20
Alignment explanation
Indices: 3653049--3653087 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3653039 GGTATCAGAG
*
3653049 CTTTTTCTGG-GATTTTTTT
1 CTTTGTCTGGCGATTTTTTT
3653068 CTTTGTCTGGCGATTTTTTT
1 CTTTGTCTGGCGATTTTTTT
3653088 TCCTGATTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.05, C:0.13, G:0.18, T:0.64
Consensus pattern (20 bp):
CTTTGTCTGGCGATTTTTTT
Found at i:3655710 original size:33 final size:33
Alignment explanation
Indices: 3655613--3655711 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
3655603 TTTCTTCTTG
*
3655613 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
3655646 ACATTCCAGCTCCTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
3655679 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
3655712 CCACTCAGTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.31, C:0.41, G:0.10, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
Found at i:3657739 original size:14 final size:14
Alignment explanation
Indices: 3657710--3657749 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
3657700 GAATTAGTAT
*
3657710 GTTTCCTAGTGTAAA
1 GTTTCCTA-AGTAAA
3657725 GTTTCCTAAGTAAA
1 GTTTCCTAAGTAAA
3657739 GTTTCCTAAGT
1 GTTTCCTAAGT
3657750 TAGGCTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (14 bp):
GTTTCCTAAGTAAA
Found at i:3660921 original size:19 final size:18
Alignment explanation
Indices: 3660881--3660921 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
3660871 TTTATAATAT
3660881 TTTATTTTATTATTTCAG
1 TTTATTTTATTATTTCAG
3660899 TTTATTTTATAGTATTT-AG
1 TTTATTTTAT--TATTTCAG
3660918 TTTA
1 TTTA
3660922 AGTATTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTATTTTATTATTTCAG
Found at i:3661551 original size:11 final size:11
Alignment explanation
Indices: 3661537--3661562 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3661527 AACTTCAAAT
3661537 AAGAAAAAAAA
1 AAGAAAAAAAA
3661548 AAGAAAAAAAA
1 AAGAAAAAAAA
3661559 AAGA
1 AAGA
3661563 GGAAAGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:3665358 original size:5 final size:5
Alignment explanation
Indices: 3665348--3665376 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3665338 GATGAAAGGC
3665348 AAGAG AAGAG AAGAG AAGAG AAGAG AAGA
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAGA
3665377 AGTGCAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:3668338 original size:15 final size:16
Alignment explanation
Indices: 3668314--3668346 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3668304 GCAATAAAAA
*
3668314 TTCAGTACTT-AATTT
1 TTCAGCACTTAAATTT
3668329 TTCAGCACTTAAATTT
1 TTCAGCACTTAAATTT
3668345 TT
1 TT
3668347 TGTTTATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTCAGCACTTAAATTT
Found at i:3669422 original size:2 final size:2
Alignment explanation
Indices: 3669411--3669446 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3669401 AAAAGATAAT
3669411 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3669447 GTGTGTATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3673532 original size:17 final size:18
Alignment explanation
Indices: 3673498--3673534 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3673488 AATGTATTAT
*
3673498 AAATTACATAATATATAA
1 AAATAACATAATATATAA
3673516 AAATAACATAA-ATATAA
1 AAATAACATAATATATAA
3673533 AA
1 AA
3673535 TATTATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:3675087 original size:134 final size:134
Alignment explanation
Indices: 3674935--3675176 Score: 378
Period size: 134 Copynumber: 1.8 Consensus size: 134
3674925 GAATGAATTT
*
3674935 TTGAAGGGATACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
1 TTGAAGGGACACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
*
3675000 CTGCGAATTGCAAAATATC-GAATTTCGCCTTCATTTTAAAGAATTCTTTTAAAAGGCATGAGGG
66 CTGCGAATTGCAAAATATCAG-ATTTCACCTTCATTTTAAAGAATTCTTTTAAAAGGCATGAGGG
3675064 AAATC
130 AAATC
* * * * *
3675069 TTGAAGGGACATTCGATTATTTTGAGCAAACGCGAAATTGCCACCCAACACGTTAGGGCACTATT
1 TTGAAGGGACACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
* * *
3675134 CTGCGGATTGCCAAATATCAGATTTCACCTTCGTTTTAAAGAA
66 CTGCGAATTGCAAAATATCAGATTTCACCTTCATTTTAAAGAA
3675177 AATTGTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
134 96 0.99
135 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (134 bp):
TTGAAGGGACACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
CTGCGAATTGCAAAATATCAGATTTCACCTTCATTTTAAAGAATTCTTTTAAAAGGCATGAGGGA
AATC
Found at i:3684169 original size:133 final size:134
Alignment explanation
Indices: 3684018--3684309 Score: 356
Period size: 134 Copynumber: 2.2 Consensus size: 134
3684008 TGTCAAATGC
* * * * * * * * *
3684018 CGAATATCGCTTTCGTTTTAAATAATT-TTTTAAAATATATGAATGAATTTTTGAACGGATACTC
1 CGAATTTCGCCTTCGTTTTAAAGAATTCTTTTAAAAGACATGAAGGAAATCTTGAACGGACACTC
3684082 AATCATTTT-AAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATTCCGC-GAATTGCA
66 AATCATTTTGAA-CAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATTCCGCAG-ATTGCA
3684145 AAATAT
129 AAATAT
* * * *
3684151 CGAATTTCGCCTTCGTTTTAAAGAATTCTTTTAAAAGGCATGAGGGAAATCTTGAAGGGACATTC
1 CGAATTTCGCCTTCGTTTTAAAGAATTCTTTTAAAAGACATGAAGGAAATCTTGAACGGACACTC
* * * * * *
3684216 GATTATTTTGCACAAACGCGAAATTGCCACCCAACACGTTAGGGCACTATTCCGCAGATTGCCAA
66 AATCATTTTGAACAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATTCCGCAGATTGCAAA
3684281 ATAT
131 ATAT
* *
3684285 CGGATTTCACCTTCGTTTTAAAGAA
1 CGAATTTCGCCTTCGTTTTAAAGAA
3684310 AATTGTTTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
133 24 0.18
134 109 0.81
135 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (134 bp):
CGAATTTCGCCTTCGTTTTAAAGAATTCTTTTAAAAGACATGAAGGAAATCTTGAACGGACACTC
AATCATTTTGAACAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATTCCGCAGATTGCAAA
ATAT
Found at i:3686812 original size:15 final size:14
Alignment explanation
Indices: 3686773--3686817 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
3686763 AAATGGACCT
3686773 TATTTTATT-TATA
1 TATTTTATTGTATA
3686786 TA-TTTATTTGTATA
1 TATTTTA-TTGTATA
3686800 TATTTTATATGTATA
1 TATTTTAT-TGTATA
3686815 TAT
1 TAT
3686818 GTGATTGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 7 0.25
15 13 0.46
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (14 bp):
TATTTTATTGTATA
Found at i:3688647 original size:15 final size:16
Alignment explanation
Indices: 3688623--3688655 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3688613 GCAATAAAAA
*
3688623 TTCAGTACTT-AATTT
1 TTCAGCACTTAAATTT
3688638 TTCAGCACTTAAATTT
1 TTCAGCACTTAAATTT
3688654 TT
1 TT
3688656 TGTTTATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTCAGCACTTAAATTT
Found at i:3689731 original size:2 final size:2
Alignment explanation
Indices: 3689720--3689755 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3689710 AAAAGATAAT
3689720 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3689756 GTGTGTATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3693841 original size:17 final size:18
Alignment explanation
Indices: 3693807--3693843 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3693797 AATGTATTAT
*
3693807 AAATTACATAATATATAA
1 AAATAACATAATATATAA
3693825 AAATAACATAA-ATATAA
1 AAATAACATAATATATAA
3693842 AA
1 AA
3693844 TATTATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:3695396 original size:134 final size:134
Alignment explanation
Indices: 3695244--3695485 Score: 378
Period size: 134 Copynumber: 1.8 Consensus size: 134
3695234 GAATGAATTT
*
3695244 TTGAAGGGATACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
1 TTGAAGGGACACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
*
3695309 CTGCGAATTGCAAAATATC-GAATTTCGCCTTCATTTTAAAGAATTCTTTTAAAAGGCATGAGGG
66 CTGCGAATTGCAAAATATCAG-ATTTCACCTTCATTTTAAAGAATTCTTTTAAAAGGCATGAGGG
3695373 AAATC
130 AAATC
* * * * *
3695378 TTGAAGGGACATTCGATTATTTTGAGCAAACGCGAAATTGCCACCCAACACGTTAGGGCACTATT
1 TTGAAGGGACACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
* * *
3695443 CTGCGGATTGCCAAATATCAGATTTCACCTTCGTTTTAAAGAA
66 CTGCGAATTGCAAAATATCAGATTTCACCTTCATTTTAAAGAA
3695486 AATTGTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
134 96 0.99
135 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (134 bp):
TTGAAGGGACACTCGATTATTTTAAGCAAACGCGAAATTGCAACCCAACACGTTAAGACACTATT
CTGCGAATTGCAAAATATCAGATTTCACCTTCATTTTAAAGAATTCTTTTAAAAGGCATGAGGGA
AATC
Found at i:3703922 original size:43 final size:43
Alignment explanation
Indices: 3703874--3703960 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
3703864 TGTATGTATG
3703874 TATGTCGTATACGTACATGGATTCCACAATAGTTATGGTATAA
1 TATGTCGTATACGTACATGGATTCCACAATAGTTATGGTATAA
**
3703917 TATGTCGTATACGTACATGGATTCCACAATCTTTATGGTATAA
1 TATGTCGTATACGTACATGGATTCCACAATAGTTATGGTATAA
3703960 T
1 T
3703961 TATTCTTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (43 bp):
TATGTCGTATACGTACATGGATTCCACAATAGTTATGGTATAA
Found at i:3708501 original size:39 final size:39
Alignment explanation
Indices: 3708434--3708509 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
3708424 TTCCATGAAA
** *
3708434 GTTTTAGAAATTAAAAGGTCATCGATATAATTGTTTGGG
1 GTTTTAGAAATTAAAAACTCATCGATATAATTATTTGGG
3708473 GTTTTAGAAATTAAAAACTCATTC-ATATAATTATTTG
1 GTTTTAGAAATTAAAAACTCA-TCGATATAATTATTTG
3708510 AAGTCAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.41
Consensus pattern (39 bp):
GTTTTAGAAATTAAAAACTCATCGATATAATTATTTGGG
Found at i:3711381 original size:21 final size:21
Alignment explanation
Indices: 3711356--3711398 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3711346 TCATTATCCC
* *
3711356 CTCCTTGATTTCAAATAAATT
1 CTCCTTAATCTCAAATAAATT
3711377 CTCCTTAATCTCAAATAAATT
1 CTCCTTAATCTCAAATAAATT
3711398 C
1 C
3711399 AATAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (21 bp):
CTCCTTAATCTCAAATAAATT
Found at i:3711844 original size:31 final size:31
Alignment explanation
Indices: 3711803--3711863 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
3711793 TAAATATATA
*
3711803 TATTTGAATCACAATTAAAATTTTATGTATC
1 TATTTAAATCACAATTAAAATTTTATGTATC
*
3711834 TATTTAAATCACAATTAAAGTTTTATGTAT
1 TATTTAAATCACAATTAAAATTTTATGTAT
3711864 GTAATTACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
TATTTAAATCACAATTAAAATTTTATGTATC
Found at i:3720496 original size:31 final size:32
Alignment explanation
Indices: 3720434--3720497 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
3720424 AAAAATATTT
* *
3720434 ATAAAATCTAGAAAGAAATATAATTTATGAAA
1 ATAAAATCTACAAAGAAATATAATATATGAAA
*
3720466 ATAAAATTTACAAA-AAATATAATA-ATTGAAA
1 ATAAAATCTACAAAGAAATATAATATA-TGAAA
3720497 A
1 A
3720498 GAAATTAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.04
31 15 0.54
32 12 0.43
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (32 bp):
ATAAAATCTACAAAGAAATATAATATATGAAA
Found at i:3724249 original size:12 final size:12
Alignment explanation
Indices: 3724232--3724257 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3724222 TTAATCCCTT
3724232 TCAATTTTGATA
1 TCAATTTTGATA
3724244 TCAATTTTGATA
1 TCAATTTTGATA
3724256 TC
1 TC
3724258 GAGTCCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (12 bp):
TCAATTTTGATA
Found at i:3728468 original size:18 final size:20
Alignment explanation
Indices: 3728445--3728481 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
3728435 ATTTAATCCC
3728445 TTTATTTT-TTAAA-ATAAA
1 TTTATTTTATTAAATATAAA
3728463 TTTATTTTATTAAATATAA
1 TTTATTTTATTAAATATAA
3728482 GTTCAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTTTATTAAATATAAA
Found at i:3728961 original size:34 final size:34
Alignment explanation
Indices: 3728903--3728972 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
3728893 TTTTGGCCCC
*
3728903 AATAATGATAAAATTAGGATTTAGTCCTTATAAA
1 AATAATGATAAAATTAGGATTTAGTCCTCATAAA
* * *
3728937 AATACTGATAAAATT-GTATCTTAGTTCTCATAAA
1 AATAATGATAAAATTAGGAT-TTAGTCCTCATAAA
3728971 AA
1 AA
3728973 ATTATAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 3 0.10
34 28 0.90
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.36
Consensus pattern (34 bp):
AATAATGATAAAATTAGGATTTAGTCCTCATAAA
Found at i:3738125 original size:37 final size:37
Alignment explanation
Indices: 3738075--3738147 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
3738065 ATTTAGTTGA
3738075 GAAATAATTTAAAGA-TAGTTATTTTTATAAAATAAAG
1 GAAATAATTTAAAGATTA-TTATTTTTATAAAATAAAG
* *
3738112 GAAATAATTTAAAGATTATTGTTTTTATAAAGTAAA
1 GAAATAATTTAAAGATTATTATTTTTATAAAATAAA
3738148 TTATATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 31 0.94
38 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (37 bp):
GAAATAATTTAAAGATTATTATTTTTATAAAATAAAG
Found at i:3749492 original size:21 final size:18
Alignment explanation
Indices: 3749468--3749513 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 18
3749458 TACATTACAA
3749468 AAAAAAATTATAAAATTTCAT
1 AAAAAAATTA-AAAA-TT-AT
3749489 AAAAAAATTAAAAATTAT
1 AAAAAAATTAAAAATTAT
3749507 AAAAAAA
1 AAAAAAA
3749514 ACTCTAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.36
19 2 0.08
20 4 0.16
21 10 0.40
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAAATTAAAAATTAT
Found at i:3753606 original size:9 final size:9
Alignment explanation
Indices: 3753579--3753619 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
3753569 TGGCTGAAGC
3753579 TCTTCCTCT
1 TCTTCCTCT
* *
3753588 TCCTCATCT
1 TCTTCCTCT
3753597 TCTTCCTCT
1 TCTTCCTCT
3753606 TCTTCCTCT
1 TCTTCCTCT
3753615 TCTTC
1 TCTTC
3753620 TTCACCTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.54
Consensus pattern (9 bp):
TCTTCCTCT
Found at i:3753798 original size:21 final size:21
Alignment explanation
Indices: 3753774--3753813 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3753764 ATCTTCCTCC
3753774 TCACCTGCAT-CTTCATCTTGA
1 TCACCTGC-TGCTTCATCTTGA
3753795 TCACCTGCTGCTTCATCTT
1 TCACCTGCTGCTTCATCTT
3753814 CCTCATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.15, C:0.35, G:0.10, T:0.40
Consensus pattern (21 bp):
TCACCTGCTGCTTCATCTTGA
Found at i:3753821 original size:24 final size:24
Alignment explanation
Indices: 3753763--3753821 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 24
3753753 TCACCTGATC
*
3753763 CATCTTCCTCCTCACCTGCATCTT
1 CATCTTCCTCATCACCTGCATCTT
*
3753787 CATC-T--TGATCACCTGC-TGCTT
1 CATCTTCCTCATCACCTGCAT-CTT
3753808 CATCTTCCTCATCA
1 CATCTTCCTCATCA
3753822 TCATTGTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 1 0.04
23 1 0.04
24 9 0.32
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.37
Consensus pattern (24 bp):
CATCTTCCTCATCACCTGCATCTT
Found at i:3756598 original size:22 final size:23
Alignment explanation
Indices: 3756550--3756601 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
3756540 CTAAAATTAA
3756550 ATTTATACTTTTACATAATATAG
1 ATTTATACTTTTACATAATATAG
* *
3756573 ATTTAT-CATTTTA-ATAGTATAT
1 ATTTATAC-TTTTACATAATATAG
3756595 ATTTATA
1 ATTTATA
3756602 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTTATACTTTTACATAATATAG
Found at i:3758238 original size:13 final size:13
Alignment explanation
Indices: 3758220--3758253 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
3758210 TATTTTATTA
3758220 ATATTTTAATAAG
1 ATATTTTAATAAG
3758233 ATATTTTAATAAG
1 ATATTTTAATAAG
3758246 ATATTTTA
1 ATATTTTA
3758254 TTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:3770713 original size:20 final size:20
Alignment explanation
Indices: 3770684--3770725 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3770674 TATTTATCAG
3770684 ATTTGACTGAAATAGGAGTC
1 ATTTGACTGAAATAGGAGTC
*
3770704 ATTTGGCTGAAATAGGAGTC
1 ATTTGACTGAAATAGGAGTC
3770724 AT
1 AT
3770726 ACTTAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
ATTTGACTGAAATAGGAGTC
Found at i:3771151 original size:16 final size:17
Alignment explanation
Indices: 3771132--3771179 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
3771122 ATATATAATA
3771132 TTATATATTTAT-TTTT
1 TTATATATTTATATTTT
*
3771148 TTATATTTTTATATTTT
1 TTATATATTTATATTTT
**
3771165 AAATATAATTTATAT
1 TTATAT-ATTTATAT
3771180 ATTGAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATATTTATATTTT
Found at i:3780970 original size:15 final size:14
Alignment explanation
Indices: 3780950--3780980 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
3780940 ATAATATTGG
3780950 ATATGCTGCAAGTGA
1 ATATGCTGCAA-TGA
3780965 ATATGCTGCAATGA
1 ATATGCTGCAATGA
3780979 AT
1 AT
3780981 CTGGTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (14 bp):
ATATGCTGCAATGA
Found at i:3787557 original size:18 final size:19
Alignment explanation
Indices: 3787536--3787581 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
3787526 TTATTGAATC
3787536 ACATATTA-AC-ATAAATAA
1 ACATATTACACTATAAA-AA
3787554 ACATATTACACTATAAAAA
1 ACATATTACACTATAAAAA
3787573 ACAT-TTACA
1 ACATATTACA
3787582 TTATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.50
19 8 0.31
20 5 0.19
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (19 bp):
ACATATTACACTATAAAAA
Found at i:3789151 original size:79 final size:73
Alignment explanation
Indices: 3789090--3789297 Score: 201
Period size: 72 Copynumber: 2.8 Consensus size: 73
3789080 GTATGAATAT
* * * * *
3789090 GGAGGTGAACACTGAGTTG-CTACCATATCTTATAGAAGATTCTACAAGTGCT-AAAGAGATGGG
1 GGAGATGAACACTGAATTGTC-ACCAAAGCTTATAGAAGATTCTACAAGTACTAAAAGAGATGGG
3789153 TAAGACTAA
65 TAAGACTAA
*
3789162 GGAGATGAACATTGAATTGTCACCAAAGCTTATAGAAGATTCTACAAGTACTAAAAGAGATGGGT
1 GGAGATGAACACTGAATTGTCACCAAAGCTTATAGAAGATTCTACAAGTACTAAAAGAGATGGGT
* * * *
3789227 CATAATAT
66 AAGACTAA
* * * *
3789235 GGAGGAGTGGAGCA-TCGAATTGAT-ATCAAAGCTTATAGAAGATTCTCCAAGTGCT-AAAGAGA
1 GGA-GA-T-GAACACT-GAATTG-TCACCAAAGCTTATAGAAGATTCTACAAGTACTAAAAGAGA
3789297 T
61 T
3789298 AGATATGAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
72 44 0.38
73 20 0.17
74 2 0.02
75 10 0.09
76 38 0.33
77 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (73 bp):
GGAGATGAACACTGAATTGTCACCAAAGCTTATAGAAGATTCTACAAGTACTAAAAGAGATGGGT
AAGACTAA
Found at i:3789345 original size:75 final size:75
Alignment explanation
Indices: 3789090--3789377 Score: 284
Period size: 75 Copynumber: 3.9 Consensus size: 75
3789080 GTATGAATAT
* * * * * *
3789090 GGAGGTGAACACTGAGTTGCTACCATATCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTA
1 GGAGGAGAACATTGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTA
* *
3789155 AGACTA---A
66 TGAATATGGA
*
3789162 GGA-GATGAACATTGAATTG-TCACCAAAGCTTATAGAAGATTCTACAAGTACTAAAAGAGATGG
1 GGAGGA-GAACATTGAATTGAT-ACCAAAGCTTATAGAAGATTCTACAAGTGCT-AAAGAGATGG
3789225 GTCAT-AATATGGA
63 GT-ATGAATATGGA
* * * * * *
3789238 GGAGTG-GAGCATCGAATTGATATCAAAGCTTATAGAAGATTCTCCAAGTGCTAAAGAGATAGAT
1 GGAG-GAGAACATTGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGT
3789302 ATGAATATGGA
65 ATGAATATGGA
* ** ** * *
3789313 GGAGGAGAACGTTGAATTGATGGCAATTCTTATAGAAGATTCTTCAAATGCTAAAGAGATGGGTA
1 GGAGGAGAACATTGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTA
3789378 AGGATGTGGC
Statistics
Matches: 178, Mismatches: 26, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
71 2 0.01
72 42 0.24
73 15 0.08
74 4 0.02
75 70 0.39
76 43 0.24
77 1 0.01
78 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (75 bp):
GGAGGAGAACATTGAATTGATACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTA
TGAATATGGA
Found at i:3793733 original size:19 final size:19
Alignment explanation
Indices: 3793709--3793758 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
3793699 TTGTTTGATA
3793709 AAATTAATCTTATTTTATT
1 AAATTAATCTTATTTTATT
*
3793728 AAATTAA--TTA-TTTCTT
1 AAATTAATCTTATTTTATT
3793744 AAATCTAATCTTATT
1 AAAT-TAATCTTATT
3793759 AATCTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
19 10 0.38
20 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTAATCTTATTTTATT
Found at i:3803501 original size:29 final size:30
Alignment explanation
Indices: 3803469--3803533 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
3803459 CCAAAATTTT
3803469 ATATATAAAATTACACA-AAATTAAAACTC
1 ATATATAAAATTACACATAAATTAAAACTC
* *
3803498 ATATATAACATTACACATTAAATTAAAATTC
1 ATATATAAAATTACACA-TAAATTAAAACTC
3803529 ATATA
1 ATATA
3803534 AAACTTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 16 0.50
31 16 0.50
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (30 bp):
ATATATAAAATTACACATAAATTAAAACTC
Found at i:3803978 original size:17 final size:16
Alignment explanation
Indices: 3803956--3803989 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3803946 ATCAACAAAG
*
3803956 TTATTAAATACATCTTT
1 TTATTAAAGACAT-TTT
3803973 TTATTAAAGACATTTT
1 TTATTAAAGACATTTT
3803989 T
1 T
3803990 ACCCTAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (16 bp):
TTATTAAAGACATTTT
Found at i:3807682 original size:12 final size:12
Alignment explanation
Indices: 3807665--3807690 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3807655 CTTGTAACCC
3807665 TGTTTGAGTTCA
1 TGTTTGAGTTCA
3807677 TGTTTGAGTTCA
1 TGTTTGAGTTCA
3807689 TG
1 TG
3807691 CCTCACACGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (12 bp):
TGTTTGAGTTCA
Found at i:3817305 original size:297 final size:295
Alignment explanation
Indices: 3816761--3817326 Score: 671
Period size: 299 Copynumber: 1.9 Consensus size: 295
3816751 CATATTATTA
* * * * *
3816761 ATATATACAATTTATGGAGATAATAAAGTGTGTATAATAAAACAAAAATGTACAAAATATATTTA
1 ATATATACAATTGATGGAGATAATAAAGTATATATAATAAAACAAAAATGTAAAAAATATATTAA
* * * *
3816826 AATAAAGCTTTGGTTGAATGGTGAATTTAAGGTTTTAGTAATTTAATTGGTGCGATTCAAATCTC
66 AATAAAGCTTTGGTTGAACGATGAATTTAAGGTTTTAGTAATCTAATTAGTGCGATTCAAATCTC
*
3816891 ACCATATATAAGCTTTAATTGATTTTTGTTAAAATGAAAGACTAAAATACCTTCGAATAATATAA
131 ACCATATATAAGATTTAATTGATTTTTGTTAAAATGAAAGACTAAAATACCTTCGAATAATATAA
* * * * * *
3816956 CTTTTTTAAAATTACGGAAGAATATTTTCGTAATTTCTTGGCCAAGTTGGTGACCAGGTTGAGGG
196 CTTTTTT---ATTAAGGAAGAACATTTTCGTAATTTCATGACCAAGTTGGTGACCAGATTAAGGG
3817021 TGACACCAATTAAGTCAAAAGCTTAATAAATAGTATAT
258 TGACACCAATTAAGTCAAAAGCTTAATAAATAGTATAT
* * * * *
3817059 ATATATACAATTGATGGAGATAATAAATTATATATATTAAAATAGAATTGTATAAAAAGT-TATT
1 ATATATACAATTGATGGAGATAATAAAGTATATATAATAAAACAAAAATGTA-AAAAA-TATATT
* *
3817123 AAAATGAAA-CTTTGGTTGAACGATGAATTTAATGTTTTAGTAATCTAATTAGTGCGGGCTT-AA
64 AAAAT-AAAGCTTTGGTTGAACGATGAATTTAAGGTTTTAGTAATCTAATTAGTGC--GATTCAA
** * * *
3817186 AT-TC-CGTTATATGCATATTTCAATTGGTTTTTGTTAAAATGAGAAGACTAAAATACTCTT-GA
126 ATCTCACCATATAT-AAGATTT-AATTGATTTTTGTTAAAATGA-AAGACTAAAATAC-CTTCGA
** *
3817248 ATAATATTAA-TTTTTT-TTAAGGAAGAACATTTTCGTAATTTCATGATTAAGTTGGTGACCCGA
187 ATAATA-TAACTTTTTTATTAAGGAAGAACATTTTCGTAATTTCATGACCAAGTTGGTGACCAGA
*
3817311 TTAAGGGTGATACCAA
251 TTAAGGGTGACACCAA
3817327 CTCAGTCATG
Statistics
Matches: 226, Mismatches: 32, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
297 53 0.23
298 50 0.22
299 59 0.26
300 28 0.12
301 30 0.13
302 6 0.03
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (295 bp):
ATATATACAATTGATGGAGATAATAAAGTATATATAATAAAACAAAAATGTAAAAAATATATTAA
AATAAAGCTTTGGTTGAACGATGAATTTAAGGTTTTAGTAATCTAATTAGTGCGATTCAAATCTC
ACCATATATAAGATTTAATTGATTTTTGTTAAAATGAAAGACTAAAATACCTTCGAATAATATAA
CTTTTTTATTAAGGAAGAACATTTTCGTAATTTCATGACCAAGTTGGTGACCAGATTAAGGGTGA
CACCAATTAAGTCAAAAGCTTAATAAATAGTATAT
Found at i:3819117 original size:2 final size:2
Alignment explanation
Indices: 3819110--3819143 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3819100 TTGTCAATGT
3819110 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3819144 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3822277 original size:18 final size:19
Alignment explanation
Indices: 3822254--3822296 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
3822244 ATAAGATGAA
3822254 AAAATAAGAAAAAAA-ATG
1 AAAATAAGAAAAAAATATG
3822272 AAAATAAGAAAAAAATATG
1 AAAATAAGAAAAAAATATG
3822291 AAAATA
1 AAAATA
3822297 CCTTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAATAAGAAAAAAATATG
Found at i:3834489 original size:17 final size:17
Alignment explanation
Indices: 3834460--3834493 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3834450 TTCTTTATAT
3834460 ATTTAAAATTATTAAAA
1 ATTTAAAATTATTAAAA
3834477 ATTTATAAA-TATTAAAA
1 ATTTA-AAATTATTAAAA
3834494 TAGAGACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTATTAAAA
Found at i:3834792 original size:13 final size:13
Alignment explanation
Indices: 3834774--3834798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3834764 GCTGCCATGG
3834774 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
3834787 TTTTTTTTGTTT
1 TTTTTTTTGTTT
3834799 AATTTTTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:3846544 original size:13 final size:13
Alignment explanation
Indices: 3846526--3846550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3846516 CTTTTTATTT
3846526 AAAAAAAAACAAA
1 AAAAAAAAACAAA
3846539 AAAAAAAAACAA
1 AAAAAAAAACAA
3846551 GAATTGAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:3848754 original size:21 final size:20
Alignment explanation
Indices: 3848702--3848782 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 20
3848692 AATGAAGACT
*
3848702 TTTTTAATATATTTTT-AAA
1 TTTTTAATATTTTTTTAAAA
*
3848721 TTTTTGAGAAATATTTATTTTAATA
1 TTTTT----AATATTT-TTTTAAAA
* *
3848746 TTTTTAATATATGTATTAAAA
1 TTTTTAATAT-TTTTTTAAAA
3848767 TTTTTAA-ATTTTTTTA
1 TTTTTAATATTTTTTTA
3848783 TATAAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
19 10 0.21
20 2 0.04
21 18 0.38
22 1 0.02
23 6 0.12
24 4 0.08
25 7 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTTAATATTTTTTTAAAA
Found at i:3848762 original size:23 final size:21
Alignment explanation
Indices: 3848702--3848773 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
3848692 AATGAAGACT
3848702 TTTTTAATATA-T-TTTTAAA
1 TTTTTAATATATTATTTTAAA
*
3848721 TTTTTGAGAAATATTTATTTTAATA
1 TTTTT-A-ATATA-TTATTTTAA-A
*
3848746 TTTTTAATATATGTA-TTAAAA
1 TTTTTAATATAT-TATTTTAAA
3848767 TTTTTAA
1 TTTTTAA
3848774 ATTTTTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 5 0.12
20 1 0.02
21 12 0.28
22 5 0.12
23 7 0.16
24 7 0.16
25 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTAATATATTATTTTAAA
Found at i:3857727 original size:113 final size:113
Alignment explanation
Indices: 3857529--3857745 Score: 434
Period size: 113 Copynumber: 1.9 Consensus size: 113
3857519 AGCTCATGTA
3857529 ACAAGAATTATACTTACCTAATATTTTCAATACAATACAATAAACATCCATATATCCATTCAATG
1 ACAAGAATTATACTTACCTAATATTTTCAATACAATACAATAAACATCCATATATCCATTCAATG
3857594 CATTATTACCCTAATATGCACAAACTCAACATTCAAGTTCAAGTTAGT
66 CATTATTACCCTAATATGCACAAACTCAACATTCAAGTTCAAGTTAGT
3857642 ACAAGAATTATACTTACCTAATATTTTCAATACAATACAATAAACATCCATATATCCATTCAATG
1 ACAAGAATTATACTTACCTAATATTTTCAATACAATACAATAAACATCCATATATCCATTCAATG
3857707 CATTATTACCCTAATATGCACAAACTCAACATTCAAGTT
66 CATTATTACCCTAATATGCACAAACTCAACATTCAAGTT
3857746 AGTACAATAA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 104 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.32
Consensus pattern (113 bp):
ACAAGAATTATACTTACCTAATATTTTCAATACAATACAATAAACATCCATATATCCATTCAATG
CATTATTACCCTAATATGCACAAACTCAACATTCAAGTTCAAGTTAGT
Found at i:3862591 original size:22 final size:20
Alignment explanation
Indices: 3862565--3862623 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
3862555 AGTTTATACA
*
3862565 TAATTTATATATTACAAATTT
1 TAATTTATATATTA-AAATCT
*
3862586 TCAATTTAAAATATTAAAATCT
1 T-AATTT-ATATATTAAAATCT
3862608 TAATTT-TATAGTTAAA
1 TAATTTATATA-TTAAA
3862624 TTACAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 6 0.19
22 11 0.34
23 7 0.22
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATTTATATATTAAAATCT
Found at i:3863178 original size:2 final size:2
Alignment explanation
Indices: 3863171--3863212 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3863161 ACATTCTGTA
3863171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3863213 GTATGTATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3864690 original size:32 final size:32
Alignment explanation
Indices: 3864624--3864691 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
3864614 TTTTTGTTAA
* *
3864624 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
3864656 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
3864688 TGTT
1 TGTT
3864692 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:3864717 original size:27 final size:27
Alignment explanation
Indices: 3864687--3864759 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
3864677 TGTCTTGATT
3864687 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
3864714 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
3864746 TTGTTGGATATTGA
1 TTGTTAGATATTGA
3864760 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:3864739 original size:32 final size:32
Alignment explanation
Indices: 3864700--3864760 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
3864690 TTAGATATTG
3864700 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
3864732 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
3864761 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:3865777 original size:22 final size:22
Alignment explanation
Indices: 3865750--3865798 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
3865740 CAATATTGTT
*
3865750 GTTATCATGTGGTGTAATATTA
1 GTTATCATATGGTGTAATATTA
3865772 GTTATCATATGGTGTAATATTA
1 GTTATCATATGGTGTAATATTA
3865794 GTTAT
1 GTTAT
3865799 GCACTTGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (22 bp):
GTTATCATATGGTGTAATATTA
Found at i:3865861 original size:68 final size:68
Alignment explanation
Indices: 3865713--3865844 Score: 219
Period size: 68 Copynumber: 1.9 Consensus size: 68
3865703 ACTTTTAATG
* *
3865713 TGGTGTAATATTAGGTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTGTAATATTAGGTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATAGTAATTATC
3865778 ATA
66 ATA
* * *
3865781 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATAGTAATTAT
1 TGGTGTAATATTAGGTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATAGTAATTAT
3865845 GTATTTAGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (68 bp):
TGGTGTAATATTAGGTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATAGTAATTATC
ATA
Found at i:3866285 original size:29 final size:29
Alignment explanation
Indices: 3866252--3866321 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
3866242 ACACCAGAAA
* *
3866252 AATAAATCATTTTCTAGAAATTATTTTTC
1 AATAAATCATTTTCTAAAAATCATTTTTC
*
3866281 AATAAATTATTTTCTAAAAATCATTTTTC
1 AATAAATCATTTTCTAAAAATCATTTTTC
*
3866310 AA-AAAACATTTT
1 AATAAATCATTTT
3866322 ACCTATAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 8 0.22
29 28 0.78
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (29 bp):
AATAAATCATTTTCTAAAAATCATTTTTC
Found at i:3866315 original size:15 final size:15
Alignment explanation
Indices: 3866255--3866321 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
3866245 CCAGAAAAAT
* *
3866255 AAATCA-TTTTCTAG
1 AAATCATTTTTCAAA
* *
3866269 AAATTATTTTTCAAT
1 AAATCATTTTTCAAA
* *
3866284 AAATTA-TTTTCTAA
1 AAATCATTTTTCAAA
3866298 AAATCATTTTTCAAA
1 AAATCATTTTTCAAA
3866313 AAA-CATTTT
1 AAATCATTTT
3866322 ACCTATAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 22 0.50
15 22 0.50
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATCATTTTTCAAA
Found at i:3871152 original size:23 final size:23
Alignment explanation
Indices: 3871108--3871152 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3871098 AAGAAAAATT
*
3871108 ATTAAAAATTATTTTTAAAAAAC
1 ATTAAAAATTATTTATAAAAAAC
*
3871131 ATTAAATATTA-TTATAATAAAA
1 ATTAAAAATTATTTATAA-AAAA
3871153 TTTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTAAAAATTATTTATAAAAAAC
Found at i:3880625 original size:21 final size:21
Alignment explanation
Indices: 3880601--3880642 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3880591 TTCTGTAGGC
3880601 CTATTCTGCTCCGAGGTATGT
1 CTATTCTGCTCCGAGGTATGT
3880622 CTATTCTGCTCCGAGGTATGT
1 CTATTCTGCTCCGAGGTATGT
3880643 GGACCACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (21 bp):
CTATTCTGCTCCGAGGTATGT
Found at i:3881955 original size:7 final size:7
Alignment explanation
Indices: 3881943--3881976 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
3881933 CAACAAAACA
3881943 CCCTACT
1 CCCTACT
3881950 CCCTACT
1 CCCTACT
3881957 CCCTACT
1 CCCTACT
3881964 CCCTACT
1 CCCTACT
3881971 CCCTAC
1 CCCTAC
3881977 ACTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.59, G:0.00, T:0.26
Consensus pattern (7 bp):
CCCTACT
Found at i:3886717 original size:18 final size:18
Alignment explanation
Indices: 3886646--3886717 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
3886636 TATTATCAAT
3886646 ATTATTCAGTAAC-GATCA
1 ATTATTCAGTAACAG-TCA
* * * * *
3886664 ATTGTTTAATGACAATCA
1 ATTATTCAGTAACAGTCA
* *
3886682 GTTATTCAGTATCAGTCA
1 ATTATTCAGTAACAGTCA
*
3886700 ATTATTCAGTAACTGTCA
1 ATTATTCAGTAACAGTCA
3886718 GTATCATTCA
Statistics
Matches: 38, Mismatches: 15, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:3886854 original size:6 final size:6
Alignment explanation
Indices: 3886845--3886895 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
3886835 GGAATACAAC
* * * *
3886845 GTAACG GTAACA GTAACA GTAACA GTAACA GTAGCA GTAGCA GTGACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
3886893 GTA
1 GTA
3886896 GCTGTACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:3888007 original size:18 final size:19
Alignment explanation
Indices: 3887984--3888020 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3887974 TATGTACATG
3887984 ATATAATATGA-AAATATA
1 ATATAATATGAGAAATATA
*
3888002 ATATAATATTAGAAATATA
1 ATATAATATGAGAAATATA
3888021 TATGTGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
ATATAATATGAGAAATATA
Found at i:3889794 original size:16 final size:16
Alignment explanation
Indices: 3889773--3889820 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
3889763 TTTTGTGTAA
*
3889773 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
3889789 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
3889805 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
3889821 GTTATTGGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.12, C:0.06, G:0.42, T:0.40
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:3890828 original size:17 final size:16
Alignment explanation
Indices: 3890802--3890834 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
3890792 TTGTCTTTCT
3890802 TTTATTTATTTAATTA
1 TTTATTTATTTAATTA
3890818 TTTACTTTATTTAATTA
1 TTTA-TTTATTTAATTA
3890835 ATAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Found at i:3892614 original size:24 final size:24
Alignment explanation
Indices: 3892586--3892635 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3892576 ACCTGCGAAT
3892586 TAGTATGGACAGGTTGAACTAGGC
1 TAGTATGGACAGGTTGAACTAGGC
3892610 TAGTATGGACAGGTTGAACTAGGC
1 TAGTATGGACAGGTTGAACTAGGC
3892634 TA
1 TA
3892636 AAAATCGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (24 bp):
TAGTATGGACAGGTTGAACTAGGC
Found at i:3898460 original size:18 final size:15
Alignment explanation
Indices: 3898419--3898469 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
3898409 GTAAGCAAAT
3898419 AATTCAAAAATAAAAA
1 AATT-AAAAATAAAAA
3898435 AATTAAAAATAAAATTA
1 AATTAAAAATAAAA--A
3898452 AAGTTAAAAATATAAAA
1 AA-TTAAAAATA-AAAA
3898469 A
1 A
3898470 GTTCATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.32
16 4 0.13
17 5 0.16
18 9 0.29
19 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (15 bp):
AATTAAAAATAAAAA
Found at i:3903823 original size:46 final size:46
Alignment explanation
Indices: 3903677--3903849 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
3903667 GGTTGAGCAT
*
3903677 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
3903722 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
3903767 ATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
3903814 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3903850 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 30 0.28
46 54 0.51
47 6 0.06
49 4 0.04
50 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:3911146 original size:14 final size:14
Alignment explanation
Indices: 3911127--3911155 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3911117 TACCGAGTAT
3911127 TGATTTCGGCATTC
1 TGATTTCGGCATTC
3911141 TGATTTCGGCATTC
1 TGATTTCGGCATTC
3911155 T
1 T
3911156 ACGAAGACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (14 bp):
TGATTTCGGCATTC
Found at i:3911302 original size:46 final size:46
Alignment explanation
Indices: 3911252--3911427 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
3911242 TGGTTGAGCA
3911252 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3911298 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
3911343 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3911391 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3911428 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3911408 original size:93 final size:93
Alignment explanation
Indices: 3911249--3911420 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
3911239 GGATGGTTGA
* *
3911249 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3911314 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
3911342 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
3911407 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
3911421 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:3913360 original size:27 final size:27
Alignment explanation
Indices: 3913308--3913366 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
3913298 TTCGTGTTTT
*
3913308 TATATATATTATAAATAAATATAATAA
1 TATATATATTATAAATAAATACAATAA
3913335 TATAT-TATTACTAAA-AAATAACAATAA
1 TATATATATTA-TAAATAAAT-ACAATAA
3913362 T-TATA
1 TATATA
3913367 ATTGTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (27 bp):
TATATATATTATAAATAAATACAATAA
Found at i:3916665 original size:117 final size:117
Alignment explanation
Indices: 3916459--3916691 Score: 457
Period size: 117 Copynumber: 2.0 Consensus size: 117
3916449 TAACATCGAG
3916459 GATTTACCAAGATAGAGATGGGATAGTAAGTGCTAGCTTACCTTGAGGTTTGCTTATGAAAGATG
1 GATTTACCAAGATAGAGATGGGATAGTAAGTGCTAGCTTACCTTGAGGTTTGCTTATGAAAGATG
3916524 AAGTGCAAAGGTAGTCGTGGGAGCTGGAAATGGGTGTGGAGACTTTGTGGTT
66 AAGTGCAAAGGTAGTCGTGGGAGCTGGAAATGGGTGTGGAGACTTTGTGGTT
*
3916576 GATTTACCAAGATAGAGATGGGATAGTAAGTGCTAGTTTACCTTGAGGTTTGCTTATGAAAGATG
1 GATTTACCAAGATAGAGATGGGATAGTAAGTGCTAGCTTACCTTGAGGTTTGCTTATGAAAGATG
3916641 AAGTGCAAAGGTAGTCGTGGGAGCTGGAAATGGGTGTGGAGACTTTGTGGT
66 AAGTGCAAAGGTAGTCGTGGGAGCTGGAAATGGGTGTGGAGACTTTGTGGT
3916692 CCTCAACGAA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.27, C:0.09, G:0.34, T:0.29
Consensus pattern (117 bp):
GATTTACCAAGATAGAGATGGGATAGTAAGTGCTAGCTTACCTTGAGGTTTGCTTATGAAAGATG
AAGTGCAAAGGTAGTCGTGGGAGCTGGAAATGGGTGTGGAGACTTTGTGGTT
Found at i:3921689 original size:5 final size:5
Alignment explanation
Indices: 3921679--3921718 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
3921669 TTTTGTGAAA
*
3921679 AAAAT AAAAT --AAT AAAAT AGAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
3921719 GAACACACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
3 3 0.10
4 4 0.13
5 23 0.77
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3921704 original size:18 final size:19
Alignment explanation
Indices: 3921681--3921716 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3921671 TTGTGAAAAA
3921681 AATAAAAT-AATAAAATAG
1 AATAAAATAAATAAAATAG
3921699 AATAAAATAAATAAAATA
1 AATAAAATAAATAAAATA
3921717 AAGAACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
AATAAAATAAATAAAATAG
Found at i:3921713 original size:9 final size:9
Alignment explanation
Indices: 3921676--3921718 Score: 63
Period size: 8 Copynumber: 4.9 Consensus size: 9
3921666 GTATTTTGTG
3921676 AAAA-AAAT
1 AAAATAAAT
3921684 AAAAT-AAT
1 AAAATAAAT
3921692 AAAATAGAAT
1 AAAATA-AAT
3921702 AAAATAAAT
1 AAAATAAAT
3921711 AAAATAAA
1 AAAATAAA
3921719 GAACACACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.38
9 11 0.34
10 9 0.28
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:3927572 original size:15 final size:16
Alignment explanation
Indices: 3927552--3927584 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3927542 ACAAATAATT
3927552 TAAAATTTATA-AAAA
1 TAAAATTTATAGAAAA
*
3927567 TAAAATTTTTAGAAAA
1 TAAAATTTATAGAAAA
3927583 TA
1 TA
3927585 TGAAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TAAAATTTATAGAAAA
Found at i:3933549 original size:16 final size:13
Alignment explanation
Indices: 3933517--3933542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3933507 AATTGTAATA
3933517 AATATTAATTATT
1 AATATTAATTATT
3933530 AATATTAATTATT
1 AATATTAATTATT
3933543 TTTAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATTAATTATT
Found at i:3933650 original size:16 final size:16
Alignment explanation
Indices: 3933631--3933661 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3933621 AATTTATTAA
3933631 AATAATATATTATATT
1 AATAATATATTATATT
*
3933647 AATAATTTATTATAT
1 AATAATATATTATAT
3933662 GACTAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATATATTATATT
Found at i:3933726 original size:10 final size:10
Alignment explanation
Indices: 3933710--3933752 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
3933700 TTAAAAAATA
3933710 TAATAATTTT
1 TAATAATTTT
*
3933720 TATTAATATTT
1 TAATAAT-TTT
3933731 TAATAATTTT
1 TAATAATTTT
*
3933741 AAAT-ATTTT
1 TAATAATTTT
3933750 TAA
1 TAA
3933753 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 7 0.25
10 12 0.43
11 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TAATAATTTT
Found at i:3933745 original size:18 final size:18
Alignment explanation
Indices: 3933690--3933749 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
3933680 AATATGTATG
* * *
3933690 TTTAATAATATTAAAAAA
1 TTTAATAATTTTAAATAT
*
3933708 TATAATAATTTTTATTAATAT
1 TTTAATAA-TTTTA--AATAT
3933729 TTTAATAATTTTAAATAT
1 TTTAATAATTTTAAATAT
3933747 TTT
1 TTT
3933750 TAAAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 15 0.44
19 4 0.12
20 5 0.15
21 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATAATTTTAAATAT
Found at i:3939016 original size:18 final size:18
Alignment explanation
Indices: 3938993--3939032 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3938983 GCTAGTAATG
3938993 AAAGCAAAATATTTTCCA
1 AAAGCAAAATATTTTCCA
3939011 AAAGCAAAATATTTTCCA
1 AAAGCAAAATATTTTCCA
3939029 AAAG
1 AAAG
3939033 GGGATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (18 bp):
AAAGCAAAATATTTTCCA
Found at i:3941071 original size:14 final size:15
Alignment explanation
Indices: 3941054--3941084 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3941044 TATAGTGTAG
3941054 TAAATAT-TAAAAAA
1 TAAATATATAAAAAA
3941068 TAAATATATAAAAAA
1 TAAATATATAAAAAA
3941083 TA
1 TA
3941085 GGACATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATATATAAAAAA
Found at i:3946188 original size:5 final size:6
Alignment explanation
Indices: 3946173--3946197 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3946163 AAAAAGAGAT
3946173 TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG T
3946198 GAGTCTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:3951244 original size:17 final size:19
Alignment explanation
Indices: 3951211--3951250 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
3951201 CGTGTGGACT
3951211 ACCCGTGTGGACCCACAC-
1 ACCCGTGTGGACCCACACG
3951229 ACCCGTGTGG-CCCACACG
1 ACCCGTGTGGACCCACACG
3951247 ACCC
1 ACCC
3951251 AAATCAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.20, C:0.47, G:0.23, T:0.10
Consensus pattern (19 bp):
ACCCGTGTGGACCCACACG
Found at i:3952483 original size:2 final size:2
Alignment explanation
Indices: 3952476--3952506 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3952466 ACCAATTATC
3952476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3952507 AGTTATGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3955733 original size:2 final size:2
Alignment explanation
Indices: 3955714--3955755 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
3955704 CAAAGACCAC
* *
3955714 AT AT AT AA AT AT AA AT AT AT AT AT AT AT A- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3955754 AT
1 AT
3955756 TCAGTTCAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3955753 original size:16 final size:16
Alignment explanation
Indices: 3955714--3955755 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3955704 CAAAGACCAC
*
3955714 ATATATAAATATAAAT
1 ATATATATATATAAAT
*
3955730 ATATATATATATAATT
1 ATATATATATATAAAT
3955746 ATATATATAT
1 ATATATATAT
3955756 TCAGTTCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:3973465 original size:36 final size:36
Alignment explanation
Indices: 3973418--3973490 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3973408 CGAGTCGATG
3973418 CATGTCTTGCAGGCCTTTCATTATTAAGCATGTATC
1 CATGTCTTGCAGGCCTTTCATTATTAAGCATGTATC
3973454 CATGTCTTGCAGGCCTTTCATTATTAAGCATGTATC
1 CATGTCTTGCAGGCCTTTCATTATTAAGCATGTATC
3973490 C
1 C
3973491 GATGATGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (36 bp):
CATGTCTTGCAGGCCTTTCATTATTAAGCATGTATC
Found at i:3977661 original size:3 final size:3
Alignment explanation
Indices: 3977653--3977709 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
3977643 ATTTTCGGCA
*
3977653 AAG AAG AAG AAG AAG AGAG AAG AAG -GG AAG AAG -AG AAG AAG AAG
1 AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
3977697 AAAG AAA AAG AAG
1 -AAG AAG AAG AAG
3977710 GAGAGGAGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 6 0.13
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3977675 original size:16 final size:16
Alignment explanation
Indices: 3977654--3977714 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
3977644 TTTTCGGCAA
3977654 AGAAGAAGAAGAAGAG
1 AGAAGAAGAAGAAGAG
*
3977670 AGAAGAAG-GGAAGAAG
1 AGAAGAAGAAGAAG-AG
3977686 AGAAGAAGAAGAA-AG
1 AGAAGAAGAAGAAGAG
*
3977701 A-AA-AAGAAGGAGAG
1 AGAAGAAGAAGAAGAG
3977715 GAGGAGAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 7 0.18
14 4 0.10
15 7 0.18
16 18 0.46
17 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
AGAAGAAGAAGAAGAG
Found at i:3977694 original size:8 final size:8
Alignment explanation
Indices: 3977654--3977694 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
3977644 TTTTCGGCAA
3977654 AGAAGAAG
1 AGAAGAAG
3977662 AAGAAG-AG
1 -AGAAGAAG
3977670 AGAAGAAG
1 AGAAGAAG
*
3977678 GGAAGAAG
1 AGAAGAAG
3977686 AGAAGAAG
1 AGAAGAAG
3977694 A
1 A
3977695 AGAAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 5 0.17
8 19 0.66
9 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (8 bp):
AGAAGAAG
Found at i:3977768 original size:17 final size:16
Alignment explanation
Indices: 3977748--3977800 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
3977738 AGAGAAAAAA
3977748 AAGAAAAAGAGAAGGAG
1 AAGAAAAA-AGAAGGAG
*
3977765 AAG-AAGAAG-AGG-G
1 AAGAAAAAAGAAGGAG
*
3977778 AAGGAAAAAGAAGGA-
1 AAGAAAAAAGAAGGAG
3977793 AAGAAAAA
1 AAGAAAAA
3977801 GGTAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.13
14 8 0.27
15 12 0.40
16 3 0.10
17 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAGAAGGAG
Found at i:3977788 original size:14 final size:14
Alignment explanation
Indices: 3977747--3977801 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
3977737 GAGAGAAAAA
3977747 AAAGAAAAAGAGAAGG
1 AAAG-AAAA-AGAAGG
* *
3977763 AGAAGAAGAAGAGGG
1 A-AAGAAAAAGAAGG
*
3977778 AAGGAAAAAGAAGG
1 AAAGAAAAAGAAGG
3977792 AAAGAAAAAG
1 AAAGAAAAAG
3977802 GTAATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.59
15 6 0.19
16 4 0.12
17 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAGG
Found at i:3978283 original size:30 final size:31
Alignment explanation
Indices: 3978243--3978301 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
3978233 TTTTGTTAAA
*
3978243 ATAATATAAAAAAATAAAATATGAAAATAGT
1 ATAATATAAAAAAATAAAATACGAAAATAGT
*
3978274 ATAAT-TAAAAAAATAAAATCCGAAAATA
1 ATAATATAAAAAAATAAAATACGAAAATA
3978302 AAAAAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (31 bp):
ATAATATAAAAAAATAAAATACGAAAATAGT
Found at i:3978393 original size:136 final size:133
Alignment explanation
Indices: 3978266--3978509 Score: 294
Period size: 136 Copynumber: 1.8 Consensus size: 133
3978256 ATAAAATATG
* * * *
3978266 AAAATAGTATAATTAAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAGGTGCCAAAGTCA-
1 AAAATAATATAATTAAAAAAATAAAATACG-----AAAAAAATACGAACAAAGTGCCAAAATCAG
* **
3978330 GGTTACTTATTAAATTAATATAAA-AAAACTTAAATAATACATTTGAAAGATTTTATGCTAAAAT
61 GGTTACTTACTAAAAAAATATAAATAAAACTTAAATAATACATTTGAAAGATTTTATGCTAAAAT
3978394 AAAACACC
126 AAAACACC
* * * * * *
3978402 AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
1 AAAATAATATAATTAAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTA
* *
3978467 TTTACTAAAAAAATATAAATAATACTTAAATAATACATTTGAA
66 CTTACTAAAAAAATATAAATAAAACTTAAATAATACATTTGAA
3978510 GCATTATGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
131 24 0.26
132 20 0.22
133 22 0.24
136 25 0.27
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (133 bp):
AAAATAATATAATTAAAAAAATAAAATACGAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTA
CTTACTAAAAAAATATAAATAAAACTTAAATAATACATTTGAAAGATTTTATGCTAAAATAAAAC
ACC
Found at i:3978697 original size:12 final size:13
Alignment explanation
Indices: 3978680--3978715 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
3978670 TTTTTTTGCT
3978680 AAAATAATATAA-
1 AAAATAATATAAG
*
3978692 AAAATAAAATAAG
1 AAAATAATATAAG
3978705 AAAATAATATA
1 AAAATAATATA
3978716 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:3978711 original size:303 final size:300
Alignment explanation
Indices: 3978402--3979188 Score: 1050
Period size: 302 Copynumber: 2.6 Consensus size: 300
3978392 ATAAAACACC
3978402 AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
1 AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
* * *
3978467 TTTACTAAAAAAATATAAATAATACTTAAATAATACATTTGAAGCATTATGTACTAAAATAATAT
66 TTTATTAAAAAAATATAAA-AACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
3978532 AAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAA
130 AAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAA-AAAAAAA-TACGAA
* *
3978597 GAAAGTATCAAAATCAGGGTTATTTAGTAAAAAACCCTTAATATAAAGAAACA-GT-T-A-AT-T
193 AAAAGTATCAAAATCAGGGTTATTCA-T--AAAA---TTAATATAAA-AAACACGTATAATATCT
**
3978657 AATACATTTG-AATTTTTTTTGCTAAAATAATAT-AAAAAATAAAATAAG
251 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAAG
* *
3978705 AAAATAATATATTTTAAAAAATAATATACGAAAAAAGTATGAATAAAGTGCTAAAATCAGGGATA
1 AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
*
3978770 TTTATTGAAAAAAATA-AAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
66 TTTATT-AAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
3978834 GAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAC-----AAAAAAATACGAAAA
130 AAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAAAAAATACGAAAA
* * * *
3978894 AAGTGTCAAAATCAGGGTTATTCATTAAATTAGTATAAAAAACACTTACATAATATACCTAATAC
195 AAGTATCAAAATCAGGGTTATTCATAAAATTAATATAAAAAACACGT--ATAATAT--CTAATAC
*
3978959 ATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAGG
256 ATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAAG
3979004 AAAATAATATATTTTAAAAAATAATATACG-AAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
1 AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
* * *
3979068 TTTATTAAAAAAATATTTAAAACACTTAAATAATATATTTAAAACATTATGTACTAAAATAAGGG
66 TTTATTAAAAAAATA-TAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAA---
* * * *
3979133 TTTTAA-AATTAAATAATACGAAAGTAATATA-TTTAAAAAA-AAGATACGAAAAAAAA
127 TATAAAGAAAT-AA-AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAAA
3979189 TACGAAAAAG
Statistics
Matches: 433, Mismatches: 27, Indels: 45
0.86 0.05 0.09
Matches are distributed among these distances:
288 5 0.01
289 10 0.02
292 4 0.01
293 1 0.00
294 3 0.01
295 29 0.07
296 7 0.02
297 20 0.05
298 59 0.14
299 85 0.20
301 10 0.02
302 100 0.23
303 87 0.20
304 9 0.02
306 4 0.01
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (300 bp):
AAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGCTAAAATCAGGGTTA
TTTATTAAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATA
AAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAAAAAATACGAAAAA
AGTATCAAAATCAGGGTTATTCATAAAATTAATATAAAAAACACGTATAATATCTAATACATTTG
AAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAAG
Found at i:3979007 original size:154 final size:154
Alignment explanation
Indices: 3978678--3979104 Score: 527
Period size: 154 Copynumber: 2.8 Consensus size: 154
3978668 ATTTTTTTTG
* * *
3978678 CTAAAATAATAT-AAAAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAG
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAC-AAAAAAA
* * * * *
3978742 TATGAATAAAGTGCTAAAATCAGGGATATTTATTGAAAAAA-ATAAAAAACAC-----TAA-A-A
65 TACGAAAAAAGTGCTAAAATCAGGGTTATTCATTAAAAAAATATAAAAAACACTTAAATAATATA
3978799 --TAATACATTTGAAACATTATGTA
130 CCTAATACATTTGAAACATTATGTA
* *
3978822 CTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
** * *
3978887 ACGAAAAAAGTG-TCAAAATCAGGGTTATTCATTAAATTAGTATAAAAAACACTTACATAATATA
66 ACGAAAAAAGTGCT-AAAATCAGGGTTATTCATTAAAAAAATATAAAAAACACTTAAATAATATA
* * *
3978951 CCTAATACATTTGAAACATTTTTTG
130 CCTAATACATTTGAAACATTATGTA
* * *
3978976 CTAAAATAATATAAAAAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACGAAAAAAT
1 CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
* * * **
3979041 ATGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATTTAAAACACTTAAATAATATA
66 ACGAAAAAAGTGCTAAAATCAGGGTTATTCATTAAAAAAATATAAAAAACACTTAAATAATATA
3979105 TTTAAAACAT
Statistics
Matches: 241, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
143 1 0.00
144 49 0.20
145 52 0.22
150 3 0.01
151 1 0.00
152 1 0.00
154 133 0.55
155 1 0.00
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.29
Consensus pattern (154 bp):
CTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
ACGAAAAAAGTGCTAAAATCAGGGTTATTCATTAAAAAAATATAAAAAACACTTAAATAATATAC
CTAATACATTTGAAACATTATGTA
Done.