Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 374 of 410
Found at i:114239623 original size:4 final size:4
Alignment explanation
Indices: 114239608--114239655 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
114239598 ATTCATTTGA
* * * *
114239608 CATT CATG CATT CATT CATG CATT CATT CATG CATT CATT CATA CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
114239656 GCATATCCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (4 bp):
CATT
Found at i:114239625 original size:12 final size:12
Alignment explanation
Indices: 114239608--114239655 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
114239598 ATTCATTTGA
114239608 CATTCATGCATT
1 CATTCATGCATT
114239620 CATTCATGCATT
1 CATTCATGCATT
114239632 CATTCATGCATT
1 CATTCATGCATT
*
114239644 CATTCATACATT
1 CATTCATGCATT
114239656 GCATATCCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:114248038 original size:73 final size:73
Alignment explanation
Indices: 114247947--114248314 Score: 385
Period size: 73 Copynumber: 5.0 Consensus size: 73
114247937 ATTTCTGATT
*
114247947 TTCA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTGGTTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGT-ATTT
* *
114248010 TAATTTATG
65 CAATTTCTG
* * * * *
114248019 TTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTAAGGTATT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTA-T
114248083 TTCAATTTCTGG
63 TTCAATTTCT-G
* *
114248095 TT--T-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCAT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGT-AT
114248156 TTCAATTTCTG
63 TTCAATTTCTG
** * *
114248167 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTAATTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGT-ATTT
114248231 CAATTTCTG
65 CAATTTCTG
** * * * *
114248240 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTCTT
1 TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGT-AT
114248304 TTCAATTTCTG
63 TTCAATTTCTG
114248315 GTTTTCAATT
Statistics
Matches: 258, Mismatches: 23, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
72 10 0.04
73 161 0.62
74 3 0.01
75 80 0.31
76 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (73 bp):
TTCATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTC
AATTTCTG
Found at i:114248261 original size:148 final size:147
Alignment explanation
Indices: 114247952--114248794 Score: 500
Period size: 148 Copynumber: 5.5 Consensus size: 147
114247942 TGATTTTCAA
* ** *
114247952 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTGGTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCATTTCAAT
* * * * * *
114248014 TTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTAAGG
65 TTCTGTT-TTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTT-GCACACACGCTAAGG
*
114248079 TATTTTCAATTTCTGGTTTT
128 TAATTTCAATTTCTGGTTTT
114248099 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCATTTCAATT
* * *
114248163 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T-CAAGACACGCTGAGGT
66 TCTGTTT-TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGC-ACACACGCTAAGGT
114248226 AATTTCAATTTCT-GTTTGT
129 AATTTCAATTTCTGGTTT-T
* *
114248245 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTCTTTTCAAT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCATTTCAAT
** *** **** * ** * ** * ** * *
114248310 TTCTGGTTTTC-AATTTCTGTTCATAAAAAAAAAAAAATCAACTCA-TATTGCGAGAGGTGAGTT
65 TTCT-GTTTTCAAAAATCAACTCAT--ATTGCAAGAGGTGAGTTGAGCCTTGC-ACA---CA---
* * ** * * *
114248373 GAGCCTCAGG-ACACGCTGAGGTATTTTTAAATTTCTGTTTTT
120 -CG-CTAAGGTA-A-TTTCA---ATTTCT--G-----G-TTTT
* * * *
114248415 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTCCAAT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCATTTCAAT
* * * * *
114248478 TTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGG
65 TTCTGTTT-TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGCACACACGCT-A--
** * *
114248543 AGGTCTTTTCAATTT-TTGTTCGTAAAAA
125 AGGTAATTTCAATTTCTGGTT--T----T
* *
114248571 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGT-ATTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCA--TTTCA
* * ** *
114248632 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGACACGCTGAG
63 ATTTCTG-TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGCACACACGCTAAG
114248696 GTAATTTCAATTTCT-GTTTGT
127 GTAATTTCAATTTCTGGTTT-T
* *
114248717 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTCTTTTCAAT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCATTTCAAT
*
114248782 ATCTGTTCTTCAA
65 TTCTGTT-TTCAA
114248795 TTTCTGTTCG
Statistics
Matches: 537, Mismatches: 99, Indels: 119
0.71 0.13 0.16
Matches are distributed among these distances:
145 7 0.01
146 63 0.12
147 49 0.09
148 139 0.26
149 23 0.04
150 6 0.01
151 17 0.03
152 2 0.00
153 1 0.00
154 7 0.01
155 51 0.09
156 50 0.09
157 5 0.01
158 7 0.01
159 6 0.01
160 2 0.00
161 1 0.00
162 7 0.01
163 3 0.01
165 1 0.00
167 11 0.02
168 25 0.05
169 9 0.02
170 42 0.08
171 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (147 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCATTTCAATT
TCTGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGCACACACGCTAAGGTAA
TTTCAATTTCTGGTTTT
Found at i:114248321 original size:14 final size:14
Alignment explanation
Indices: 114248302--114248328 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114248292 TGCTGAGGTC
114248302 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
114248316 TTTTCAATTTCTG
1 TTTTCAATTTCTG
114248329 TTCATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:114248430 original size:96 final size:94
Alignment explanation
Indices: 114248246--114248430 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 94
114248236 TCTGTTTGTC
* * *
114248246 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--CACACGCTGAGGTCTTTTAAATT
** ***
114248311 TCTGGTTTTCAATTTCTGTTCATAAAAAAAA
64 TCTGGTTTTCAAAATCAACTCATAAAAAAAA
*
114248342 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCACACGCTGAGGT-CTTTTAAATT
*
114248406 TCTGTTTTTCAAAAATCAACTCATA
64 TCTGGTTTTC-AAAATCAACTCATA
114248431 TTGCGAGAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
94 11 0.14
95 17 0.22
96 46 0.61
97 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (94 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCACACGCTGAGGTCTTTTAAATTTC
TGGTTTTCAAAATCAACTCATAAAAAAAA
Found at i:114248463 original size:74 final size:74
Alignment explanation
Indices: 114248342--114248757 Score: 595
Period size: 73 Copynumber: 5.5 Consensus size: 74
114248332 ATAAAAAAAA
* *
114248342 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTCAATTT
*
114248407 CTGTTTTTC
66 CTGTTTGTC
* *
114248416 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTCCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTCAATTT
114248480 CTGTTTGTC
66 CTGTTTGTC
* * *
114248489 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGG-AGGTCTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTA--T-TTTTC
* * *
114248553 AATTTTTGTTCGTAAAAA
61 AATTTCTGTTTGT----C
* *
114248571 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTCAATTT
*
114248636 CTGTTTTTC
66 CTGTTTGTC
*
114248645 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTCAATTT
114248709 CTGTTTGTC
66 CTGTTTGTC
114248718 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
114248758 CTCACATGTT
Statistics
Matches: 305, Mismatches: 26, Indels: 23
0.86 0.07 0.06
Matches are distributed among these distances:
73 110 0.36
74 107 0.35
75 10 0.03
78 28 0.09
79 1 0.00
80 10 0.03
81 1 0.00
82 38 0.12
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTCAATTT
CTGTTTGTC
Found at i:114248738 original size:229 final size:225
Alignment explanation
Indices: 114247937--114249435 Score: 1345
Period size: 229 Copynumber: 6.4 Consensus size: 225
114247927 TGATGTTTTT
* *
114247937 ATTTCTGATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
** * * ** * * * * *
114248002 GGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCT
64 GGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
* * *
114248067 CACACGCT-A---AGGTATTTTCAATTTCTGGTTT---TAAAATCAACTCATATTGCGAGAGGTG
129 CACATGCTGAGGTAGGTCTTTTCAATTTCT-GTTTAAAAAAAATCAACTCATATTGCGAGAGGTG
* * *
114248125 AGTTGAGCCTCGGCTCACATGCTGAGGTCA-TTTCA
193 AGTTGAGCCTCGG--GACACGCTGAGGT-ATTTTAA
* **
114248160 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
*
114248225 TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
66 TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
**
114248290 CATGCTGAGGTCTTTTCAATTTCTGGTTTTCAATTTCTGTTCATAAAAAAAAAAAAATCAACTCA
131 CATGCTGAGG-----T--AGGTC---TTTTCAATTTCTGTT--T---AAA--AAAAATCAACTCA
*
114248355 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
179 TATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTAA
114248403 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
* *
114248468 TAATTCCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
66 TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
*
114248533 CATGCTGAGG-AGGTCTTTTCAATTTTTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGT
131 CATGCTGAGGTAGGTCTTTTCAATTTCTGTT--T--AAAAAAAATCAACTCATATTGCGAGAGGT
*
114248597 GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
192 GAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTAA
114248632 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
114248697 TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
66 TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* **
114248762 CATGTTGAGGTCTTTTCAATATCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAAATCAACTCATA
131 CATGCTGAGG-----T--AGGTC--TT-TTCAATTTCTGTT--T---AAAAAAAATCAACTCATA
* * *
114248827 TTGCGAGAGGTGAGTTGAGCCTCGGGACACGGTGAGGTAATTTCA
181 TTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTAA
* * *
114248872 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGA
* *
114248937 GGTCTTTCCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAAAAAAATCAACTCATATTGCGAG
64 GG----T--AA--------TTTCAATTTCTGTTTGT------CAAAAATCAACTCATATTGCGAG
* * ***
114249002 AGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA--T-TTTTAAATTTCTGTTTTTCAAAAATC
109 AGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTAGGTCTTTTCAATTTCTGTTTAAAAAAAATC
* * * **
114249061 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGTTGAGGTAATTGCA
173 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTAA
* * * * ** **
114249114 ATTTCT-ATTGTCAAAAAAATCAATTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACGTGCT
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCT
*
114249178 GAGGTATTTTCAATTTCTGTTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
62 GAGGTAATTTCAA------TTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* ***
114249242 CCTCAGG---ACATGCTGAGGTA----ATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGC
121 CCTC-GGCTCACATGCTGAGGTAGGTCTTTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGC
* * * *
114249300 AAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTGTTGAT
185 GAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT-TT-AA
* * * * **
114249343 TTTTGTGTTTTAATTTCAAAAAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCATGA
1 ATTTCTG--TT--TTTC-----AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
*
114249408 CACGCTGAGGTATTTTCAATTTCTGTTT
56 CACGCTGAGGTAATTTCAATTTCTGTTT
114249436 TTTTTCTAAT
Statistics
Matches: 1102, Mismatches: 92, Indels: 157
0.82 0.07 0.12
Matches are distributed among these distances:
221 111 0.10
222 1 0.00
223 11 0.01
227 67 0.06
228 53 0.05
229 208 0.19
230 9 0.01
231 5 0.00
232 19 0.02
234 6 0.01
235 25 0.02
236 17 0.02
237 8 0.01
238 33 0.03
239 3 0.00
240 71 0.06
241 66 0.06
242 84 0.08
243 181 0.16
244 38 0.03
245 1 0.00
246 1 0.00
247 12 0.01
248 4 0.00
251 1 0.00
253 1 0.00
255 1 0.00
256 16 0.01
260 9 0.01
262 38 0.03
263 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (225 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
CATGCTGAGGTAGGTCTTTTCAATTTCTGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCGGGACACGCTGAGGTATTTTAA
Found at i:114248876 original size:396 final size:382
Alignment explanation
Indices: 114248341--114249437 Score: 1389
Period size: 396 Copynumber: 2.8 Consensus size: 382
114248331 CATAAAAAAA
* ** * *
114248341 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTTAA
1 AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAA
*
114248403 -A----TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
65 TATCTGTTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
* *
114248463 TGAGGTAATTCCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
130 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
114248528 GCTCACATGCTGAGGAGGTCTTTTCAATTTTTGTTCGT-AAAAAAAAAATCAACTCATATTGCGA
195 GCTCACATGCTGAGGA-GT-TTTTCAATTTTTGTTCGTAAAAAAAAAAATCAACTCATATTGCGA
114248592 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTC
258 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTC
* *
114248657 ATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC
323 ATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTGCAATTTCT-ATTGTC
* ** * *
114248718 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTCTTTTCAAT
1 AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAAT
114248782 ATCTGTTCTTCAAT-TTCTGTTCGTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 ATCTG-T-TTC--TGTT-TG-TC--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
114248846 CCTCGGGACACGGTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGT
117 CCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGT
*
114248911 GAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTCCAATTTTTGTTTTTCAATTTCTGTTCGTAAA
182 GAGTTGAGCCTCGGCTCACATGCTGAGG--------A-----GTTTTTCAATTTTTGTTCGT-AA
114248976 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
233 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
* *
114249041 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGTTGAGG
298 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
114249106 TAATTGCAATTTCTATTGTC
363 TAATTGCAATTTCTATTGTC
* *
114249126 AAAAAAATCAATTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
* * *
114249191 TTTCTGTTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
65 TATCTGTTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
* *
114249255 TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
130 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
** * * * **
114249320 GGGCAC--GCTGAGGAATTGTT-GATTTTTGTGTTTTAATTTCAAAAAAATAAATCAACTCATAT
195 GCTCACATGCTGAGGAGTTTTTCAATTTTTGT-TCGT-A----AAAAAAA-AAATCAACTCATAT
* * * *
114249382 TGTGAGAGGTGAATTGAGCCTCATGACACGCTGAGGTA-TTTTCAATTTCTGTTTTT
253 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTT
114249438 TTTCTAATTT
Statistics
Matches: 636, Mismatches: 39, Indels: 82
0.84 0.05 0.11
Matches are distributed among these distances:
375 2 0.00
376 38 0.06
378 16 0.03
379 1 0.00
380 7 0.01
381 8 0.01
384 1 0.00
385 27 0.04
386 52 0.08
387 2 0.00
388 2 0.00
394 7 0.01
396 234 0.37
404 1 0.00
405 2 0.00
406 3 0.00
407 19 0.03
408 10 0.02
409 143 0.22
410 61 0.10
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (382 bp):
AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAAT
ATCTGTTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
GAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
CTCACATGCTGAGGAGTTTTTCAATTTTTGTTCGTAAAAAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATA
TTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTGCAATTTCTATTGTC
Found at i:114248921 original size:167 final size:168
Alignment explanation
Indices: 114248645--114249106 Score: 795
Period size: 167 Copynumber: 2.8 Consensus size: 168
114248635 TCTGTTTTTC
114248645 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
114248710 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTCT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTCT
*
114248775 TTTCAATATCTGTTCTTCAATTTCTGTTCGT-AAAAAA
131 TTCCAATATCTGTTCTTCAATTTCTGTTCGTAAAAAAA
*
114248812 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGGTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
*
114248877 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTCT
* * *
114248942 TTCCAATTTTTGTTTTTCAATTTCTGTTCGTAAAAAAA
131 TTCCAATATCTGTTCTTCAATTTCTGTTCGTAAAAAAA
* * *
114248980 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
* *
114249045 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACATGTTGAGGT
65 CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGT
114249107 AATTGCAATT
Statistics
Matches: 280, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
167 166 0.59
168 58 0.21
169 56 0.20
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (168 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTCT
TTCCAATATCTGTTCTTCAATTTCTGTTCGTAAAAAAA
Found at i:114249081 original size:74 final size:73
Alignment explanation
Indices: 114248980--114249336 Score: 416
Period size: 74 Copynumber: 4.8 Consensus size: 73
114248970 CGTAAAAAAA
* *
114248980 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTT
114249045 CTGTTTTTC
65 CTGTTTTTC
* * * *
114249054 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGTTGAGGTAATTGCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
114249119 T-ATTGTC
66 TGTTTTTC
* * ** * *
114249126 AAAAAAATCAATTCATATTGCAAGAAATGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTAATTTCA
114249190 ATTTCTGTTTCTGTTTGTC
61 ATTTCTG----T-TTT-TC
*
114249209 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
114249273 TGTTTTTC
66 TGTTTTTC
* * *
114249281 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG-AATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
114249337 GTTGATTTTT
Statistics
Matches: 239, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
72 10 0.04
73 61 0.26
74 88 0.37
76 18 0.08
78 21 0.09
80 35 0.15
81 2 0.01
82 2 0.01
83 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTTC
Found at i:114249238 original size:154 final size:148
Alignment explanation
Indices: 114248978--114249432 Score: 470
Period size: 154 Copynumber: 3.0 Consensus size: 148
114248968 TTCGTAAAAA
*
114248978 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAAT
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAAAT
* *
114249043 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGTTGAGGTA
65 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA
114249108 ATTGCAATTTCT-ATTGTC
130 ATTGCAATTTCTGATTGTC
* ** * *
114249126 AAAAAAATCAATTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACGTGCTGAGGTA-TTTTCA
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG-ACAC--GCTGAGGTATTTTTAA
114249190 ATTTCTGTTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
63 ATTTCTG----T-TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
* * *
114249254 CTGAGGTAATTTCAATTTCTGTTTTTC
122 CTGAGGTAATTGCAATTTCTGATTGTC
* * * **
114249281 --AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTGTTGATT
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATT-TTTAAA
* * * *
114249344 TTTGTGTTTTAATTTCAAAAAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCATGAC
64 TTTCTG--TT--TTTC-----AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
114249409 ACGCTGAGGTATTTTCAATTTCTG
119 ATGCTGAGGTAATTGCAATTTCTG
114249433 TTTTTTTTCT
Statistics
Matches: 258, Mismatches: 27, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
147 2 0.01
148 39 0.15
149 12 0.05
150 10 0.04
151 12 0.05
152 3 0.01
153 46 0.18
154 67 0.26
155 6 0.02
157 1 0.00
158 60 0.23
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (148 bp):
AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAAATT
TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAA
TTGCAATTTCTGATTGTC
Found at i:114249415 original size:158 final size:153
Alignment explanation
Indices: 114248979--114249437 Score: 458
Period size: 158 Copynumber: 3.0 Consensus size: 153
114248969 TCGTAAAAAA
* ** * * *
114248979 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-GCTGAGGTATTTTTAAA
1 AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTC-GGCGCACGGCTGAGG-AATTTTCAA
* *
114249042 TTTCTG--T-T--TT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGT
64 TTTCTGTTTCTAATTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
* * *
114249101 TGAGGTAATTGCAATTTCT-ATTGTC
128 TGAGGTAATTTCAATTTCTGTTTTTC
* * *
114249126 AAAAAAATCAATTCATATTGCAAGAAATGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGCGCACG-GCTGAGGAATTTTCAA
**
114249191 TTTCTGTTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
64 TTTCTGTTTCTAATTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
114249256 GAGGTAATTTCAATTTCTGTTTTTC
129 GAGGTAATTTCAATTTCTGTTTTTC
** * *
114249281 -AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAGGAATTGTT-GAT
1 AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGCGCACGGCTGAGGAATT-TTCAAT
* * * * *
114249343 TTTTGTGTTTTAATT-TCAAAAAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCATG
65 TTCTGT-TTCTAATTGTC------A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
114249407 ACACGCTGAGGTATTTTCAATTTCTGTTTTT
122 ACATGCTGAGGTAATTTCAATTTCTGTTTTT
114249438 TTTCTAATTT
Statistics
Matches: 263, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
147 2 0.01
148 38 0.14
149 12 0.05
150 7 0.03
151 20 0.08
152 8 0.03
153 40 0.15
154 64 0.24
155 6 0.02
157 1 0.00
158 65 0.25
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (153 bp):
AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCGGCGCACGGCTGAGGAATTTTCAATT
TCTGTTTCTAATTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGA
GGTAATTTCAATTTCTGTTTTTC
Found at i:114249448 original size:18 final size:18
Alignment explanation
Indices: 114249420--114249455 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
114249410 CGCTGAGGTA
114249420 TTTTCAATTTCTG-TTTT
1 TTTTCAATTTCTGCTTTT
114249437 TTTTCTAATTTCTGCTTTT
1 TTTTC-AATTTCTGCTTTT
114249456 CAAAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.11, C:0.14, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTCAATTTCTGCTTTT
Found at i:114249729 original size:77 final size:75
Alignment explanation
Indices: 114249596--114249876 Score: 395
Period size: 77 Copynumber: 3.7 Consensus size: 75
114249586 GAGTTGAGCC
* * *
114249596 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTGCTCACG
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACG
114249660 TGCTGAGCTA
66 TGCTGAGCTA
*
114249670 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
*
114249735 CGTGTTGAGCTA
64 CGTGCTGAGCTA
* ** *
114249747 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
** *
114249812 CACGCTGAGGC-G
64 CGTGCTGA-GCTA
114249824 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
114249877 TCTCGGGCCA
Statistics
Matches: 188, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
74 4 0.02
75 43 0.23
76 6 0.03
77 133 0.71
78 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACG
TGCTGAGCTA
Found at i:114249882 original size:75 final size:77
Alignment explanation
Indices: 114249596--114249916 Score: 377
Period size: 77 Copynumber: 4.2 Consensus size: 77
114249586 GAGTTGAGCC
* * * **
114249596 TTTT-AATTTCTGTTTTTC-AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
**
114249658 CGTGCTGAGCTA
66 CACGCTGAGCTA
* **
114249670 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
** *
114249735 CGTGTTGAGCTA
66 CACGCTGAGCTA
* *
114249747 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
*
114249812 CACGCTGAGGC-G
66 CACGCTGA-GCTA
*
114249824 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-C
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
* * *
114249886 ACACACTGAGGTC
65 ACACGCTGAGCTA
* *
114249899 TTTTCAAATTCTGTTTTT
1 TTTTCAATTTCTGCTTTT
114249917 AATTTCTGCT
Statistics
Matches: 219, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
74 5 0.02
75 71 0.32
76 8 0.04
77 133 0.61
78 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (77 bp):
TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
CACGCTGAGCTA
Found at i:114249929 original size:14 final size:13
Alignment explanation
Indices: 114249907--114249943 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
114249897 TCTTTTCAAA
114249907 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
*
114249920 TTCTGCTTTTCAAT
1 TTCTG-TTTTTAAT
114249934 TTCTGTTTTT
1 TTCTGTTTTT
114249944 TCAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:114250744 original size:30 final size:30
Alignment explanation
Indices: 114250708--114250882 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
114250698 ACTTTTCTCA
*
114250708 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
114250738 ACTAGCCACACCTTTTCCGCCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
114250768 ACTAGCCACTCCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
114250798 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
114250828 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
114250858 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
114250883 CTTGTACCTA
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 3 0.02
30 127 0.98
ACGTcount: A:0.27, C:0.48, G:0.05, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:114251454 original size:2 final size:2
Alignment explanation
Indices: 114251447--114251523 Score: 65
Period size: 2 Copynumber: 40.5 Consensus size: 2
114251437 CAATATTACG
* * * *
114251447 TA TA TA TA TA TA TA T- TA TA CTA T- TT TA TG TA TA TA TC TT TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
114251488 -A TA T- TA TA T- TA TT 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 TA T
114251524 TTTTACATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
1 5 0.08
2 54 0.89
3 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:114251499 original size:25 final size:25
Alignment explanation
Indices: 114251378--114251608 Score: 86
Period size: 25 Copynumber: 9.7 Consensus size: 25
114251368 TTGTTATTAT
114251378 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATATTATATTATGTA
* *
114251402 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATATTATATTATGTA
*
114251424 TATA-TTTTAA-ATTCAATATTACGTA
1 TATATTTTTAATATT--ATATTATGTA
* * *
114251449 TATATATATATATTATACTATTTTATGTA
1 TATAT-T-T-T-TAATATTATATTATGTA
*
114251478 TATATCTTTAATATTATATTAT-T-
1 TATATTTTTAATATTATATTATGTA
* *
114251501 TATA--TAT-ATA-TATA-TATATA
1 TATATTTTTAATATTATATTATGTA
** * *
114251521 TAT-TTTTACATGTTATCTTATGTA
1 TATATTTTTAATATTATATTATGTA
* *
114251545 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
* * *
114251567 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
*
114251592 CATATTTTTAATATTAT
1 TATATTTTTAATATTAT
114251609 CACGTATTTA
Statistics
Matches: 153, Mismatches: 29, Indels: 49
0.66 0.13 0.21
Matches are distributed among these distances:
18 3 0.02
19 5 0.03
20 9 0.06
21 6 0.04
22 28 0.18
23 17 0.11
24 21 0.14
25 42 0.27
26 1 0.01
27 2 0.01
28 1 0.01
29 14 0.09
30 2 0.01
31 2 0.01
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATATTATATTATGTA
Found at i:114251796 original size:17 final size:17
Alignment explanation
Indices: 114251755--114251803 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
114251745 ATATTAATTA
*
114251755 TTAT-TATTCTAATATT
1 TTATATATTTTAATATT
*
114251771 TT-GATATTTTAATATT
1 TTATATATTTTAATATT
*
114251787 TTATATATTTTATTATT
1 TTATATATTTTAATATT
114251804 CACATCATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATATTTTAATATT
Found at i:114252889 original size:20 final size:20
Alignment explanation
Indices: 114252864--114252903 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
114252854 ATTGGGTCTT
114252864 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
114252884 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
114252904 CCTATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:114255090 original size:19 final size:18
Alignment explanation
Indices: 114255053--114255096 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
114255043 ATACATACAG
114255053 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
114255070 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
114255089 TACTAATT
1 TAATAATT
114255097 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:114256128 original size:41 final size:41
Alignment explanation
Indices: 114256062--114256148 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
114256052 ACTTAATCAA
* * *
114256062 AAGTGTACATTTTCGATTAGATTAAGATGAATGCTTCGATT
1 AAGTATACATTTTCGATTAGATTAAGATGAACGCTTCGATC
* * * *
114256103 AAGTATACTTTTTCGATTGGTTTAAGATGAACGCTTTGATC
1 AAGTATACATTTTCGATTAGATTAAGATGAACGCTTCGATC
114256144 AAGTA
1 AAGTA
114256149 GTCTTCTCCG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (41 bp):
AAGTATACATTTTCGATTAGATTAAGATGAACGCTTCGATC
Found at i:114257461 original size:26 final size:26
Alignment explanation
Indices: 114257424--114257507 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
114257414 TGATACAAAT
* *
114257424 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114257450 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114257476 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
114257502 TGATAA
1 TGATAA
114257508 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:114259024 original size:26 final size:26
Alignment explanation
Indices: 114258995--114259047 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
114258985 TTTACAGTTT
*
114258995 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
114259021 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
114259047 T
1 T
114259048 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:114264720 original size:10 final size:10
Alignment explanation
Indices: 114264707--114264744 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
114264697 TTATTTTCAT
114264707 TTATCTTTAA
1 TTATCTTTAA
114264717 TTATCTTTAA
1 TTATCTTTAA
*
114264727 TTAT-TTGTAT
1 TTATCTT-TAA
114264737 TTATCTTT
1 TTATCTTT
114264745 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:114266103 original size:159 final size:159
Alignment explanation
Indices: 114265814--114266131 Score: 591
Period size: 159 Copynumber: 2.0 Consensus size: 159
114265804 ATGACCAGAT
* *
114265814 CTGCTCTAGGTACTCTTGCGTTTGATTCAGAGATTGAAAAGACTACGAGAGCTAATCGCAAGGAA
1 CTGCTCTAGATACTCTTGCGTTTGATTCAGAGATTGAAAAGACTACAAGAGCTAATCGCAAGGAA
114265879 ACAAAGCTAAAGAAAAAGCAGTCAGCGGTGGTTGGGACTCAAAGTAATCCACCGCCAGAAATCAG
66 ACAAAGCTAAAGAAAAAGCAGTCAGCGGTGGTTGGGACTCAAAGTAATCCACCGCCAGAAATCAG
114265944 AATTGACGACGAAGCAAAGTTTAGGGTTA
131 AATTGACGACGAAGCAAAGTTTAGGGTTA
*
114265973 CTGCTCTAGATACTCTTGCGTTTGATTCAGAGATTGAAAAGACTGCAAGAGCTAATCGCAAGGAA
1 CTGCTCTAGATACTCTTGCGTTTGATTCAGAGATTGAAAAGACTACAAGAGCTAATCGCAAGGAA
*
114266038 ACAAAGCTAAGGAAAAAGCAGTCAGCGGTGGTTGGGACTCAAAGTAATCCACCGCCAGAAATCAG
66 ACAAAGCTAAAGAAAAAGCAGTCAGCGGTGGTTGGGACTCAAAGTAATCCACCGCCAGAAATCAG
*
114266103 AATTGACGACGAAGTAAAGTTTAGGGTTA
131 AATTGACGACGAAGCAAAGTTTAGGGTTA
114266132 ACGAAAACCC
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (159 bp):
CTGCTCTAGATACTCTTGCGTTTGATTCAGAGATTGAAAAGACTACAAGAGCTAATCGCAAGGAA
ACAAAGCTAAAGAAAAAGCAGTCAGCGGTGGTTGGGACTCAAAGTAATCCACCGCCAGAAATCAG
AATTGACGACGAAGCAAAGTTTAGGGTTA
Found at i:114270330 original size:2 final size:2
Alignment explanation
Indices: 114270323--114270353 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
114270313 TGTACGTAAA
*
114270323 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114270354 AATAGTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:114270412 original size:25 final size:23
Alignment explanation
Indices: 114270360--114270414 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
114270350 TATAAATAGT
114270360 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
114270383 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
114270408 AATAGTG
1 AATAGTG
114270415 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:114270976 original size:10 final size:11
Alignment explanation
Indices: 114270955--114271005 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
114270945 ATGATATTAG
114270955 AAATATGTATA
1 AAATATGTATA
114270966 AAATA-GTATA
1 AAATATGTATA
*
114270976 AAAGATGTATA
1 AAATATGTATA
114270987 ACTAATAATGT-TA
1 A--AAT-ATGTATA
114271000 AAATAT
1 AAATAT
114271006 ATACACAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 11 0.32
11 14 0.41
13 5 0.15
14 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (11 bp):
AAATATGTATA
Found at i:114271059 original size:24 final size:24
Alignment explanation
Indices: 114271018--114271073 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
114271008 ACACAATAAT
114271018 ATATATAACATACAATAT-TGAAAA
1 ATATAT-ACATACAATATATGAAAA
114271042 CATATATACATA-ATATATATGAAAA
1 -ATATATACATACA-ATATATGAAAA
114271067 ATATATA
1 ATATATA
114271074 GATATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 1 0.03
24 16 0.55
25 12 0.41
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (24 bp):
ATATATACATACAATATATGAAAA
Found at i:114271079 original size:30 final size:29
Alignment explanation
Indices: 114271045--114271119 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
114271035 TTGAAAACAT
*
114271045 ATATACATAATATATATGAAAAATATATAG
1 ATATACATAATATATAT-AAAAATATATAC
* *
114271075 ATATACATAATATAATATTAAAATATTTAC
1 ATATACATAATAT-ATATAAAAATATATAC
114271105 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
114271120 TAGGGATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.65
31 12 0.30
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (29 bp):
ATATACATAATATATATAAAAATATATAC
Found at i:114271087 original size:26 final size:26
Alignment explanation
Indices: 114271016--114271087 Score: 67
Period size: 29 Copynumber: 2.7 Consensus size: 26
114271006 ATACACAATA
*
114271016 ATATATATAACATACAATATTGAAAACAT
1 ATATACATAACAT--AATA-TGAAAACAT
*
114271045 ATATACATAATAT-ATATGAAAA-AT
1 ATATACATAACATAATATGAAAACAT
*
114271069 ATATAGATATACATAATAT
1 ATATACATA-ACATAATAT
114271088 AATATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 10 0.27
25 9 0.24
26 7 0.19
29 11 0.30
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATACATAACATAATATGAAAACAT
Found at i:114271183 original size:23 final size:22
Alignment explanation
Indices: 114271157--114271199 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
114271147 CTACATAAGT
114271157 ATATACATAAATATATCAAAAAC
1 ATATACATAAATATAT-AAAAAC
* *
114271180 ATATGCATATATATATAAAA
1 ATATACATAAATATATAAAA
114271200 GAAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
ATATACATAAATATATAAAAAC
Found at i:114271362 original size:2 final size:2
Alignment explanation
Indices: 114271309--114271342 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
114271299 AATTAACAAC
114271309 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114271343 CACGTTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:114272445 original size:20 final size:19
Alignment explanation
Indices: 114272420--114272463 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
114272410 GGTTTTTTGG
*
114272420 TTTTTTTTGGGGGTTAGGT
1 TTTTTTTTTGGGGTTAGGT
114272439 TTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTGGGGTTAGGT
114272458 TTTTTT
1 TTTTTT
114272464 GGGCTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.05, C:0.00, G:0.30, T:0.66
Consensus pattern (19 bp):
TTTTTTTTTGGGGTTAGGT
Found at i:114273449 original size:77 final size:74
Alignment explanation
Indices: 114273272--114273709 Score: 450
Period size: 77 Copynumber: 5.7 Consensus size: 74
114273262 AAATTAAAAA
* *
114273272 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCA
* * *
114273337 GTGTGTGATCTGAA
63 ATGTGT-CT-TGAG
* *
114273351 GCTCAACTCACCTCTCACAATATGAGTTGATCTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA--
* *
114273416 ATGTGAAC-CGAG
63 ATGTG-TCTTGAG
* * *
114273428 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAAAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAATG
114273492 TGTCTTGAG
66 TGTCTTGAG
** ** *
114273501 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACATAAATTGAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT------TTTGAA---AACAGAAATTGAAAA
* * *
114273566 CACCTTAACGTGTCTTGAG
56 TACCTCAATGTGTCTTGAG
** *
114273585 GCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAA-CAGAAATTGAAAATACCTCA
114273650 ATGTGTCTTGAG
63 ATGTGTCTTGAG
114273662 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAAT
114273710 AAAAACATCA
Statistics
Matches: 305, Mismatches: 35, Indels: 44
0.79 0.09 0.11
Matches are distributed among these distances:
72 1 0.00
73 40 0.13
74 4 0.01
75 31 0.10
76 11 0.04
77 97 0.32
78 3 0.01
79 51 0.17
81 3 0.01
83 1 0.00
84 59 0.19
85 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAATG
TGTCTTGAG
Found at i:114274019 original size:77 final size:77
Alignment explanation
Indices: 114273892--114274037 Score: 265
Period size: 77 Copynumber: 1.9 Consensus size: 77
114273882 ATAAATTGAA
**
114273892 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
114273957 TTTTTTGAAAAG
66 TTTTTTGAAAAG
*
114273969 CAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
114274034 TTTT
66 TTTT
114274038 GAAATAGAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (77 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTTTGAAAAG
Found at i:114274129 original size:339 final size:339
Alignment explanation
Indices: 114273509--114274191 Score: 1330
Period size: 339 Copynumber: 2.0 Consensus size: 339
114273499 AGGCTCAACT
*
114273509 CATTTCTCGCAATATGAGTTGAATTTTGAAAAACATAAATTGAACAGAAATTGAAAACACCTTAA
1 CATTTCTCGCAATATGAGTTGAATTTTGAAAAACATAAATTGAACAGAAATTGAAAACACCTCAA
*
114273574 CGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAATTG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAATTG
114273639 AAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAC
131 AAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAC
114273704 AGAAATAAAAACATCAAAATACCAAAAGATGTCAACTGGTGGAACTCAGATGTCTTTTCCTTTGA
196 AGAAATAAAAACATCAAAATACCAAAAGATGTCAACTGGTGGAACTCAGATGTCTTTTCCTTTGA
114273769 TTCAGTACAGCTATCATCACATCCTCTTGCTCTACTGGAATACCTGTATATGTCATGCATGATGT
261 TTCAGTACAGCTATCATCACATCCTCTTGCTCTACTGGAATACCTGTATATGTCATGCATGATGT
114273834 TATCATGATATGCA
326 TATCATGATATGCA
*
114273848 CATTTCTCGCAATATGAGTTGAATTTTGAAAAACATAAATTGAACAGAAATTGAAAATACCTCAA
1 CATTTCTCGCAATATGAGTTGAATTTTGAAAAACATAAATTGAACAGAAATTGAAAACACCTCAA
114273913 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAATTG
66 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAATTG
*
114273978 AAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAT
131 AAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAC
114274043 AGAAATAAAAACATCAAAATACCAAAAGATGTCAACTGGTGGAACTCAGATGTCTTTTCCTTTGA
196 AGAAATAAAAACATCAAAATACCAAAAGATGTCAACTGGTGGAACTCAGATGTCTTTTCCTTTGA
114274108 TTCAGTACAGCTATCATCACATCCTCTTGCTCTACTGGAATACCTGTATATGTCATGCATGATGT
261 TTCAGTACAGCTATCATCACATCCTCTTGCTCTACTGGAATACCTGTATATGTCATGCATGATGT
114274173 TATCATGATATGCA
326 TATCATGATATGCA
114274187 CATTT
1 CATTT
114274192 TGGTCTTAAA
Statistics
Matches: 340, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
339 340 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (339 bp):
CATTTCTCGCAATATGAGTTGAATTTTGAAAAACATAAATTGAACAGAAATTGAAAACACCTCAA
CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAATTG
AAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAC
AGAAATAAAAACATCAAAATACCAAAAGATGTCAACTGGTGGAACTCAGATGTCTTTTCCTTTGA
TTCAGTACAGCTATCATCACATCCTCTTGCTCTACTGGAATACCTGTATATGTCATGCATGATGT
TATCATGATATGCA
Found at i:114280078 original size:39 final size:39
Alignment explanation
Indices: 114279994--114280117 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 39
114279984 CCGAGTCCAA
* * * * *
114279994 TTTCTAGCACAAAGCCTGCAGGACTTTAAG-CTCGGATATA
1 TTTCCAGCACATAGCCTGC-GGACCTCAAGTC-CGGATATG
114280034 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
* *
114280073 TTTCCAGGACGTAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
114280112 TTTCCA
1 TTTCCA
114280118 AGTATCATGC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
39 58 0.76
40 18 0.24
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
Found at i:114289051 original size:25 final size:23
Alignment explanation
Indices: 114288999--114289053 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
114288989 TATAAATAGT
114288999 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
114289022 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
114289047 AATAGTG
1 AATAGTG
114289054 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:114289612 original size:10 final size:11
Alignment explanation
Indices: 114289591--114289641 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
114289581 ATGATATTAG
114289591 AAATATGTATA
1 AAATATGTATA
114289602 AAATA-GTATA
1 AAATATGTATA
*
114289612 AAACATGTATA
1 AAATATGTATA
114289623 ACTAATAATGT-TA
1 A--AAT-ATGTATA
114289636 AAATAT
1 AAATAT
114289642 ATACACAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 11 0.32
11 14 0.41
13 5 0.15
14 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (11 bp):
AAATATGTATA
Found at i:114289695 original size:24 final size:24
Alignment explanation
Indices: 114289654--114289709 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
114289644 ACACAATAAT
*
114289654 ATATATAACATACAATAT-TGAAAA
1 ATATAT-ACATACAATATGCGAAAA
114289678 CATATATACATA-ATATATGCGAAAA
1 -ATATATACATACA-ATATGCGAAAA
114289703 ATATATA
1 ATATATA
114289710 GATATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 11 0.39
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (24 bp):
ATATATACATACAATATGCGAAAA
Found at i:114289906 original size:23 final size:24
Alignment explanation
Indices: 114289880--114289934 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
114289870 TCATGATAAT
*
114289880 AATAATATTAAA-ATA-TAAAAGTA
1 AATAATAATAAAGATATTAAAA-TA
114289903 AAT-ATAATAAAGATATTAAAATA
1 AATAATAATAAAGATATTAAAATA
114289926 AAGTAATAA
1 AA-TAATAA
114289935 ATTAACAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 7 0.26
23 10 0.37
24 6 0.22
25 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (24 bp):
AATAATAATAAAGATATTAAAATA
Found at i:114291137 original size:18 final size:18
Alignment explanation
Indices: 114291114--114291161 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
114291104 GTTTCTTGGT
114291114 TTTTTTTTTGGGGTTAGG
1 TTTTTTTTTGGGGTTAGG
*
114291132 TTTTTTTTTGGGGTTGGG
1 TTTTTTTTTGGGGTTAGG
114291150 TTTTTTTTTGGG
1 TTTTTTTTTGGG
114291162 CTTAATGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.02, C:0.00, G:0.33, T:0.65
Consensus pattern (18 bp):
TTTTTTTTTGGGGTTAGG
Found at i:114293187 original size:41 final size:41
Alignment explanation
Indices: 114293125--114293205 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
114293115 TAATTACACA
114293125 GGGAGTTCCTCTACACATTTTTCTCCTATTTTATTTATTCG
1 GGGAGTTCCTCTACACATTTTTCTCCTATTTTATTTATTCG
* *
114293166 GGGAGTTCCTCTACACGTTTTTCTCCTATTTTTTTTATTC
1 GGGAGTTCCTCTACACATTTTTCTCCTATTTTATTTATTC
114293206 TACATCGAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.15, C:0.22, G:0.12, T:0.51
Consensus pattern (41 bp):
GGGAGTTCCTCTACACATTTTTCTCCTATTTTATTTATTCG
Found at i:114293953 original size:95 final size:97
Alignment explanation
Indices: 114293789--114293974 Score: 313
Period size: 95 Copynumber: 1.9 Consensus size: 97
114293779 TAATTTTTAA
**
114293789 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAAAGGT
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
*
114293854 TCAATATGTTCTTAAG-AAAAATAAAAATTAG
66 TCAATATATTCTTAAGTAAAAATAAAAATTAG
*
114293885 GAATGTGTTGGGCTGAGTAACCGGGGTG-GGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
*
114293949 TCAATATATTCTTGAGTAAAAATAAA
66 TCAATATATTCTTAAGTAAAAATAAA
114293975 TAAATAGAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
95 48 0.57
96 36 0.43
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (97 bp):
GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
TCAATATATTCTTAAGTAAAAATAAAAATTAG
Found at i:114294627 original size:10 final size:10
Alignment explanation
Indices: 114294612--114294661 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
114294602 TAATTTTAGG
114294612 ATTTAT-TTT
1 ATTTATCTTT
114294621 CATTTATCTTT
1 -ATTTATCTTT
*
114294632 AATTATCTTT
1 ATTTATCTTT
114294642 ATTTAT-TTGT
1 ATTTATCTT-T
114294652 ATTTATCTTT
1 ATTTATCTTT
114294662 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:114299163 original size:17 final size:17
Alignment explanation
Indices: 114299105--114299163 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
114299095 TTATGTCTAC
114299105 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* *
114299122 TAAATTTTACATT-TTGTAT
1 T--A-TTTATATTATTGAAT
114299141 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
*
114299158 TGTTTA
1 TATTTA
114299164 ATCATGCTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.21
17 12 0.36
19 7 0.21
20 7 0.21
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:114299553 original size:35 final size:35
Alignment explanation
Indices: 114299502--114299577 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
114299492 TTAATTTAAC
114299502 TCGAA-TAAATATATTCAATTCAATTCGATTCGAA
1 TCGAATTAAATATATTCAATTCAATTCGATTCGAA
*
114299536 TTGAATTAAATATATTCAATTCAATTCGATTCGAA
1 TCGAATTAAATATATTCAATTCAATTCGATTCGAA
114299571 TCGAATT
1 TCGAATT
114299578 GAATCGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (35 bp):
TCGAATTAAATATATTCAATTCAATTCGATTCGAA
Found at i:114300396 original size:31 final size:31
Alignment explanation
Indices: 114300360--114300463 Score: 154
Period size: 31 Copynumber: 3.3 Consensus size: 31
114300350 TAAAAATAAG
* *
114300360 AACAAACTTTGACACAAACAACTTAACAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAA
*
114300391 CACAAACTTTGACATAATCAACTTAACAAAAAA
1 AACAAACTTTGACATAATCAACTTAAC--AAAA
114300424 AACAAACTTTGACATAATCAACTTAACAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAA
*
114300455 AAAAAACTT
1 AACAAACTT
114300464 AAAGGGATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
31 36 0.55
33 30 0.45
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (31 bp):
AACAAACTTTGACATAATCAACTTAACAAAA
Found at i:114300434 original size:33 final size:33
Alignment explanation
Indices: 114300360--114300458 Score: 157
Period size: 33 Copynumber: 3.1 Consensus size: 33
114300350 TAAAAATAAG
* *
114300360 AACAAACTTTGACACAAACAACTTAAC--AAAA
1 AACAAACTTTGACATAATCAACTTAACAAAAAA
*
114300391 CACAAACTTTGACATAATCAACTTAACAAAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAAAA
114300424 AACAAACTTTGACATAATCAACTTAACAAAAAA
1 AACAAACTTTGACATAATCAACTTAACAAAAAA
114300457 AA
1 AA
114300459 AACTTAAAGG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 24 0.39
33 38 0.61
ACGTcount: A:0.58, C:0.20, G:0.03, T:0.19
Consensus pattern (33 bp):
AACAAACTTTGACATAATCAACTTAACAAAAAA
Found at i:114301625 original size:21 final size:21
Alignment explanation
Indices: 114301601--114301641 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
114301591 TTTTCAAAGG
114301601 TAACTTTAAAGCCTTTTTTAA
1 TAACTTTAAAGCCTTTTTTAA
114301622 TAACTTTAAAGCCTTTTTTA
1 TAACTTTAAAGCCTTTTTTA
114301642 GCAAGCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (21 bp):
TAACTTTAAAGCCTTTTTTAA
Found at i:114303399 original size:16 final size:16
Alignment explanation
Indices: 114303378--114303417 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
114303368 TTTATCTTTC
114303378 TTATATATTTTTATTA
1 TTATATATTTTTATTA
114303394 TTATATA-TTTTATTA
1 TTATATATTTTTATTA
114303409 TATATATAT
1 T-TATATAT
114303418 ATATCTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATATTTTTATTA
Found at i:114303408 original size:12 final size:12
Alignment explanation
Indices: 114303391--114303435 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
114303381 TATATTTTTA
114303391 TTATTATATATT
1 TTATTATATATT
114303403 TTATTATATA-T
1 TTATTATATATT
* *
114303414 ATATATATCTATT
1 TTAT-TATATATT
114303427 TTATTATAT
1 TTATTATAT
114303436 GTTATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 4 0.15
12 19 0.70
13 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATATATT
Found at i:114303417 original size:34 final size:32
Alignment explanation
Indices: 114303378--114303452 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 32
114303368 TTTATCTTTC
* *
114303378 TTATATATTTTTATTATTA-TATATTTTATTATA
1 TTATATATTTCTATT-TTATTATATGTTA-TATA
*
114303411 TATATATATATCTATTTTATTATATGTTATATA
1 T-TATATATTTCTATTTTATTATATGTTATATA
*
114303444 TTACATATT
1 TTATATATT
114303453 AATTATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
32 6 0.17
33 9 0.26
34 20 0.57
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (32 bp):
TTATATATTTCTATTTTATTATATGTTATATA
Found at i:114303427 original size:24 final size:23
Alignment explanation
Indices: 114303389--114303444 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
114303379 TATATATTTT
*
114303389 TATTAT-TATATATTTTATTATA
1 TATTATATATCTATTTTATTATA
114303411 TATATATATATCTATTTTATTATA
1 TAT-TATATATCTATTTTATTATA
*
114303435 TGTTATATAT
1 TATTATATAT
114303445 TACATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 3 0.10
23 10 0.33
24 17 0.57
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTATATATCTATTTTATTATA
Found at i:114303434 original size:16 final size:16
Alignment explanation
Indices: 114303378--114303548 Score: 63
Period size: 16 Copynumber: 10.3 Consensus size: 16
114303368 TTTATCTTTC
*
114303378 TTATATATTTTTATTA
1 TTATATATTATTATTA
114303394 TTATATATT-TTATTA
1 TTATATATTATTATTA
114303409 TATATATATATATCTATT-
1 T-TATATAT-TAT-TATTA
*
114303427 TTAT-TATATGTTATATA
1 TTATATAT-TATTAT-TA
*
114303444 TTACATATTAATTATT-
1 TTATATATT-ATTATTA
* *
114303460 TTACCATATT-TTTTTA
1 TTA-TATATTATTATTA
* *
114303476 TGCAAAATACTTATTA-TA
1 T--TATATA-TTATTATTA
*
114303494 TTAT-TATTATTTTATA
1 TTATATATTATTAT-TA
*
114303510 TTATATTTCCTATTATT-
1 TTATATAT--TATTATTA
114303527 TTATTCATATTA-TATTA
1 TTA-T-ATATTATTATTA
114303544 TTATA
1 TTATA
114303549 CATAACTTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 45
0.67 0.07 0.25
Matches are distributed among these distances:
14 5 0.04
15 17 0.14
16 39 0.32
17 28 0.23
18 17 0.14
19 14 0.12
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (16 bp):
TTATATATTATTATTA
Found at i:114303545 original size:22 final size:22
Alignment explanation
Indices: 114303494--114303547 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
114303484 ACTTATTATA
*
114303494 TTATTATTATTTTATATTATAT
1 TTATTATTATTTTATATCATAT
**
114303516 TTCCTATTATTTTAT-TCATAT
1 TTATTATTATTTTATATCATAT
114303537 TATATTATTAT
1 T-TATTATTAT
114303548 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (22 bp):
TTATTATTATTTTATATCATAT
Found at i:114305948 original size:32 final size:31
Alignment explanation
Indices: 114305912--114305978 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
114305902 AAATAGGAAC
*
114305912 AAACTTTGACACAAAT-AACTTAGCAAAAAAA
1 AAACTTTGACA-AAATCAACTTAACAAAAAAA
*
114305943 TAAACTTTGACATAATCAACTTAACAAAAAAA
1 -AAACTTTGACAAAATCAACTTAACAAAAAAA
114305975 AAAC
1 AAAC
114305979 ACACGTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 7 0.22
32 25 0.78
ACGTcount: A:0.58, C:0.16, G:0.04, T:0.21
Consensus pattern (31 bp):
AAACTTTGACAAAATCAACTTAACAAAAAAA
Found at i:114312644 original size:12 final size:12
Alignment explanation
Indices: 114312627--114312670 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
114312617 ATTTTGAAAA
114312627 TATAAATAATAT
1 TATAAATAATAT
114312639 TATAAATAATA-
1 TATAAATAATAT
114312650 TATATAATAA-AT
1 TATA-AATAATAT
*
114312662 TAAAAATAA
1 TATAAATAA
114312671 GTTTAAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAAATAATAT
Found at i:114312663 original size:23 final size:23
Alignment explanation
Indices: 114312626--114312670 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
114312616 AATTTTGAAA
*
114312626 ATATAAATAATATTATAAATAAT
1 ATATAAATAATATTAAAAATAAT
114312649 ATATATAATAA-ATTAAAAATAA
1 ATATA-AATAATATTAAAAATAA
114312671 GTTTAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATATAAATAATATTAAAAATAAT
Found at i:114313003 original size:18 final size:18
Alignment explanation
Indices: 114312967--114313065 Score: 150
Period size: 17 Copynumber: 5.6 Consensus size: 18
114312957 AATCATATCT
114312967 TCTAAGATTGTATATCATA
1 TCTAAGATTGTA-ATCATA
114312986 TCTAAGATT-TCAATCATA
1 TCTAAGATTGT-AATCATA
114313004 TCTAAGATTGT-ATCATA
1 TCTAAGATTGTAATCATA
*
114313021 TCTAAGATTGCAATCATA
1 TCTAAGATTGTAATCATA
114313039 TCTAAGATTGT-ATCATA
1 TCTAAGATTGTAATCATA
114313056 TCTAAGATTG
1 TCTAAGATTG
114313066 CATATCATTG
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
17 32 0.43
18 32 0.43
19 11 0.15
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGTAATCATA
Found at i:114313025 original size:35 final size:35
Alignment explanation
Indices: 114312967--114313073 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
114312957 AATCATATCT
*
114312967 TCTAAGATTGTATATCATATCTAAGATTTCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
114313004 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
114313039 TCTAAGATTGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
114313074 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 53 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:114313674 original size:83 final size:83
Alignment explanation
Indices: 114313468--114313881 Score: 729
Period size: 83 Copynumber: 5.0 Consensus size: 83
114313458 TGTCAAATCA
* * *
114313468 TCTGTTTGAGAACATTTGAGAATCATATCTGCAAAGTCCTCGACTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
114313533 ATGCCTAAACCATCTTGAG
66 ATGCC-AAACCATCTTGAG
* * * *
114313552 CCTGTTTAAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
114313617 ATGCCAAACCATCTTGAG
66 ATGCCAAACCATCTTGAG
* *
114313635 TCTATTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCTCAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
*
114313700 ATGTCAAACCATCTTGAG
66 ATGCCAAACCATCTTGAG
114313718 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
114313783 ATGCCAAACCATCTTGAG
66 ATGCCAAACCATCTTGAG
114313801 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
114313866 ATGCCAAACCATCTTG
66 ATGCCAAACCATCTTG
114313882 GATCTGCTTC
Statistics
Matches: 314, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
83 250 0.80
84 64 0.20
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (83 bp):
TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGG
ATGCCAAACCATCTTGAG
Found at i:114314016 original size:119 final size:119
Alignment explanation
Indices: 114313805--114314296 Score: 867
Period size: 119 Copynumber: 4.1 Consensus size: 119
114313795 CTTGAGTCTG
* * * * * * *
114313805 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
114313870 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
114313924 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
114313989 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
114314043 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
114314108 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
114314162 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
114314227 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
114314281 TTTGAGAACGTCTGAG
1 TTTGAGAACGTCTGAG
114314297 TTCCTTGTAA
Statistics
Matches: 357, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 357 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:114314309 original size:92 final size:92
Alignment explanation
Indices: 114314204--114314374 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
114314194 TCCTCGATTT
*
114314204 GTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTT
1 GTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTT
114314269 AGATCTGCTATCTTTGAGAACGTCTGA
66 AGATCTGCTATCTTTGAGAACGTCTGA
* *
114314296 GTTCCTTGTAAACACAGGAATGCCAAATCATCTTTGATCTGCTTCAGTATAAACATCTAAAGGTT
1 GTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTT
114314361 AGATCTGCTATCTT
66 AGATCTGCTATCTT
114314375 CGATCTGTTC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (92 bp):
GTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTT
AGATCTGCTATCTTTGAGAACGTCTGA
Found at i:114314411 original size:44 final size:44
Alignment explanation
Indices: 114314363--114314542 Score: 179
Period size: 44 Copynumber: 4.1 Consensus size: 44
114314353 TAAAGGTTAG
114314363 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
114314407 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
114314449 ATGCTGAAATCTTCAATCTGCTTCGC-AGAGAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATA-AACACAGGGATGCCAA
* * *
114314495 ATCTACTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
114314539 ATCT
1 ATCT
114314543 TGTTTCTTTG
Statistics
Matches: 107, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.02
43 15 0.14
44 74 0.69
45 14 0.13
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:114315447 original size:14 final size:13
Alignment explanation
Indices: 114315423--114315473 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 13
114315413 TTCTCCATCT
114315423 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
114315437 TTTATTTTTTTCTC
1 TTT-TTTTTTTCTC
*
114315451 TTTTTCTTTTTTTTC
1 -TTTT-TTTTTTCTC
114315466 TTTTTTTT
1 TTTTTTTT
114315474 AAATAGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 4 0.12
14 17 0.52
15 12 0.36
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:114315472 original size:9 final size:9
Alignment explanation
Indices: 114315422--114315473 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
114315412 CTTCTCCATC
114315422 TTTTTCTTT
1 TTTTTCTTT
*
114315431 TTTCTCTTT
1 TTTTTCTTT
114315440 ATTTTT-TTCT
1 -TTTTTCTT-T
114315450 CTTTTTCTTT
1 -TTTTTCTTT
114315460 TTTTTCTTT
1 TTTTTCTTT
114315469 TTTTT
1 TTTTT
114315474 AAATAGAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 24 0.65
10 11 0.30
11 2 0.05
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:114321309 original size:7 final size:7
Alignment explanation
Indices: 114321293--114321399 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
114321283 AATAAATGAA
*
114321293 ATAATTT
1 ATAATAT
114321300 ATAATAT
1 ATAATAT
114321307 ATAATAT
1 ATAATAT
*
114321314 A-AAAAT
1 ATAATAT
* *
114321320 GTAAGTTT
1 ATAA-TAT
*
114321328 TTAA-A-
1 ATAATAT
*
114321333 ATAATGT
1 ATAATAT
114321340 ATAATAT
1 ATAATAT
*
114321347 A-AATAA
1 ATAATAT
114321353 ATAAATAT
1 AT-AATAT
114321361 ATAAGATAT
1 AT-A-ATAT
114321370 ATAAGT-T
1 ATAA-TAT
114321377 A-AA-AT
1 ATAATAT
114321382 ATAATAT
1 ATAATAT
114321389 ATAATA-
1 ATAATAT
114321395 ATAAT
1 ATAAT
114321400 TTACAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:114321363 original size:21 final size:21
Alignment explanation
Indices: 114321331--114321395 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
114321321 TAAGTTTTTA
*
114321331 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
114321351 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
114321372 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
114321394 AA
1 AA
114321396 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:114321364 original size:28 final size:29
Alignment explanation
Indices: 114321333--114321393 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
114321323 AGTTTTTAAA
114321333 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
114321361 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
114321389 ATAAT
1 ATAAT
114321394 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:114321434 original size:12 final size:13
Alignment explanation
Indices: 114321415--114321445 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
114321405 AATTTTGAAA
114321415 ATATAAATAATAT
1 ATATAAATAATAT
114321428 A-ATAAATAATAT
1 ATATAAATAATAT
114321440 ATATAA
1 ATATAA
114321446 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:114321443 original size:16 final size:15
Alignment explanation
Indices: 114321420--114321450 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
114321410 TGAAAATATA
114321420 AATAATATAATAAAT
1 AATAATATAATAAAT
114321435 AATATATATAATAAAT
1 AATA-ATATAATAAAT
114321451 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:114321772 original size:21 final size:21
Alignment explanation
Indices: 114321746--114321794 Score: 77
Period size: 18 Copynumber: 2.5 Consensus size: 21
114321736 AAGATTACAA
114321746 AATCATATCTTCTAAGATTGC
1 AATCATATCTTCTAAGATTGC
114321767 AATCATA---TCTAAGATTGC
1 AATCATATCTTCTAAGATTGC
114321785 AATCATATCT
1 AATCATATCT
114321795 AAGATTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 18 0.72
21 7 0.28
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (21 bp):
AATCATATCTTCTAAGATTGC
Found at i:114321808 original size:17 final size:18
Alignment explanation
Indices: 114321756--114321826 Score: 117
Period size: 18 Copynumber: 3.9 Consensus size: 18
114321746 AATCATATCT
114321756 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
114321774 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
114321792 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
114321809 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
114321827 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 16 0.33
18 28 0.57
19 5 0.10
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:114321812 original size:35 final size:37
Alignment explanation
Indices: 114321749--114321826 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
114321739 ATTACAAAAT
114321749 CATATC-T-TCTAAGATTGCAATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCAATCATATCTAAGATTG
*
114321784 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCAATCATATCTAAGATTG
114321819 CATATCAT
1 CATATCAT
114321827 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 3 0.08
35 21 0.54
36 15 0.38
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (37 bp):
CATATCATATCTAAGATTGCAATCATATCTAAGATTG
Found at i:114321824 original size:14 final size:15
Alignment explanation
Indices: 114321769--114321824 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
114321759 AAGATTGCAA
114321769 TCATATCTAAGATTG
1 TCATATCTAAGATTG
114321784 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
114321802 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
114321819 -CATATC
1 TCATATC
114321825 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:114330714 original size:99 final size:101
Alignment explanation
Indices: 114330548--114330731 Score: 291
Period size: 99 Copynumber: 1.8 Consensus size: 101
114330538 TATGGTTGGC
* * * **
114330548 AATACCAGACTTTTTTGTTTCTGTGGTTGGCATTTTTTTTTCCTGTTTATTTCAATGAAGATAAT
1 AATACAAGACTTTTTTGTTTATGTGGGTGGCACGTTTTTTTCCTGTTTATTTCAATGAAGATAAT
*
114330613 CAATGTTCATGTATTTCTTTTTACGTAAAAATTAAG
66 CAATATTCATGTATTTCTTTTTACGTAAAAATTAAG
*
114330649 AATACAAGACTTTTTTGTTTATGTGGGTGGC-CGTTTTTTT-CTGTTTATTTCAATGAAGATTAT
1 AATACAAGACTTTTTTGTTTATGTGGGTGGCACGTTTTTTTCCTGTTTATTTCAATGAAGATAAT
114330712 CAATATTCATGTATTTCTTT
66 CAATATTCATGTATTTCTTT
114330732 ACTATTTATG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 41 0.54
100 7 0.09
101 28 0.37
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.49
Consensus pattern (101 bp):
AATACAAGACTTTTTTGTTTATGTGGGTGGCACGTTTTTTTCCTGTTTATTTCAATGAAGATAAT
CAATATTCATGTATTTCTTTTTACGTAAAAATTAAG
Found at i:114331501 original size:20 final size:20
Alignment explanation
Indices: 114331450--114331504 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
114331440 GAAAAAAATC
114331450 AAATTCAA-ATTAAAATATTG
1 AAATTCAAGA-TAAAATATTG
* *
114331470 AAATTCAGGATAAAATCTTG
1 AAATTCAAGATAAAATATTG
*
114331490 AAATTTAAGATAAAA
1 AAATTCAAGATAAAA
114331505 ATACTAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (20 bp):
AAATTCAAGATAAAATATTG
Found at i:114338576 original size:12 final size:12
Alignment explanation
Indices: 114338561--114338623 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
114338551 CAAAAATAAA
*
114338561 AAAACTAAAAACA
1 AAAACTAAAAA-T
114338574 AAAAC-AAAAAT
1 AAAACTAAAAAT
*
114338585 AAAGCT-AAAAT
1 AAAACTAAAAAT
*
114338596 AAAAATAAAAAT
1 AAAACTAAAAAT
* *
114338608 AAAACGAAAAAG
1 AAAACTAAAAAT
114338620 AAAA
1 AAAA
114338624 AAATAAACTC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
11 13 0.32
12 23 0.56
13 5 0.12
ACGTcount: A:0.78, C:0.08, G:0.05, T:0.10
Consensus pattern (12 bp):
AAAACTAAAAAT
Found at i:114338600 original size:6 final size:6
Alignment explanation
Indices: 114338560--114338611 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
114338550 ACAAAAATAA
* * **
114338560 AAAAACT AAAAAC AAAAAC AAAAAT AAAGCT -AAAAT AAAAAT AAAAAT
1 AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
114338608 AAAA
1 AAAA
114338612 CGAAAAAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
5 3 0.08
6 30 0.79
7 5 0.13
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:114338617 original size:23 final size:23
Alignment explanation
Indices: 114338568--114338617 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
114338558 AAAAAAACTA
* *
114338568 AAAACAAAAACAAAAATAAAGCT
1 AAAACAAAAACAAAAATAAAACG
* *
114338591 AAAATAAAAATAAAAATAAAACG
1 AAAACAAAAACAAAAATAAAACG
114338614 AAAA
1 AAAA
114338618 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (23 bp):
AAAACAAAAACAAAAATAAAACG
Found at i:114342443 original size:17 final size:17
Alignment explanation
Indices: 114342421--114342453 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
114342411 ATAGAGAGTA
114342421 AAAATTA-AACTAAAAAC
1 AAAATTATAA-TAAAAAC
114342438 AAAATTATAATAAAAA
1 AAAATTATAATAAAAA
114342454 ATAACTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATTATAATAAAAAC
Found at i:114343925 original size:10 final size:10
Alignment explanation
Indices: 114343910--114343941 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
114343900 TAAATACATT
114343910 TAATTAAAGA
1 TAATTAAAGA
114343920 TAATTAAAGA
1 TAATTAAAGA
114343930 TAATTAAA-A
1 TAATTAAAGA
114343939 TAA
1 TAA
114343942 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:114345969 original size:41 final size:41
Alignment explanation
Indices: 114345866--114345969 Score: 97
Period size: 41 Copynumber: 2.5 Consensus size: 41
114345856 GCCACAAAAG
**
114345866 TTCA-CGGCGTTTTTTATAAAAGCGCCGCTGAAGACCAGGACC
1 TTCAGCGGC-TTTTTTA-AAAAGCGCCGCCAAAGACCAGGACC
* * *
114345908 TTCAGCGCGC-TCTTAAAAAAACGCCGCCAAAGACCAGGACC
1 TTCAGCG-GCTTTTTTAAAAAGCGCCGCCAAAGACCAGGACC
114345949 TAT-AGCGGCATTTTTTAAAAA
1 T-TCAGCGGC-TTTTTTAAAAA
114345970 AGCGTCGCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
40 2 0.04
41 27 0.54
42 17 0.34
43 2 0.04
44 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (41 bp):
TTCAGCGGCTTTTTTAAAAAGCGCCGCCAAAGACCAGGACC
Found at i:114346055 original size:43 final size:43
Alignment explanation
Indices: 114345870--114346136 Score: 156
Period size: 43 Copynumber: 6.2 Consensus size: 43
114345860 CAAAAGTTCA
* * * *
114345870 CGGCG-TTTTTTATAAAAGCGCCGCTGA-AGACCAGGACCTTCAG
1 CGGCGCTTTTTTA-AAAAACGCCGCT-ATAGACCAGAACTTTTAG
* * * * * * *
114345913 C-GCGC-TCTTAAAAAAACGCCGCCAAAGACCAGGACCTATAG
1 CGGCGCTTTTTTAAAAAACGCCGCTATAGACCAGAACTTTTAG
* * * ** *
114345954 CGGC-ATTTTTTAAAAAAGCGTCGCTAAAAGTA-CAGGTC-TATAG
1 CGGCGCTTTTTTAAAAAA-CGCCGCT-ATAG-ACCAGAACTTTTAG
* * *
114345997 CAGCG-TTTTTCTAAAAAACGTCGCTATAGGCCAAGAAC-TTTAG
1 CGGCGCTTTTT-TAAAAAACGCCGCTATAGACC-AGAACTTTTAG
* * *
114346040 TGGCGCTTTTTTAAAAAACGCCGCTATAGACCTGTACTTTTAG
1 CGGCGCTTTTTTAAAAAACGCCGCTATAGACCAGAACTTTTAG
* * * *
114346083 CGGCGCTTTTGTAGAAAAACGCCGCTATAAACCTGTACTTTTAG
1 CGGCGCTTTTTTA-AAAAACGCCGCTATAGACCAGAACTTTTAG
114346127 CGGCGCTTTT
1 CGGCGCTTTT
114346137 GCAAAAAAAG
Statistics
Matches: 183, Mismatches: 27, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
41 25 0.14
42 25 0.14
43 71 0.39
44 60 0.33
45 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (43 bp):
CGGCGCTTTTTTAAAAAACGCCGCTATAGACCAGAACTTTTAG
Found at i:114346137 original size:44 final size:43
Alignment explanation
Indices: 114346035--114346144 Score: 175
Period size: 44 Copynumber: 2.5 Consensus size: 43
114346025 GGCCAAGAAC
* * *
114346035 TTTAGTGGCGCTTTTTTAAAAAACGCCGCTATAGACCTGTACT
1 TTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAAACCTGTACT
114346078 TTTAGCGGCGCTTTTGTAGAAAAACGCCGCTATAAACCTGTACT
1 TTTAGCGGCGCTTTTGTA-AAAAACGCCGCTATAAACCTGTACT
*
114346122 TTTAGCGGCGCTTTTGCAAAAAA
1 TTTAGCGGCGCTTTTGTAAAAAA
114346145 AGCCACTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 21 0.34
44 41 0.66
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAAACCTGTACT
Found at i:114346479 original size:21 final size:21
Alignment explanation
Indices: 114346453--114346494 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
114346443 TGTTTTGCTT
114346453 CGCCTCCCTCGCTGCTGCCTC
1 CGCCTCCCTCGCTGCTGCCTC
**
114346474 CGCCTCTTTCGCTGCTGCCTC
1 CGCCTCCCTCGCTGCTGCCTC
114346495 TGCTCTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.19, T:0.29
Consensus pattern (21 bp):
CGCCTCCCTCGCTGCTGCCTC
Found at i:114351613 original size:137 final size:137
Alignment explanation
Indices: 114351367--114351653 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
114351357 CATTGGGCCT
** * *
114351367 AAGCCCATTCAGGTAACAGTGGTATTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114351432 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114351497 CATATGC
131 CATATGC
114351504 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
114351569 AGCCCCTTATTCAGATAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114351634 CATATGC
131 CATATGC
114351641 AAGCCCATTTGGG
1 AAGCCCATTTGGG
114351654 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:114353463 original size:25 final size:25
Alignment explanation
Indices: 114353429--114353561 Score: 214
Period size: 25 Copynumber: 5.2 Consensus size: 25
114353419 CATGAAATTC
114353429 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
114353454 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
114353480 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
114353506 TTATCATG-AACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
114353530 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
114353556 TTATCA
1 TTATCA
114353562 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
24 9 0.09
25 54 0.52
26 40 0.39
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:114358367 original size:12 final size:12
Alignment explanation
Indices: 114358350--114358380 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
114358340 AGTACTACCT
114358350 CGGCCTCGACCA
1 CGGCCTCGACCA
114358362 CGGCCTCGACCA
1 CGGCCTCGACCA
114358374 CGGCCTC
1 CGGCCTC
114358381 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:114359731 original size:64 final size:64
Alignment explanation
Indices: 114359658--114359868 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
114359648 CTGGGCCAGA
*
114359658 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
114359722 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
114359784 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
114359795 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
114359859 GCCCATTTCA
1 GCCCATTTCA
114359869 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:114359870 original size:137 final size:137
Alignment explanation
Indices: 114359624--114359910 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
114359614 ATTGGGGCCT
**
114359624 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114359689 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114359754 CATATGC
131 CATATGC
114359761 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114359826 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114359891 CATATGC
131 CATATGC
114359898 AAGCCCATTTGGG
1 AAGCCCATTTGGG
114359911 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:114363220 original size:25 final size:25
Alignment explanation
Indices: 114363192--114363239 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
114363182 TTATACCATG
* * *
114363192 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
114363217 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
114363240 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:114363342 original size:20 final size:20
Alignment explanation
Indices: 114363282--114363342 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
114363272 ATAAATATGG
*
114363282 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
114363302 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
114363322 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
114363342 T
1 T
114363343 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:114363418 original size:24 final size:24
Alignment explanation
Indices: 114363391--114363533 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
114363381 GGAGGAAGTG
*
114363391 AAAAAGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
114363415 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
114363439 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
114363462 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
114363486 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
114363510 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
114363534 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:114363468 original size:47 final size:47
Alignment explanation
Indices: 114363391--114363533 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
114363381 GGAGGAAGTG
*
114363391 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
114363439 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
114363486 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
114363534 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.49
48 33 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:114363514 original size:71 final size:72
Alignment explanation
Indices: 114363391--114363534 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
114363381 GGAGGAAGTG
*
114363391 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
114363454 CCAGTTAT
65 CCAGTTAT
* ** * *
114363462 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
114363527 CAGTTAT
66 CAGTTAT
114363534 A
1 A
114363535 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:114363760 original size:31 final size:31
Alignment explanation
Indices: 114363725--114363788 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
114363715 CGTTTACAGT
114363725 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
114363756 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
114363787 AA
1 AA
114363789 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:114370419 original size:14 final size:16
Alignment explanation
Indices: 114370390--114370421 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
114370380 CTTTAAATTG
114370390 TTCTATTATGTAAAAT
1 TTCTATTATGTAAAAT
114370406 TTCTATT-T-TAAAAT
1 TTCTATTATGTAAAAT
114370420 TT
1 TT
114370422 TCTTTATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCTATTATGTAAAAT
Found at i:114370465 original size:34 final size:30
Alignment explanation
Indices: 114370411--114370504 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 30
114370401 AAAATTTCTA
*
114370411 TTTTAAAATTT-TCTTTATACATATATTTTTG
1 TTTTAAAATTTAT-ATTATACAT-TATTTTTG
*
114370442 TTTTCAAAATTTATACATTATACATTATATATTG
1 TTTT-AAAATTTAT--ATTATACATTAT-TTTTG
114370476 TTTTAAAATTTATATTATACATTATTTTT
1 TTTTAAAATTTATATTATACATTATTTTT
114370505 TTATATAGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
30 3 0.05
31 16 0.29
32 7 0.12
33 13 0.23
34 17 0.30
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTTAAAATTTATATTATACATTATTTTTG
Found at i:114370496 original size:31 final size:33
Alignment explanation
Indices: 114370411--114370500 Score: 116
Period size: 31 Copynumber: 2.8 Consensus size: 33
114370401 AAAATTTCTA
* *
114370411 TTTTAAAATTT-TCTTTATACA-TATATTTTTG
1 TTTTAAAATTTATCATTATACATTATATTATTG
114370442 TTTTCAAAATTTATACATTATACATTATA-TATTG
1 TTTT-AAAATTTAT-CATTATACATTATATTATTG
114370476 TTTTAAAATTTAT-ATTATACATTAT
1 TTTTAAAATTTATCATTATACATTAT
114370501 TTTTTTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
31 16 0.30
32 7 0.13
33 10 0.19
34 16 0.30
35 4 0.08
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (33 bp):
TTTTAAAATTTATCATTATACATTATATTATTG
Found at i:114370943 original size:2 final size:2
Alignment explanation
Indices: 114370932--114370965 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
114370922 ATGTAAATGT
114370932 TA TA -A 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 T
114370966 TTTCGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:114382975 original size:26 final size:26
Alignment explanation
Indices: 114382946--114382996 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
114382936 TTACTTTTAT
114382946 TTTTTAAAATTATTAAA-ATATTATAA
1 TTTTTAAAATTATTAAACAT-TTATAA
*
114382972 TTTTTAATATTATTAAACATTTATA
1 TTTTTAAAATTATTAAACATTTATA
114382997 TTTAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTTAAAATTATTAAACATTTATAA
Found at i:114382999 original size:25 final size:24
Alignment explanation
Indices: 114382941--114382999 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
114382931 AAATTTTACT
114382941 TTTAT-TTTTTAAAATTATTAAAA
1 TTTATATTTTTAAAATTATTAAAA
*
114382964 TATTATAATTTTTAATATTATTAAACA
1 T-TTAT-ATTTTTAAAATTATTAAA-A
114382991 TTTATATTT
1 TTTATATTT
114383000 AATTATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 1 0.03
24 4 0.13
25 4 0.13
26 20 0.65
27 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTATATTTTTAAAATTATTAAAA
Found at i:114383007 original size:14 final size:14
Alignment explanation
Indices: 114382990--114383016 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114382980 ATTATTAAAC
114382990 ATTTATATTTAATT
1 ATTTATATTTAATT
114383004 ATTTATATTTAAT
1 ATTTATATTTAAT
114383017 CATATAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTATATTTAATT
Found at i:114394118 original size:24 final size:26
Alignment explanation
Indices: 114394091--114394138 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
114394081 TATGAGTACG
114394091 TACAT-ATAATATA-ATAT-TAAAATA
1 TACATAAT-ATATACATATATAAAATA
114394115 TACATAATATATACATATATAAAA
1 TACATAATATATACATATATAAAA
114394139 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TACATAATATATACATATATAAAATA
Found at i:114394364 original size:18 final size:18
Alignment explanation
Indices: 114394341--114394384 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
114394331 AGAAATACTC
*
114394341 AATATATAATATTTA-AAA
1 AATATATAATA-ATACAAA
114394359 AATATATAATAATACAAA
1 AATATATAATAATACAAA
114394377 AATATATA
1 AATATATA
114394385 TAGTGTAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AATATATAATAATACAAA
Found at i:114394587 original size:3 final size:3
Alignment explanation
Indices: 114394581--114394637 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
114394571 TTAGAAGTAG
114394581 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114394629 TAA TAA TAA
1 TAA TAA TAA
114394638 AGTAGAGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:114397752 original size:2 final size:2
Alignment explanation
Indices: 114397740--114397774 Score: 52
Period size: 2 Copynumber: 16.5 Consensus size: 2
114397730 TATAAGTTGG
114397740 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
114397775 GCAATTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 27 0.87
3 4 0.13
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:114401084 original size:26 final size:26
Alignment explanation
Indices: 114401055--114401162 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
114401045 TGATACAAAT
114401055 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
114401081 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
114401107 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
114401133 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
114401159 TGAT
1 TGAT
114401163 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:114403183 original size:130 final size:130
Alignment explanation
Indices: 114402950--114403202 Score: 479
Period size: 130 Copynumber: 1.9 Consensus size: 130
114402940 GAGTAGTCTC
*
114402950 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
*
114403015 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTAAAAAGGGCTCTGGCCACTATTA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCACTATTA
114403080 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
*
114403145 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCC
114403203 CAGTACCACT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 120 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (130 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCACTATTA
Found at i:114404567 original size:126 final size:127
Alignment explanation
Indices: 114404194--114404549 Score: 450
Period size: 127 Copynumber: 2.8 Consensus size: 127
114404184 GTCGAATTTA
* * * *
114404194 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAGGGATCGTACCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGATTGATGTTTAGAAATTCAAGGAATCGTGCCCTAATGTGCTGGGTTTCG
* * *
114404259 ATCTTTCGTTTGTCTAAATAATCAAATGTCCCTTTAAAATTTCGTCCATGTTTTCTAAACTT
66 ATCTTTTGTTTGTCTAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCTAAACTT
* * *
114404321 TAAAACAAAGGTGAGGATTTATGTTTAGAAATTCAAGGGAA-CGTGCCCTAATGTGCTGGGTTTC
1 TAAAACAAAGGCGATGATTGATGTTTAGAAATTCAA-GGAATCGTGCCCTAATGTGCTGGGTTTC
* * * **
114404385 GATCTTTTGTTTGTCTAAATAATCAAGTTTCCCTTTCAAATTTCGTCTGCGTTTTCTAAACTT
65 GATCTTTTGTTTGTCTAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCTAAACTT
* * * * *
114404448 TAAAACAAAAGCGATGATTGATGTTTGGGAATTCAA-AAATCGTGCCCTAATGTGCCGGGTTTCG
1 TAAAACAAAGGCGATGATTGATGTTTAGAAATTCAAGGAATCGTGCCCTAATGTGCTGGGTTTCG
* * *
114404512 ATTTTTTGTTTAT-TCAAATTAA-CAAACATCCCTTTAAA
66 ATCTTTTGTTTGTCT-AAA-TAATCAAATATCCCTTTAAA
114404550 TTCTGTCCAC
Statistics
Matches: 197, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
125 3 0.02
126 49 0.25
127 142 0.72
128 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (127 bp):
TAAAACAAAGGCGATGATTGATGTTTAGAAATTCAAGGAATCGTGCCCTAATGTGCTGGGTTTCG
ATCTTTTGTTTGTCTAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCTAAACTT
Found at i:114407975 original size:10 final size:10
Alignment explanation
Indices: 114407958--114408009 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
114407948 TTTTTGCATT
114407958 CATTCATTTG
1 CATTCATTTG
*
114407968 CGTTCATTT-
1 CATTCATTTG
114407977 CATTCATTTG
1 CATTCATTTG
114407987 CATTACATTT-
1 CATT-CATTTG
*
114407997 CA-TCATATG
1 CATTCATTTG
114408006 CATT
1 CATT
114408010 AAATTTCACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
8 4 0.11
9 11 0.31
10 15 0.43
11 5 0.14
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (10 bp):
CATTCATTTG
Found at i:114407980 original size:19 final size:20
Alignment explanation
Indices: 114407956--114408017 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 20
114407946 TCTTTTTGCA
*
114407956 TTCATTCATTTGCGTT-CAT
1 TTCATTCATTTGCATTACAT
114407975 TTCATTCATTTGCATTACAT
1 TTCATTCATTTGCATTACAT
* *
114407995 TTCA-TCATATGCATTAAAT
1 TTCATTCATTTGCATTACAT
114408014 TTCA
1 TTCA
114408018 CGAAAAGACC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 32 0.82
20 7 0.18
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (20 bp):
TTCATTCATTTGCATTACAT
Found at i:114408177 original size:12 final size:12
Alignment explanation
Indices: 114408161--114408208 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
114408151 GCAAAGGGAT
114408161 ATGCAAGAGCA-
1 ATGCAAGAGCAG
114408172 ATTGCAAGCA-CAG
1 A-TGCAAG-AGCAG
114408185 ATGCAAGAGCAG
1 ATGCAAGAGCAG
114408197 ATGCAAGAGCAG
1 ATGCAAGAGCAG
114408209 TTAGCTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 2 0.06
12 29 0.88
13 2 0.06
ACGTcount: A:0.42, C:0.19, G:0.29, T:0.10
Consensus pattern (12 bp):
ATGCAAGAGCAG
Found at i:114411036 original size:21 final size:21
Alignment explanation
Indices: 114410997--114411037 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
114410987 TGGCACCATA
*
114410997 GCCATGCACACGCCTCCGTAT
1 GCCATGCACACGCCCCCGTAT
114411018 GCCA-GCACACGGCCCCCGTA
1 GCCATGCACAC-GCCCCCGTA
114411038 CACGTGCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.46, G:0.22, T:0.12
Consensus pattern (21 bp):
GCCATGCACACGCCCCCGTAT
Done.