Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 133 of 141
Found at i:42929736 original size:210 final size:210
Alignment explanation
Indices: 42929235--42930305 Score: 1489
Period size: 210 Copynumber: 5.1 Consensus size: 210
42929225 TGAAATTGAA
42929235 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
1 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
* * *
42929300 AATTGATGTAGGGAGTGATGAAATTGAAAAGAAG----A-AA-AAGAAGAAG-AG--CAATGAAA
66 AATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGA
* *
42929356 ATGAGGATGCTATTGAGGCAATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATT
131 ATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATT
42929421 GAAAAGAAGAAAAAG
196 GAAAAGAAGAAAAAG
* * * *
42929436 AAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTGATGCTGTTGCTGTTGTTGA
1 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCT-A-----TTGCTGTTGTTGA
*
42929501 TAGTGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACA
60 TGGTGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACA
** * *
42929566 AAGAGAATGAGGAGGCTAAAGAGGCTATTTCCGTTGTTGATGGTGCAATTGATGTAGGGAGTGAT
125 AAGAGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGAT
42929631 GAAATTGAAAAGAAGAAAAAG
190 GAAATTGAAAAGAAGAAAAAG
* *
42929652 AAGAAGAAGAAGAAGGGCAATGAAAATGAGGATGCTGTTGAGGCTATTGCTGTTGTTGATGGTGC
1 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
* * * *
42929717 AATTGATGAAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAA
66 AATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGA
*
42929782 ATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATT
131 ATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATT
42929847 GAAAAGAAGAAAAAG
196 GAAAAGAAGAAAAAG
* * * *
42929862 AAGAAGAAGAACAA-AG--A-G--AATGAGGAGGCTATT---GCTGTTGCTGTTGTTGATAGTGC
1 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
*
42929918 AATTGACGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAAGAACAAAG
66 AATTGATGCAGGGAGTGATGAAATTGAAAAGAAG--AAA-AAGAAGAAGAAGAAGAAGAACAAAG
42929983 AGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAA
128 AGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAA
42930048 ATTGAAAAGAAGAAAAAG
193 ATTGAAAAGAAGAAAAAG
42930066 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
1 AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
* *
42930131 AATTGATGTAGAGAGTGATGAAATTGAAAAGAAGACAAAGAAGAAGAAGAAGAAGAAGAAGAAGA
66 AATTGATGCAGGGAGTGATGAAATT--------GA-AAAGAAG-A-AA-AAGAAGAAGAAGAAGA
* *
42930196 AGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGACGGTGCAATTGATGCAGGG
119 AGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGG
*
42930261 -GCTGAGGATGAAACTGAAAAGAAGAAAAAG
184 AG-T---GATGAAATTGAAAAGAAGAAAAAG
*
42930291 AAGAA-AAGAAAAAGA
1 AAGAAGAAGAAGAAGA
42930306 AAAGATGCAG
Statistics
Matches: 776, Mismatches: 53, Indels: 59
0.87 0.06 0.07
Matches are distributed among these distances:
201 94 0.12
202 1 0.00
203 3 0.00
204 130 0.17
205 2 0.00
206 1 0.00
207 53 0.07
208 1 0.00
209 1 0.00
210 181 0.23
211 1 0.00
212 2 0.00
213 52 0.07
214 2 0.00
215 1 0.00
216 119 0.15
221 5 0.01
222 90 0.12
224 9 0.01
225 28 0.04
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.21
Consensus pattern (210 bp):
AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGC
AATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGA
ATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATT
GAAAAGAAGAAAAAG
Found at i:42929961 original size:3 final size:3
Alignment explanation
Indices: 42929946--42929977 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
42929936 TGAAATTGAA
*
42929946 AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
42929978 CAAAGAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:42930014 original size:309 final size:306
Alignment explanation
Indices: 42928950--42930181 Score: 1605
Period size: 309 Copynumber: 4.0 Consensus size: 306
42928940 TGAGAGGAAA
* * * * * **
42928950 AAGAAGAAGAGCAAAGAGAGTGATGAGGCTGTTGC---TGCTGCTGTTGATGGTGCTAA-TGACA
1 AAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGCTATTGCTGTTGTTGATGGTGC-AATTGATG
* *
42929011 TAGGG-GCTGATGAAATTGAAACA-AAGAAAAATAAGAAGAAGAAGAAGAGCAATGAGAATGTA-
65 TAGGGAG-TGATGAAATTGAAA-AGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATG-AG
* *
42929073 GATGCTATTGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAATTGATGTAGGGAGTAATGAAAT
127 GATGCTATTGAGGCTA------TTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAAT
*
42929138 T--------G---AA-AAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCAATTG
186 TGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTG
42929191 CTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG---AAG
251 CTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAG
* * *
42929244 AAGAAG-AG--CAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGA
1 AAGAAGAAGAACAAAGAGAATGAGGAGGCTATT---GCTATTGCTGTTGTTGATGGTGCAATTGA
42929306 TGTAGGGAGTGATGAAATTG--AA-AAG---AAG-A-AA-AAGAAGAAGAGCAATGAAAATGAGG
63 TGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGG
*
42929362 ATGCTATTGAGGCAATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAG
128 ATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAG
* * * *
42929427 AAGAAAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTGATGCTGTTGC
193 AAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCT-A-----TTGC
* *
42929492 TGTTGTTGATAGTGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAG
252 TGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG----A-AA-AAG
** * *
42929553 AAGAAGAAGAACAAAGAGAATGAGGAGGCTAAAGAGGCTATTTCCGTTGTTGATGGTGCAATTGA
1 AAGAAGAAGAACAAAGAGAATGAGGAGGCT--A-TTGCTATTGCTGTTGTTGATGGTGCAATTGA
*
42929618 TGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGGGCAATGAAAATGAGG
63 TGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGG
* *
42929683 ATGCTGTTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGAAGGGAGTGATGAAATTGAAAAG
128 ATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAG
42929748 AAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGT
193 AAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGT
42929813 TGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAG
258 TGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAG
* * * *
42929862 AAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGCTGTTGCTGTTGTTGATAGTGCAATTGACGC
1 AAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGCTATTGCTGTTGTTGATGGTGCAATTGATGT
* *
42929927 AGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGG
66 AGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAG-AG--CAATGAAAATGAGG
*
42929992 AGGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAG
128 ATGCTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAG
42930057 AAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGT
193 AAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGT
* *
42930122 TGATGGTGCAATTGATGTAGAGAGTGATGAAATTGAAAAGAAGACAAAG
258 TGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAG
42930171 AAGAAGAAGAA
1 AAGAAGAAGAA
42930182 GAAGAAGAAG
Statistics
Matches: 830, Mismatches: 54, Indels: 93
0.85 0.06 0.10
Matches are distributed among these distances:
282 42 0.05
287 1 0.00
288 36 0.04
289 2 0.00
290 2 0.00
291 18 0.02
293 4 0.00
294 52 0.06
295 2 0.00
296 2 0.00
297 36 0.04
298 1 0.00
300 51 0.06
306 72 0.09
307 2 0.00
309 239 0.29
310 4 0.00
311 1 0.00
312 63 0.08
314 3 0.00
315 54 0.07
318 3 0.00
319 1 0.00
320 3 0.00
321 136 0.16
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.22
Consensus pattern (306 bp):
AAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGCTATTGCTGTTGTTGATGGTGCAATTGATGT
AGGGAGTGATGAAATTGAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATG
CTATTGAGGCTATTGCTGTTGTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG
AAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGA
TGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGAAAAAG
Found at i:42930174 original size:3 final size:3
Alignment explanation
Indices: 42930159--42930199 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
42930149 TGAAATTGAA
42930159 AAG AAG ACA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
42930200 CAAAGAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 34 0.94
4 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:42930175 original size:105 final size:105
Alignment explanation
Indices: 42929326--42930305 Score: 1343
Period size: 105 Copynumber: 9.2 Consensus size: 105
42929316 GATGAAATTG
* * * *
42929326 AAAAGAAGAAAAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCAATTGCTGTTGTTGAT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
42929391 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
66 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
* *
42929431 AAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTGATGCTGTTGCTGTT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCT-A-----TTGCTGTT
* *
42929496 GTTGATAGTGCAATTGATGCAGGGAGTGATGAAATTGAAAAGAAGA
60 GTTGATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
* * ** * *
42929542 AAAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTAAAGAGGCTATTTCCGTTGTTGAT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
42929607 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
66 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
* * * *
42929647 AAAAGAAGAAGAAGAAGAAGGGCAATGAAAATGAGGATGCTGTTGAGGCTATTGCTGTTGTTGAT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
*
42929712 GGTGCAATTGATGAAGGGAGTGATGAAATTGAAAAGAAGA
66 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
* *
42929752 AAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGAT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
42929817 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAG-
66 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
* *
42929856 -AAA-AAGAAGAAGAAG-A-A-CAAAGAGAATGAGGAGGCTATT---GCTGTTGCTGTTGTTGAT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
* * *
42929913 AGTGCAATTGACGCAGGGAGTGATGAAATTGAAAAGAAGA
66 GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
*
42929953 AAAAGAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGCTGTTGTT
1 AAAAGAAGAAGAAGAAGAAG-AG--CAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTT
42930018 GATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
63 GATGGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
* *
42930061 AAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCTGTTGTTGAT
1 AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
*
42930126 GGTGCAATTGATGTAGAGAGTGATGAAATTGAAAAGAAGACAAAGAA
66 GGTGCAATTGATGTAGGGAGTGATGAAATTG--AA-AAG---AAG-A
*
42930173 GAAGAAGAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGCTGTTG
1 -AA-AAGAAGAAGAAGAAGAAG-AG--CAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTG
* * *
42930238 TTGACGGTGCAATTGATGCAGGG-GCTGAGGATGAAACTGAAAAGAAGA
61 TTGATGGTGCAATTGATGTAGGGAG-T---GATGAAATTGAAAAGAAGA
*
42930286 AAAAGAAGAA-AAGAAAAAGA
1 AAAAGAAGAAGAAGAAGAAGA
42930306 AAAGATGCAG
Statistics
Matches: 790, Mismatches: 51, Indels: 64
0.87 0.06 0.07
Matches are distributed among these distances:
96 53 0.07
98 3 0.00
99 31 0.04
100 2 0.00
101 1 0.00
102 13 0.02
103 3 0.00
105 381 0.48
106 1 0.00
107 4 0.01
108 77 0.10
109 1 0.00
110 9 0.01
111 111 0.14
112 3 0.00
113 3 0.00
114 21 0.03
115 2 0.00
116 1 0.00
117 59 0.07
118 2 0.00
120 9 0.01
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.20
Consensus pattern (105 bp):
AAAAGAAGAAGAAGAAGAAGAGCAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTGTTGTTGAT
GGTGCAATTGATGTAGGGAGTGATGAAATTGAAAAGAAGA
Found at i:42930292 original size:117 final size:114
Alignment explanation
Indices: 42930052--42930310 Score: 344
Period size: 117 Copynumber: 2.2 Consensus size: 114
42930042 GATGAAATTG
* * *
42930052 AAAAGAAGAAAAAGAAGAAGAAGAAGAAGAGCAATGAAAATGAGGATGCTATTGAGGCTATTGCT
1 AAAAGAAG-AAAAGAAGAAGAAGAAGAAGAACAAAGAAAATGAGGAGGCTATTGAGGCTATTGCT
* * *
42930117 GTTGTTGATGGTGCAATTGATGTAGAGAGTGATGAAATTGAAAAGAAGACA
65 GTTGTTGACGGTGCAATTGATGCAGAGAGTGATGAAACTGAAAAGAAGA-A
*
42930168 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAACAAAGAGAATGAGGAGGCTATTGAGGCTATTGC
1 AA-AAGAAGAA-AAGAAGAAGAAGAAGAAGAACAAAGAAAATGAGGAGGCTATTGAGGCTATTGC
*
42930233 TGTTGTTGACGGTGCAATTGATGCAG-GGGCTGAGGATGAAACTGAAAAGAAG-A
64 TGTTGTTGACGGTGCAATTGATGCAGAGAG-T---GATGAAACTGAAAAGAAGAA
*
42930286 AAAAGAAGAAAAGAAAAAGAA-AAGA
1 AAAAGAAGAAAAGAAGAAGAAGAAGA
42930311 TGCAGCAGAG
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
115 4 0.03
116 16 0.12
117 88 0.69
118 3 0.02
120 17 0.13
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.17
Consensus pattern (114 bp):
AAAAGAAGAAAAGAAGAAGAAGAAGAAGAACAAAGAAAATGAGGAGGCTATTGAGGCTATTGCTG
TTGTTGACGGTGCAATTGATGCAGAGAGTGATGAAACTGAAAAGAAGAA
Found at i:42938202 original size:31 final size:30
Alignment explanation
Indices: 42938167--42938226 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
42938157 GGAGGTGGGA
*
42938167 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
42938198 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
42938227 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:42938456 original size:9 final size:9
Alignment explanation
Indices: 42938442--42938478 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
42938432 TATAGTTTGA
42938442 TATTCGAAT
1 TATTCGAAT
*
42938451 TATTCGAGT
1 TATTCGAAT
*
42938460 TATTCGAGT
1 TATTCGAAT
42938469 TATTCGAAT
1 TATTCGAAT
42938478 T
1 T
42938479 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:42938870 original size:2 final size:2
Alignment explanation
Indices: 42938865--42938891 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42938855 ATTTTTTGCA
42938865 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 A
42938892 CTTGTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42961953 original size:24 final size:24
Alignment explanation
Indices: 42961921--42961972 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
42961911 AATCAAAGTC
** *
42961921 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
42961945 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
42961969 AAAT
1 AAAT
42961973 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:42979924 original size:6 final size:6
Alignment explanation
Indices: 42979899--42979948 Score: 73
Period size: 6 Copynumber: 7.8 Consensus size: 6
42979889 GGGTTTGTAA
42979899 TTTATT TTTGATTT TATTATT TTTATT TTTATT TTTATT TTTATT TTTAT
1 TTTATT TTT-A-TT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTAT
42979949 CTGTTTTCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 31 0.76
7 4 0.10
8 4 0.10
9 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:42984753 original size:26 final size:26
Alignment explanation
Indices: 42984669--42984759 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
42984659 CGTAAAAATC
* *
42984669 TAAAATAAATAATATACATGAAACAGTT
1 TAAAATAAATAA-A-ATATGAAACAATT
* *
42984697 TAAGATAAA-ATAATA-GAAAGCAATT
1 TAAAATAAATAAAATATGAAA-CAATT
**
42984722 CGAAATAAATAAAATATGAAACAATT
1 TAAAATAAATAAAATATGAAACAATT
*
42984748 TAAAATAGATAA
1 TAAAATAAATAA
42984760 TATCAATCAG
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
24 4 0.08
25 12 0.24
26 20 0.41
27 5 0.10
28 8 0.16
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.25
Consensus pattern (26 bp):
TAAAATAAATAAAATATGAAACAATT
Found at i:42984853 original size:25 final size:25
Alignment explanation
Indices: 42984804--42984854 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
42984794 ATGTAATCTG
42984804 TTAAAAAAATAATGAATATAAAAAT
1 TTAAAAAAATAATGAATATAAAAAT
42984829 TTAAATAAAATAAT-AA-ATAACAAAT
1 TTAAA-AAAATAATGAATATAA-AAAT
42984854 T
1 T
42984855 AAAGGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.17
25 12 0.50
26 8 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
TTAAAAAAATAATGAATATAAAAAT
Found at i:42986566 original size:16 final size:17
Alignment explanation
Indices: 42986535--42986567 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42986525 TATTATTTAA
*
42986535 TTAATTAAATTAATTTT
1 TTAACTAAATTAATTTT
42986552 TTAACTAAA-TAATTTT
1 TTAACTAAATTAATTTT
42986568 ATCAATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAACTAAATTAATTTT
Found at i:42994879 original size:26 final size:26
Alignment explanation
Indices: 42994737--42994888 Score: 71
Period size: 26 Copynumber: 5.9 Consensus size: 26
42994727 NNNNNNNNNT
* * *
42994737 AAACAATTTAAAATAAACATTACATG
1 AAACAATTTAAAATAAATAATATATG
* * * * * **
42994763 AAATAGTTTAAAAGAAATGACACGT-
1 AAACAATTTAAAATAAATAATATATG
* *
42994788 AAA-AATCTAAAATAAATAATATACATA
1 AAACAATTTAAAATAAATAATAT--ATG
* *
42994815 AAACAGTTTAAGAT-AA-AATA-ATAG
1 AAACAATTTAAAATAAATAATATAT-G
**
42994839 AAAGCAATTCGAAATAAATAATATATG
1 AAA-CAATTTAAAATAAATAATATATG
**
42994866 AAACAATTTAAAATTGATAATAT
1 AAACAATTTAAAATAAATAATAT
42994889 CAAACAGTTT
Statistics
Matches: 90, Mismatches: 27, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
23 2 0.02
24 16 0.18
25 10 0.11
26 40 0.44
27 13 0.14
28 9 0.10
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (26 bp):
AAACAATTTAAAATAAATAATATATG
Found at i:42994930 original size:14 final size:14
Alignment explanation
Indices: 42994911--42994941 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42994901 TATGAACAAT
42994911 ATAAATAAAATGAA
1 ATAAATAAAATGAA
*
42994925 ATAAATAAAATGTA
1 ATAAATAAAATGAA
42994939 ATA
1 ATA
42994942 TGTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
ATAAATAAAATGAA
Found at i:42995003 original size:24 final size:27
Alignment explanation
Indices: 42994950--42995000 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
42994940 TATGTTTAAA
42994950 AAATAATAATAATGAATATAAAAATTT
1 AAATAATAATAATGAATATAAAAATTT
42994977 AAATAA-AATAAT-AA-ATAACAAATT
1 AAATAATAATAATGAATATAA-AAATT
42995001 AAAGGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.17
25 7 0.30
26 6 0.26
27 6 0.26
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
AAATAATAATAATGAATATAAAAATTT
Found at i:42996712 original size:16 final size:17
Alignment explanation
Indices: 42996681--42996713 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42996671 TATTATTTAA
*
42996681 TTAATTAAATTAATTTT
1 TTAACTAAATTAATTTT
42996698 TTAACTAAA-TAATTTT
1 TTAACTAAATTAATTTT
42996714 ATCAATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAACTAAATTAATTTT
Found at i:43003516 original size:22 final size:22
Alignment explanation
Indices: 43003491--43003543 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
43003481 AAGAGCAAAA
43003491 TTCTATGAATCTTACAATGTTT
1 TTCTATGAATCTTACAATGTTT
* * * * *
43003513 TTCTCTCAATTTTTCAGTGTTT
1 TTCTATGAATCTTACAATGTTT
*
43003535 TTCAATGAA
1 TTCTATGAA
43003544 ATGAAGCGAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (22 bp):
TTCTATGAATCTTACAATGTTT
Found at i:43010835 original size:16 final size:16
Alignment explanation
Indices: 43010816--43010846 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
43010806 TTGACCTCAA
43010816 ATAGATATACACAGTG
1 ATAGATATACACAGTG
43010832 ATAGATATACACAGT
1 ATAGATATACACAGT
43010847 ACCACTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (16 bp):
ATAGATATACACAGTG
Found at i:43016786 original size:5 final size:5
Alignment explanation
Indices: 43016749--43016818 Score: 86
Period size: 5 Copynumber: 13.8 Consensus size: 5
43016739 AAATATTTAA
* * * * *
43016749 ATAAT ATAAT GTAAT GTAAT ATGAT ACACT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
43016799 ATAAT ATAAT ATAAT GATAA
1 ATAAT ATAAT ATAAT -ATAA
43016819 GCATTATTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
5 52 0.93
6 4 0.07
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:43017537 original size:31 final size:31
Alignment explanation
Indices: 43017499--43017557 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
43017489 ATGCGTTTTA
*
43017499 TGACTAAAATGATAAAAGTATATAACGACAG
1 TGACTAAAATAATAAAAGTATATAACGACAG
* * *
43017530 TGACTAAAATAATAGAATTATGTAACGA
1 TGACTAAAATAATAAAAGTATATAACGA
43017558 AAATGCTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.25
Consensus pattern (31 bp):
TGACTAAAATAATAAAAGTATATAACGACAG
Found at i:43018438 original size:31 final size:32
Alignment explanation
Indices: 43018369--43018438 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 32
43018359 AAAAAGTTTT
43018369 AACAATTATTAAAATATTATAAAATTTTCAAA
1 AACAATTATTAAAATATTATAAAATTTTCAAA
*
43018401 AA-AATTA-TGAAATA-TATACAAATTATT-AAA
1 AACAATTATTAAAATATTATA-AAATT-TTCAAA
43018431 AACAATTA
1 AACAATTA
43018439 AAAATTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 4 0.12
30 16 0.47
31 12 0.35
32 2 0.06
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (32 bp):
AACAATTATTAAAATATTATAAAATTTTCAAA
Found at i:43018522 original size:30 final size:29
Alignment explanation
Indices: 43018481--43018555 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
43018471 TTATACCATT
* * *
43018481 TTAAAAGTCAATTAAGTCCTCT-TAAAATAA
1 TTAAAAATCAATTAAATCAT-TGTAAAAT-A
43018511 TTAAAAATCAATTAAATCATTGTAAAATA
1 TTAAAAATCAATTAAATCATTGTAAAATA
*
43018540 TAAAAAATCAATTAAA
1 TTAAAAATCAATTAAA
43018556 CCTTTCATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.43
30 23 0.57
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (29 bp):
TTAAAAATCAATTAAATCATTGTAAAATA
Found at i:43032943 original size:8 final size:8
Alignment explanation
Indices: 43032930--43032975 Score: 83
Period size: 8 Copynumber: 5.8 Consensus size: 8
43032920 TAATAGGTCA
43032930 TACATACT
1 TACATACT
43032938 TACATACT
1 TACATACT
43032946 TACATACT
1 TACATACT
43032954 TACATACT
1 TACATACT
*
43032962 TACATACA
1 TACATACT
43032970 TACATA
1 TACATA
43032976 TTTATTTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (8 bp):
TACATACT
Found at i:43032971 original size:4 final size:4
Alignment explanation
Indices: 43032928--43032975 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
43032918 TGTAATAGGT
* * * *
43032928 CATA CATA CTTA CATA CTTA CATA CTTA CATA CTTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
43032976 TTTATTTGAT
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:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (4 bp):
CATA
Found at i:43034175 original size:51 final size:51
Alignment explanation
Indices: 43034107--43034207 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
43034097 TTTTTTGAAT
*
43034107 ATGCGTTGAAGAACAAGGCATGTTTTGATAGTCCTAAGTTGTTGTTTTTTA
1 ATGCCTTGAAGAACAAGGCATGTTTTGATAGTCCTAAGTTGTTGTTTTTTA
*
43034158 ATGCCTTGAAGAACAAGGCATGTTTTGATAGTCCTAAGTTGTTTTTTTTT
1 ATGCCTTGAAGAACAAGGCATGTTTTGATAGTCCTAAGTTGTTGTTTTTT
43034208 CTCCCATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.43
Consensus pattern (51 bp):
ATGCCTTGAAGAACAAGGCATGTTTTGATAGTCCTAAGTTGTTGTTTTTTA
Found at i:43036343 original size:84 final size:84
Alignment explanation
Indices: 43036245--43036412 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
43036235 CTTCGGGGGA
43036245 CTAAAACAATAATTTTCTATTTTAGGGAGACTTACATGTCAGCTTACTATTCCTATATATTACTC
1 CTAAAACAATAATTTTCTATTTTAGGGAGACTTACATGTCAGCTTACTATTCCTATATATTACTC
43036310 AAAAAAAAAAAACCTCCAG
66 AAAAAAAAAAAACCTCCAG
43036329 CTAAAACAATAATTTTCTATTTTAGGGAGACTTACATGTCAGCTTACTATTCCTATATATTACTC
1 CTAAAACAATAATTTTCTATTTTAGGGAGACTTACATGTCAGCTTACTATTCCTATATATTACTC
43036394 AAAAAAAAAAAACCTCCAG
66 AAAAAAAAAAAACCTCCAG
43036413 TTAGCAAACA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (84 bp):
CTAAAACAATAATTTTCTATTTTAGGGAGACTTACATGTCAGCTTACTATTCCTATATATTACTC
AAAAAAAAAAAACCTCCAG
Found at i:43041064 original size:28 final size:31
Alignment explanation
Indices: 43041002--43041072 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
43040992 TATTTGTTTA
* *
43041002 TTTATAGATTTTATTTTTGTTTTGTACATAT
1 TTTATAGATTTTATTTTTGTTCTGTACATAC
*
43041033 TTTATAGATTTTTTTTTTG-TCTG-A-ATAC
1 TTTATAGATTTTATTTTTGTTCTGTACATAC
*
43041061 TTTATAGGTTTT
1 TTTATAGATTTT
43041073 GTAATAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 14 0.39
29 1 0.03
30 3 0.08
31 18 0.50
ACGTcount: A:0.21, C:0.04, G:0.11, T:0.63
Consensus pattern (31 bp):
TTTATAGATTTTATTTTTGTTCTGTACATAC
Found at i:43041556 original size:18 final size:17
Alignment explanation
Indices: 43041519--43041581 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
43041509 TATGTTTTTA
* *
43041519 AAATTTA-AAACATTAT
1 AAATTTATAAAAATTAC
43041535 AAATTTATAAAAATTCAC
1 AAATTTATAAAAATT-AC
* *
43041553 AAATATAAAAAAAATTAC
1 AAAT-TTATAAAAATTAC
43041571 AAATTTATAAA
1 AAATTTATAAA
43041582 GTTATAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 7 0.18
17 11 0.29
18 11 0.29
19 9 0.24
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTTATAAAAATTAC
Found at i:43055434 original size:91 final size:91
Alignment explanation
Indices: 43055328--43055498 Score: 247
Period size: 91 Copynumber: 1.9 Consensus size: 91
43055318 AAATATATAC
* *
43055328 CTTATGCCACCTCATTTTAA-GGTAATGGCATAATTGCTTC-TTTAGTCCCTTGAATTTTTCTTT
1 CTTATGCCACCTCA-TTTAATGGTAATGGCATAATTGC-TCATTTAATCCCTTGAATTATTCTTT
*
43055391 AATCTATAATTTAACTTAATATTTTAAT
64 AATCTATAATTCAACTTAATATTTTAAT
* * * *
43055419 CTTATGCCGCCTCATTTAATGTTAATGGCATAATTTCTCATTTAATCCCTTTAATTATTCTTTAA
1 CTTATGCCACCTCATTTAATGGTAATGGCATAATTGCTCATTTAATCCCTTGAATTATTCTTTAA
43055484 TCTATAATTCAACTT
66 TCTATAATTCAACTT
43055499 TTACCCTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
90 7 0.10
91 64 0.90
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (91 bp):
CTTATGCCACCTCATTTAATGGTAATGGCATAATTGCTCATTTAATCCCTTGAATTATTCTTTAA
TCTATAATTCAACTTAATATTTTAAT
Found at i:43058157 original size:17 final size:17
Alignment explanation
Indices: 43058135--43058169 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
43058125 GATAAGGTTG
43058135 AACATTTTATGCACCGT
1 AACATTTTATGCACCGT
43058152 AACATTTTATGCACCGT
1 AACATTTTATGCACCGT
43058169 A
1 A
43058170 CCCTTCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (17 bp):
AACATTTTATGCACCGT
Found at i:43061647 original size:18 final size:19
Alignment explanation
Indices: 43061613--43061652 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
43061603 CGTCATCAGG
43061613 AAAAAAAAAGAAAAAA-GA
1 AAAAAAAAAGAAAAAAGGA
* *
43061631 AAAAAAAAAGGAGAAAGGA
1 AAAAAAAAAGAAAAAAGGA
43061650 AAA
1 AAA
43061653 CTAGAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAGGA
Found at i:43062382 original size:16 final size:16
Alignment explanation
Indices: 43062361--43062393 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43062351 CATCAAGTAG
43062361 ATCTTGACTTTCTTTT
1 ATCTTGACTTTCTTTT
43062377 ATCTTGACTTTCTTTT
1 ATCTTGACTTTCTTTT
43062393 A
1 A
43062394 CCCTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (16 bp):
ATCTTGACTTTCTTTT
Found at i:43067764 original size:57 final size:57
Alignment explanation
Indices: 43067676--43067787 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
43067666 CTTTGGTAGA
* * * *
43067676 TACGAATGTAGATCTTCTAGCTGAACAAAACCAAACCTTGACAGCCTCTACCAATCT
1 TACGAAGGTAGACCTTCTAACTGAACAAAACCAAACCATGACAGCCTCTACCAATCT
*
43067733 TACGAAGGTAGACCTTCTAACTGAACAAAACCAAACCATGATAGCCTCTACCAAT
1 TACGAAGGTAGACCTTCTAACTGAACAAAACCAAACCATGACAGCCTCTACCAAT
43067788 GGTTCTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (57 bp):
TACGAAGGTAGACCTTCTAACTGAACAAAACCAAACCATGACAGCCTCTACCAATCT
Found at i:43072561 original size:14 final size:13
Alignment explanation
Indices: 43072534--43072560 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43072524 ATGATTAGTG
43072534 AGGATCTATTAAA
1 AGGATCTATTAAA
43072547 AGGATCTATTAAA
1 AGGATCTATTAAA
43072560 A
1 A
43072561 AAATAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
AGGATCTATTAAA
Found at i:43079834 original size:73 final size:74
Alignment explanation
Indices: 43079706--43079848 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 74
43079696 GAAGTCAAAC
* * * * * * * *
43079706 TTAAAAATAAAGAAAGTAGTAAAAATATTAAATGGACCTCGGCATCTTTGAGAGTCAATGTTCAA
1 TTAAAAATAAAGAAAATAATAAAAATATTAAACGAACCTCGACACCTATGAGAGTCAAGGTTCAA
43079771 AGTTAGACA
66 AGTTAGACA
* * *
43079780 TTAAAAA-GAAGAAAATAATAAAAATATTAAACGAACCTTGACACCTATGAGAGTCGAGGTTCAA
1 TTAAAAATAAAGAAAATAATAAAAATATTAAACGAACCTCGACACCTATGAGAGTCAAGGTTCAA
43079844 AGTTA
66 AGTTA
43079849 AACTTGTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
73 51 0.88
74 7 0.12
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (74 bp):
TTAAAAATAAAGAAAATAATAAAAATATTAAACGAACCTCGACACCTATGAGAGTCAAGGTTCAA
AGTTAGACA
Found at i:43099084 original size:2 final size:2
Alignment explanation
Indices: 43099077--43099104 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43099067 TTGTGTTTAA
43099077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43099105 TTCCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43104723 original size:54 final size:54
Alignment explanation
Indices: 43104646--43104795 Score: 266
Period size: 54 Copynumber: 2.8 Consensus size: 54
43104636 GAAAGAGGTC
*
43104646 AAAAACATCACCTAAACCCAACTCTAATTATTATATTTATTTACAAAAAAAAAA
1 AAAAACATCACCTAAACCCAACTCTAATTATTATATTTATTTAAAAAAAAAAAA
43104700 AAAAACATCACCTAAACCCAACTCTAATTATTATATTTATTTAAAAAAAAAAAA
1 AAAAACATCACCTAAACCCAACTCTAATTATTATATTTATTTAAAAAAAAAAAA
* *
43104754 AAAAACATCACCTAAACCCATCTCTAATTA-TAAATTTATTTA
1 AAAAACATCACCTAAACCCAACTCTAATTATTATATTTATTTA
43104796 TTTAAGTTTT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
53 11 0.12
54 82 0.88
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (54 bp):
AAAAACATCACCTAAACCCAACTCTAATTATTATATTTATTTAAAAAAAAAAAA
Found at i:43108186 original size:9 final size:9
Alignment explanation
Indices: 43108172--43108270 Score: 126
Period size: 9 Copynumber: 10.9 Consensus size: 9
43108162 TTTGGTTAAA
43108172 AATTAACCG
1 AATTAACCG
43108181 AATTAACCG
1 AATTAACCG
43108190 AATTAACCG
1 AATTAACCG
*
43108199 AATTACCCG
1 AATTAACCG
*
43108208 AATTACCCG
1 AATTAACCG
*
43108217 AATTACCCG
1 AATTAACCG
*
43108226 AATTACCCG
1 AATTAACCG
*
43108235 AACTAACCG
1 AATTAACCG
*
43108244 AATTACCCG
1 AATTAACCG
*
43108253 AATTAACCA
1 AATTAACCG
43108262 AATTGAACC
1 AATT-AACC
43108271 ACTACATAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
9 78 0.95
10 4 0.05
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:43113499 original size:15 final size:15
Alignment explanation
Indices: 43113479--43113513 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43113469 AAACTAAGTT
43113479 TTTTTAAAACATTCA
1 TTTTTAAAACATTCA
* *
43113494 TTTTTACAATATTCA
1 TTTTTAAAACATTCA
43113509 TTTTT
1 TTTTT
43113514 TCTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTAAAACATTCA
Found at i:43119572 original size:15 final size:16
Alignment explanation
Indices: 43119540--43119586 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
43119530 ATAACTTAAA
*
43119540 TTTAGTACTTAA-TTT
1 TTTAATACTTAATTTT
* *
43119555 TTTCATA-TTTATTTT
1 TTTAATACTTAATTTT
43119570 TTTAATACTTAATTTT
1 TTTAATACTTAATTTT
43119586 T
1 T
43119587 CAATTAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.12
15 14 0.56
16 8 0.32
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTAATACTTAATTTT
Found at i:43128620 original size:26 final size:26
Alignment explanation
Indices: 43128591--43128641 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43128581 TTTTATTTTA
*
43128591 TTTT-TATTTTTGTAACATATATTTGC
1 TTTTATATTTCTG-AACATATATTTGC
*
43128617 TTTTATATTTCTGAATATATATTTG
1 TTTTATATTTCTGAACATATATTTG
43128642 AAATTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (26 bp):
TTTTATATTTCTGAACATATATTTGC
Found at i:43128686 original size:135 final size:135
Alignment explanation
Indices: 43128532--43128783 Score: 495
Period size: 135 Copynumber: 1.9 Consensus size: 135
43128522 ATAGAAAACA
43128532 TCAAATTTAAATTCAATCCAAACATGACCCGAACAATAAAAAACACATTTTTTATTTTATTTTTA
1 TCAAATTTAAATTCAATCCAAACATGACCCGAACAATAAAAAACACATTTTTTATTTTATTTTTA
43128597 TTTTTGTAACATATATTTGCTTTTATATTTCTGAATATATATTTGAAATTTTTGAATAATTATAA
66 TTTTTGTAACATATATTTGCTTTTATATTTCTGAATATATATTTGAAATTTTTGAATAATTATAA
43128662 TTTAT
131 TTTAT
*
43128667 TCAAATTTAAATTTAATCCAAACATGACCCGAACAATAAAAAACACATTTTTTATTTTATTTTTA
1 TCAAATTTAAATTCAATCCAAACATGACCCGAACAATAAAAAACACATTTTTTATTTTATTTTTA
43128732 TTTTTGTAACATATATTTGCTTTTATATTTCTGAATATATATTTGAAATTTT
66 TTTTTGTAACATATATTTGCTTTTATATTTCTGAATATATATTTGAAATTTT
43128784 ATATATTTTT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 116 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (135 bp):
TCAAATTTAAATTCAATCCAAACATGACCCGAACAATAAAAAACACATTTTTTATTTTATTTTTA
TTTTTGTAACATATATTTGCTTTTATATTTCTGAATATATATTTGAAATTTTTGAATAATTATAA
TTTAT
Found at i:43128755 original size:26 final size:26
Alignment explanation
Indices: 43128726--43128776 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43128716 TTTTATTTTA
*
43128726 TTTT-TATTTTTGTAACATATATTTGC
1 TTTTATATTTCTG-AACATATATTTGC
*
43128752 TTTTATATTTCTGAATATATATTTG
1 TTTTATATTTCTGAACATATATTTG
43128777 AAATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (26 bp):
TTTTATATTTCTGAACATATATTTGC
Found at i:43128820 original size:24 final size:23
Alignment explanation
Indices: 43128767--43128822 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
43128757 TATTTCTGAA
*
43128767 TATATATTTGAAATTTTATATATT
1 TATA-ATTTGAAATTTTATATAAT
*
43128791 TTTAATTTGAAATTTT-TGAATAAT
1 TATAATTTGAAATTTTAT--ATAAT
43128815 TATAATTT
1 TATAATTT
43128823 ATTTTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 12 0.44
24 14 0.52
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TATAATTTGAAATTTTATATAAT
Found at i:43129636 original size:31 final size:31
Alignment explanation
Indices: 43129601--43129665 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
43129591 CATAGTTGTG
*
43129601 ATTTCTATTTATTTTCAGATTTGTGAATGAT
1 ATTTCTACTTATTTTCAGATTTGTGAATGAT
*
43129632 ATTTCTACTTATTTTGAGATTTGTGAATGAT
1 ATTTCTACTTATTTTCAGATTTGTGAATGAT
43129663 ATT
1 ATT
43129666 CTAACCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (31 bp):
ATTTCTACTTATTTTCAGATTTGTGAATGAT
Found at i:43134776 original size:15 final size:13
Alignment explanation
Indices: 43134743--43134771 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43134733 TACATCAAGG
43134743 TTTCAACAGAACC
1 TTTCAACAGAACC
43134756 TTTCAACAGAACC
1 TTTCAACAGAACC
43134769 TTT
1 TTT
43134772 TTCAATGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (13 bp):
TTTCAACAGAACC
Found at i:43139961 original size:21 final size:20
Alignment explanation
Indices: 43139935--43139991 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
43139925 ATATCCCGTC
* *
43139935 CCGGTTCAGTATTTTTTGTGG
1 CCGGTTCAG-ATTTTTGGTGA
*
43139956 CCGGTTCAGCAGTTTTGGTGA
1 CCGGTTCAG-ATTTTTGGTGA
43139977 CCGGTTCAGATTTTT
1 CCGGTTCAGATTTTT
43139992 AACGTGTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.12, C:0.18, G:0.28, T:0.42
Consensus pattern (20 bp):
CCGGTTCAGATTTTTGGTGA
Found at i:43140069 original size:15 final size:15
Alignment explanation
Indices: 43140049--43140098 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
43140039 ATCCCAAGAA
43140049 TGGGATATCCCGGCT
1 TGGGATATCCCGGCT
***
43140064 TGGGATATCCCAATT
1 TGGGATATCCCGGCT
43140079 TAGGGATATCCCGGCT
1 T-GGGATATCCCGGCT
43140095 TGGG
1 TGGG
43140099 GTCTAGGGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (15 bp):
TGGGATATCCCGGCT
Found at i:43140072 original size:31 final size:31
Alignment explanation
Indices: 43140034--43140098 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
43140024 ATTCCAGCGA
43140034 GGGATATCCCAAGAAT-GGGATATCCCGGCTT
1 GGGATATCCCAA-AATAGGGATATCCCGGCTT
**
43140065 GGGATATCCCAATTTAGGGATATCCCGGCTT
1 GGGATATCCCAAAATAGGGATATCCCGGCTT
43140096 GGG
1 GGG
43140099 GTCTAGGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.25
Consensus pattern (31 bp):
GGGATATCCCAAAATAGGGATATCCCGGCTT
Found at i:43142705 original size:16 final size:16
Alignment explanation
Indices: 43142684--43142716 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43142674 TCGAAGCAAA
43142684 GCAAAAGGGAAAGTAG
1 GCAAAAGGGAAAGTAG
43142700 GCAAAAGGGAAAGTAG
1 GCAAAAGGGAAAGTAG
43142716 G
1 G
43142717 AGGGTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.39, T:0.06
Consensus pattern (16 bp):
GCAAAAGGGAAAGTAG
Found at i:43149130 original size:15 final size:15
Alignment explanation
Indices: 43149110--43149138 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43149100 TATGTTCTTG
43149110 ATCATTAAAATTTTA
1 ATCATTAAAATTTTA
43149125 ATCATTAAAATTTT
1 ATCATTAAAATTTT
43149139 CTCACCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATTAAAATTTTA
Found at i:43149569 original size:43 final size:42
Alignment explanation
Indices: 43149489--43149569 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
43149479 TTTACCTATT
*
43149489 TATTATAAAGCTGATTTTGTTTGCCTTTCTACATTTATAATA
1 TATTATAAAGCTGATTTTGTTTGCCCTTCTACATTTATAATA
*
43149531 TATT-TAAAGCTGATTTTGTCTTTGCCCTTCTGCATTTAT
1 TATTATAAAGCTGATTTTG--TTTGCCCTTCTACATTTAT
43149570 TTTCAGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 14 0.40
42 4 0.11
43 17 0.49
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (42 bp):
TATTATAAAGCTGATTTTGTTTGCCCTTCTACATTTATAATA
Found at i:43150775 original size:22 final size:24
Alignment explanation
Indices: 43150747--43150790 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
43150737 AAAATGCAAC
*
43150747 AAATG-AAACTTA-TTTATATAAT
1 AAATGAAAACATATTTTATATAAT
43150769 AAATGAAAACATATTTTATATA
1 AAATGAAAACATATTTTATATA
43150791 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
AAATGAAAACATATTTTATATAAT
Found at i:43154628 original size:275 final size:275
Alignment explanation
Indices: 43154137--43154688 Score: 1068
Period size: 275 Copynumber: 2.0 Consensus size: 275
43154127 GCATGTTTTT
43154137 TTGGGTAGCAAGAATGGTCATGATGAGAATGGAATTCATGGCAATTGTTCCATTTTCATATGTAT
1 TTGGGTAGCAAGAATGGTCATGATGAGAATGGAATTCATGGCAATTGTTCCATTTTCATATGTAT
*
43154202 ATCATCGTGGTCTAATTCGTAATTCACAGGTAGAGTTTCTAAATTATGCTACTACATAGGTGCTT
66 ATCATCGTGGTCTAATTCGTAATTCACAAGTAGAGTTTCTAAATTATGCTACTACATAGGTGCTT
43154267 ATCTTAAAGTACAATTTTTTCTCAAGTTGTGCTCCTATTGCTCCAAGACTCGAGAAATATCTACC
131 ATCTTAAAGTACAATTTTTTCTCAAGTTGTGCTCCTATTGCTCCAAGACTCGAGAAATATCTACC
43154332 TAATATTTTTATAATTTTTGTTGAGCAGAAAACTTTTCCTCTCTGTTTTTAGTTGAGATATATTT
196 TAATATTTTTATAATTTTTGTTGAGCAGAAAACTTTTCCTCTCTGTTTTTAGTTGAGATATATTT
*
43154397 CTTTTTGCTAATATG
261 CTTTTAGCTAATATG
43154412 TTGGGTAGCAAGAATGGTCATGATGAGAATGGAATTCATGGCAATTGTTCCATTTTCATATGTAT
1 TTGGGTAGCAAGAATGGTCATGATGAGAATGGAATTCATGGCAATTGTTCCATTTTCATATGTAT
*
43154477 ATCATCGTGGTCTAATTCGTATTTCACAAGTAGAGTTTCTAAATTATGCTACTACATAGGTGCTT
66 ATCATCGTGGTCTAATTCGTAATTCACAAGTAGAGTTTCTAAATTATGCTACTACATAGGTGCTT
*
43154542 ATCTTAAAGTACAATTTTTTCTCAAGTTGTGCTCTTATTGCTCCAAGACTCGAGAAATATCTACC
131 ATCTTAAAGTACAATTTTTTCTCAAGTTGTGCTCCTATTGCTCCAAGACTCGAGAAATATCTACC
43154607 TAATATTTTTATAATTTTTGTTGAGCAGAAAACTTTTCCTCTCTGTTTTTAGTTGAGATATATTT
196 TAATATTTTTATAATTTTTGTTGAGCAGAAAACTTTTCCTCTCTGTTTTTAGTTGAGATATATTT
43154672 CTTTTAGCTAATATG
261 CTTTTAGCTAATATG
43154687 TT
1 TT
43154689 CGGTGGGTTT
Statistics
Matches: 273, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 273 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (275 bp):
TTGGGTAGCAAGAATGGTCATGATGAGAATGGAATTCATGGCAATTGTTCCATTTTCATATGTAT
ATCATCGTGGTCTAATTCGTAATTCACAAGTAGAGTTTCTAAATTATGCTACTACATAGGTGCTT
ATCTTAAAGTACAATTTTTTCTCAAGTTGTGCTCCTATTGCTCCAAGACTCGAGAAATATCTACC
TAATATTTTTATAATTTTTGTTGAGCAGAAAACTTTTCCTCTCTGTTTTTAGTTGAGATATATTT
CTTTTAGCTAATATG
Found at i:43155474 original size:154 final size:154
Alignment explanation
Indices: 43155174--43155473 Score: 575
Period size: 154 Copynumber: 2.0 Consensus size: 154
43155164 CTAGAAATTT
43155174 TGCTAAAGACAAAAATTCAAATTTATATTGCTTGATTACGTTGCTTGCTTTCACTATGTATAAAT
1 TGCTAAAGACAAAAATTCAAATTTATATTGCTTGATTACGTTGCTTGCTTTCACTATGTATAAAT
43155239 TGTTATTGTTTAGTTCTAAACTTACATGATTGTCATGGTCCAACTTTGGCACAAAGGTGAAGAGC
66 TGTTATTGTTTAGTTCTAAACTTACATGATTGTCATGGTCCAACTTTGGCACAAAGGTGAAGAGC
43155304 TTTGCTTTTTTTTTTTTATTTATG
131 TTTGCTTTTTTTTTTTTATTTATG
*
43155328 TGCTAAAGACAAAAATTCAAATTTATATTGCTTGATTATGTTGCTTGCTTTCACTATGTATAAAT
1 TGCTAAAGACAAAAATTCAAATTTATATTGCTTGATTACGTTGCTTGCTTTCACTATGTATAAAT
*
43155393 TGTTATTGTTTAGTTCTACACTTACATGATTGTCATGGTCCAACTTTGGCACAAAGGTGAAGAGC
66 TGTTATTGTTTAGTTCTAAACTTACATGATTGTCATGGTCCAACTTTGGCACAAAGGTGAAGAGC
43155458 TTT-CTTTTTTTTTTTT
131 TTTGCTTTTTTTTTTTT
43155474 TTTTTTTTTT
Statistics
Matches: 144, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
153 13 0.09
154 131 0.91
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (154 bp):
TGCTAAAGACAAAAATTCAAATTTATATTGCTTGATTACGTTGCTTGCTTTCACTATGTATAAAT
TGTTATTGTTTAGTTCTAAACTTACATGATTGTCATGGTCCAACTTTGGCACAAAGGTGAAGAGC
TTTGCTTTTTTTTTTTTATTTATG
Found at i:43157577 original size:15 final size:16
Alignment explanation
Indices: 43157559--43157588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43157549 ATTAGTAATT
43157559 AAATTT-ATTAAATAA
1 AAATTTAATTAAATAA
43157574 AAATTTAATTAAATA
1 AAATTTAATTAAATA
43157589 GAACATAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTAATTAAATAA
Found at i:43159091 original size:101 final size:102
Alignment explanation
Indices: 43158970--43159154 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
43158960 AAAGTGATGG
*
43158970 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGG--A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGGATAGTGAT-GGTCACATGTGTAG
* *
43159032 TACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCAA
64 TACAATGTGAAGGCTACTATGCGTACCGAATAGCTTCAA
**
43159071 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGTGATGGTCACATGTGTAGTA
43159136 CAATGTGAAGGCTACTATG
66 CAATGTGAAGGCTACTATG
43159155 TGAACCGATA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.49
102 33 0.43
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGTGATGGTCACATGTGTAGTA
CAATGTGAAGGCTACTATGCGTACCGAATAGCTTCAA
Found at i:43159100 original size:51 final size:50
Alignment explanation
Indices: 43158970--43159152 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 50
43158960 AAAGTGATGG
* * *
43158970 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGGATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * *
43159020 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCA-A
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-AT-AGA
* *** *
43159071 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGA-A-TGATAGA
* * *
43159122 TCACATGTGTAGTACAATGTGAAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
43159153 TGTGAACCGA
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.03
50 36 0.33
51 62 0.57
52 4 0.04
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:43159231 original size:46 final size:43
Alignment explanation
Indices: 43159158--43159250 Score: 107
Period size: 46 Copynumber: 2.1 Consensus size: 43
43159148 TACTATGTGA
*
43159158 ACCGATATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
43159201 ACCGAATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 ACCG-ATATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
43159247 ACCG
1 ACCG
43159251 TGTATCTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.10
44 12 0.29
45 2 0.05
46 22 0.52
47 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:43159401 original size:16 final size:16
Alignment explanation
Indices: 43159380--43159411 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43159370 TGATTGAAAG
*
43159380 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
43159396 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
43159412 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:43162794 original size:18 final size:18
Alignment explanation
Indices: 43162771--43162805 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43162761 TTTGGAGTCT
43162771 TTTTTGCTATTTT-TTTTA
1 TTTTTGCT-TTTTATTTTA
43162789 TTTTTGCTTTTTATTTT
1 TTTTTGCTTTTTATTTT
43162806 TGCTTCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTTGCTTTTTATTTTA
Found at i:43162799 original size:13 final size:13
Alignment explanation
Indices: 43162783--43162810 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43162773 TTTGCTATTT
43162783 TTTTTATTTTTGC
1 TTTTTATTTTTGC
43162796 TTTTTATTTTTGC
1 TTTTTATTTTTGC
43162809 TT
1 TT
43162811 CTTGGCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTGC
Found at i:43163044 original size:29 final size:30
Alignment explanation
Indices: 43162999--43163140 Score: 146
Period size: 29 Copynumber: 4.8 Consensus size: 30
43162989 GTGAGAAACT
* *
43162999 TTTG-GGGTTAAAGTATAATTTTAGGAAAA
1 TTTGAGGGTCAAAATATAATTTTAGGAAAA
* * *
43163028 TTTG-GGGTCGATATATAATTTTAGG-AAG
1 TTTGAGGGTCAAAATATAATTTTAGGAAAA
* * * *
43163056 TTAGAGGGTCAAAATGTAATTTTAAGAAAG
1 TTTGAGGGTCAAAATATAATTTTAGGAAAA
43163086 TTTGGAGGGTCAAAATATAATTTTAGGAAAA
1 TTT-GAGGGTCAAAATATAATTTTAGGAAAA
* * *
43163117 ATAGAGGGTCAAAATGTAATTTTA
1 TTTGAGGGTCAAAATATAATTTTA
43163141 AATTTTGTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
28 5 0.05
29 38 0.41
30 25 0.27
31 25 0.27
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGAGGGTCAAAATATAATTTTAGGAAAA
Found at i:43163097 original size:31 final size:30
Alignment explanation
Indices: 43163043--43163141 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
43163033 GGTCGATATA
*
43163043 TAATTTT-AGGAAGTTAGAGGGTCAAAATG
1 TAATTTTAAGAAAGTTAGAGGGTCAAAATG
* *
43163072 TAATTTTAAGAAAGTTTGGAGGGTCAAAATA
1 TAATTTTAAGAAAG-TTAGAGGGTCAAAATG
* **
43163103 TAATTTTAGGAAAAATAGAGGGTCAAAATG
1 TAATTTTAAGAAAGTTAGAGGGTCAAAATG
43163133 TAATTTTAA
1 TAATTTTAA
43163142 ATTTTGTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 7 0.12
30 26 0.44
31 26 0.44
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
TAATTTTAAGAAAGTTAGAGGGTCAAAATG
Found at i:43163173 original size:11 final size:11
Alignment explanation
Indices: 43163153--43163188 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
43163143 TTTTGTATTT
43163153 TTTTATTTTTA
1 TTTTATTTTTA
43163164 TTTTTATTTTTA
1 -TTTTATTTTTA
*
43163176 TTTTATTATTA
1 TTTTATTTTTA
43163187 TT
1 TT
43163189 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:43163184 original size:20 final size:20
Alignment explanation
Indices: 43163142--43163191 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
43163132 GTAATTTTAA
*
43163142 ATTTTGTATTTTTTTATTTTT
1 ATTTT-TATTTTTTTATTATT
43163163 ATTTTTATTTTTATT-TTATT
1 ATTTTTATTTTT-TTATTATT
*
43163183 ATTATTATT
1 ATTTTTATT
43163192 AAAAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (20 bp):
ATTTTTATTTTTTTATTATT
Found at i:43163192 original size:6 final size:6
Alignment explanation
Indices: 43163152--43163188 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
43163142 ATTTTGTATT
*
43163152 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTA TTATTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
43163189 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:43163568 original size:75 final size:75
Alignment explanation
Indices: 43163443--43163977 Score: 689
Period size: 75 Copynumber: 7.1 Consensus size: 75
43163433 GTCCAATCTT
* * ** * * * * *
43163443 TTTTTGAAAAACAAAAATCAAAAATAGCTCGGCGTGTGACCTGAAGCTCAACTCACCTCTCGAAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
43163508 TATGAGTTGA
66 TATGAGTTGA
* * * * * * *
43163518 TCTTTGAAAAACATAGATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACTTCTCGGAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
43163583 TATGAGTTGA
66 TATGAGTTGA
* * * * *
43163593 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTTAACCCATCTTTCGGAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
43163658 TATGAGTTGA
66 TATGAGTTGA
* * * * *
43163668 TTTTTGAAAAATAGAAATTGAAAACACCTCAGCGTGCGACCCGAGGCTTAACCCATCTCTCGGAT
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
43163733 TATGAGTTGA
66 TATGAGTTGA
* * * *
43163743 TTTTTGAAAAATAGAAATTGAAAATATCTCAGTGTGCGACCCGAGGCTCAACTCACCTATTGGAA
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCT-CTCGAA
43163808 -TATGAGTTGA
65 TTATGAGTTGA
* ** * *
43163818 TTTTTGAAAAATAGAAATTAAAAATACCTCAGCGTGCG-CTTGAGGCTCAACTCACCTATCGAAA
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
43163882 TATGAGTTGA
66 TATGAGTTGA
* **
43163892 TTTTTGAAAAATAGAAATTGAAAGTACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGGAA
1 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC-GAA
43163957 -TATGAGTTGA
65 TTATGAGTTGA
43163967 TTTTTGAAAAA
1 TTTTTGAAAAA
43163978 CAAAATAGGA
Statistics
Matches: 410, Mismatches: 46, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
73 4 0.01
74 61 0.15
75 339 0.83
76 6 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (75 bp):
TTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGAAT
TATGAGTTGA
Found at i:43164306 original size:20 final size:21
Alignment explanation
Indices: 43164255--43164306 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 21
43164245 GCATTCATTG
*
43164255 TCTC-AGTCCTTG-ACTTTTC
1 TCTCAAGTTCTTGTACTTTTC
*
43164274 TCTCAGGTT-TTGTACTTTTC
1 TCTCAAGTTCTTGTACTTTTC
43164294 -CTCAAGTTCTTGT
1 TCTCAAGTTCTTGT
43164307 GATTAACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.12, C:0.25, G:0.13, T:0.50
Consensus pattern (21 bp):
TCTCAAGTTCTTGTACTTTTC
Found at i:43167548 original size:28 final size:28
Alignment explanation
Indices: 43167508--43167563 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
43167498 CCAGCCACCA
43167508 ATTGGGCTGCCCA-AAACACTCCATATGC
1 ATTGGGCTGCCCAGAAACA-TCCATATGC
*
43167536 ATTGGGCTGCCCAGAATCATCCATATGC
1 ATTGGGCTGCCCAGAAACATCCATATGC
43167564 TGACCCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (28 bp):
ATTGGGCTGCCCAGAAACATCCATATGC
Found at i:43175420 original size:27 final size:28
Alignment explanation
Indices: 43175387--43175440 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
43175377 TGCTGCTAGA
*
43175387 TGGGTTGCTGCTGTTGGGCC-GGAGTGC
1 TGGGTTGCTGCTGTTAGGCCGGGAGTGC
43175414 TGGGTTGCTGCTGTTAGGCCGGGAGTG
1 TGGGTTGCTGCTGTTAGGCCGGGAGTG
43175441 GACCGGCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.06, C:0.17, G:0.48, T:0.30
Consensus pattern (28 bp):
TGGGTTGCTGCTGTTAGGCCGGGAGTGC
Found at i:43175575 original size:15 final size:15
Alignment explanation
Indices: 43175532--43175578 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
43175522 CCGACTGTTC
*
43175532 TATTTTCTATTTTTTT
1 TATTTT-TATTTCTTT
*
43175548 TATTTTTTCTTTCTTT
1 TA-TTTTTATTTCTTT
43175564 TATTTTTATTTCTTT
1 TATTTTTATTTCTTT
43175579 CTTTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.44
16 11 0.41
17 4 0.15
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTTATTTCTTT
Found at i:43175575 original size:19 final size:18
Alignment explanation
Indices: 43175553--43175588 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
43175543 TTTTTTATTT
43175553 TTTCTTTCTTTTATTTTTA
1 TTTCTTTC-TTTATTTTTA
43175572 TTTCTTTCTTTATTTTT
1 TTTCTTTCTTTATTTTT
43175589 CTTCTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTTCTTTATTTTTA
Found at i:43175598 original size:19 final size:17
Alignment explanation
Indices: 43175541--43175597 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
43175531 CTATTTTCTA
43175541 TTTTTTTTA-TTTTTTC
1 TTTTTTTTATTTTTTTC
*
43175557 TTTCTTTTATTTTTATT-
1 TTTTTTTTATTTTT-TTC
*
43175574 TCTTTCTTTATTTTTCTTC
1 T-TTTTTTTATTTTT-TTC
43175593 TTTTT
1 TTTTT
43175598 CCTTTCTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 18 0.56
19 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTC
Found at i:43175610 original size:15 final size:15
Alignment explanation
Indices: 43175550--43175616 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
43175540 ATTTTTTTTA
43175550 TTTTTTCTTTCTTT-
1 TTTTTTCTTTCTTTC
*
43175564 TATTTTTATTTCTTTC
1 T-TTTTTCTTTCTTTC
*
43175580 TTTATT-TTTC-TTC
1 TTTTTTCTTTCTTTC
*
43175593 TTTTTCCTTTCTTTC
1 TTTTTTCTTTCTTTC
43175608 TTTTTTCTT
1 TTTTTTCTT
43175617 CTTCTCAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.16
14 9 0.20
15 27 0.61
16 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTCTTTCTTTC
Found at i:43179189 original size:538 final size:535
Alignment explanation
Indices: 43177773--43179257 Score: 1649
Period size: 549 Copynumber: 2.8 Consensus size: 535
43177763 ATTATTATTT
* * * * *
43177773 TATATGGTCGGTTAATGAAGCAAGTATGTATGTTATATCATAAAGCATTAGTAATTAGAATTATA
1 TATATGGTCAGTTAATGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
* * *
43177838 AAA-TAAAATTTTAATTAAATAGAACATAAGTGATATTGGAAATAGATGGCAAAAATAAAAACAT
66 AAATTAAAA-TTTAATTAAATAGAACATAAGTGATAATGGGAATAG--GG-AAAAACAAAAACAT
* * ** *
43177902 TTCCATATTTTCTTCGGGCAAACTGAACTTAGGGAGAAAGAAGAGAGGAACGCTCGGCTTTAAGG
127 TTCCACATTTTCTTCGTGCAAAC-GAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAAGG
* * **
43177967 GTGTAACGCCCCAAAAATTTTTGTTTTTGGAAATGTTAAAACATGTCAAAGGTGTAATAATCGAC
191 GTGTAACG-CCCAAAAATTTTTGATTTTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGAC
*
43178032 TTTGAAATTTTTTTTTATATGAGAAACTGCCACATGATTCGACGGTTTCACCCATTGTGTCGTCT
255 TTTGAAAATTTTTTTTATATGAGAAACTG-C-C---A-T----GGTTTCACCCATTGTGTCGTCT
** *
43178097 TATTATAAA-A--A-TATTATTATTTTTATTGTGAAATTATTCTGAAGACAATTTTAACAAAAAA
310 TATTATAAATATTATTATTATTATTTTTATCATGAAATTATTCAGAAGACAATTTT-ACAAAAAA
* * * *
43178158 AAATTGATACGACAGTTTCACCCATTGTGCCATCTTGTTATAGAATATTATTATTTTTACCATGA
374 AAACTGATACGACAGCTTCACCCATTGTGCCAACTTGTTATAGAATATTATTATTCTTACCATGA
* * *
43178223 ATTTGTTGTAAATCCATTGTGTCATCTTATAATTTGCTTAAGGATTTATAATTAGAACTTAATTT
439 AATTGTTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTACAATTAGAACTTAATTT
*
43178288 AAAAGGGTTAAATAATAATTTTACCTAGAATA
504 AAAAGGGTTAAATAATAATTATACCTAGAATA
* * * *
43178320 TATATCTGATCAGTTAATGAAGTTATTATGCATGTTATATTATAAAACATTAGTAATTAAAATTA
1 TATA--TGGTCAGTTAATGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTA
* *
43178385 TAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATCGGAATAGGTGGCAAAAACAAAAACA
64 TAAAATTAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATA-G-GG-AAAAACAAAAACA
* * * * *
43178450 TTTCCATCTTTTTCTTCATGCAAACCG-ACCAAGGGAGAAAGAAGAGAGGAATGTTCGACTTTTA
126 TTTCCA-CATTTTCTTCGTGCAAA-CGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAA
* * * * * *
43178514 GGGTATAACGCCCCAAAATTTTTTATTTTTGAAATTGTTAAAACATGACAAGGGTGTAACGTTCG
189 GGGTGTAACGCCCAAAAATTTTTGATTTTGGAAA-TGTTAAAACATGTCAAGGGTGTAATGTTCG
* ** *
43178579 ACTTTGAAAATGTTTTTTCCATGAGAAACTGCCAGCTGATACAATGGTTTCACCTATTGTGTCGT
253 ACTTTGAAAATTTTTTTTATATGAGAAACT----GC-----C-ATGGTTTCACCCATTGTGTCGT
* ** *
43178644 CTTATTAT-AA-A--A--A-TATTATTTTTATCATGAAATTGTTGCAG-AGGTAATTTT-CACAA
308 CTTATTATAAATATTATTATTATTATTTTTATCATGAAATTATT-CAGAAGACAATTTTACAAAA
** * * *
43178700 AAAAACTGATACGATGGCTTCACTCATTGTGTCAACTTGTTATA-AA-A-TATTATTCTTATCAT
372 AAAAACTGATACGACAGCTTCACCCATTGTGCCAACTTGTTATAGAATATTATTATTCTTACCAT
* *
43178762 GAAATTGTTGTAAACCCATTGTGTCATCTTGTAATTT-TTTAAGGATTTACAATTAGAACTTAAT
437 GAAATTGTTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTACAATTAGAACTTAAT
* * *
43178826 TTATAGGGGTTAAATAGTAATTATACCTAGAATA
502 TTAAAAGGGTTAAATAATAATTATACCTAGAATA
* * *
43178860 TATATGGTCCGTTATTGAAGTAAGCATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
1 TATATGGTCAGTTAATGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
*
43178925 AAATTAAAATTTATTTAAATAGAACATAAGTGATAATGGGAATA-GG-AAAACAAAAACATTTCC
66 AAATTAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGGGAAAAACAAAAACATTTCC
* * * * *
43178988 ACCTTTTCTTCGTGCAAATCGAACCAAGGGGGAAAAAACAGAGGAACGTTTGGCTTTAAGGGTGT
131 ACATTTTCTTCGTGCAAA-CGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAAGGGTGT
* *
43179053 AACGCCTCAAAAATTTTTGCTTTTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTG
195 AACGCC-CAAAAATTTTTGATTTTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGACTTTG
*
43179118 AAAATATTTTTTTATATGACAAACTGCCATGGTTTCACCCATTGTGTCGTCTTATTATAAA-A--
259 AAAAT-TTTTTTTATATGAGAAACTGCCATGGTTTCACCCATTGTGTCGTCTTATTATAAATATT
* * * * * * *
43179180 A-TATTATTATTTTTATGATGAAATTGTTGC-GGAGGCAATTTTA-ACAAAAAAATTGATACAAC
323 ATTATTATTATTTTTATCATGAAATTATT-CAGAAGACAATTTTACAAAAAAAAACTGATACGAC
*
43179242 -GATTTCACCCATTGTG
387 AG-CTTCACCCATTGTG
43179258 TCATCTTATA
Statistics
Matches: 808, Mismatches: 105, Indels: 70
0.82 0.11 0.07
Matches are distributed among these distances:
524 29 0.04
525 5 0.01
526 3 0.00
527 62 0.08
530 2 0.00
532 17 0.02
533 97 0.12
534 33 0.04
535 2 0.00
538 95 0.12
540 59 0.07
541 47 0.06
542 1 0.00
543 2 0.00
544 41 0.05
546 29 0.04
547 7 0.01
548 24 0.03
549 227 0.28
550 19 0.02
551 1 0.00
552 1 0.00
553 2 0.00
554 1 0.00
556 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (535 bp):
TATATGGTCAGTTAATGAAGTAAGTATGTATGTTATATTATAAAACATTAGTAATTAAAATTATA
AAATTAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGGGAAAAACAAAAACATTTCC
ACATTTTCTTCGTGCAAACGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGGCTTTAAGGGTGTA
ACGCCCAAAAATTTTTGATTTTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGACTTTGAA
AATTTTTTTTATATGAGAAACTGCCATGGTTTCACCCATTGTGTCGTCTTATTATAAATATTATT
ATTATTATTTTTATCATGAAATTATTCAGAAGACAATTTTACAAAAAAAAACTGATACGACAGCT
TCACCCATTGTGCCAACTTGTTATAGAATATTATTATTCTTACCATGAAATTGTTGTAAACCCAT
TGTGTCATCTTATAATTTGCTTAAGGATTTACAATTAGAACTTAATTTAAAAGGGTTAAATAATA
ATTATACCTAGAATA
Found at i:43179960 original size:501 final size:478
Alignment explanation
Indices: 43178779--43180239 Score: 1732
Period size: 501 Copynumber: 3.0 Consensus size: 478
43178769 TTGTAAACCC
* * * *
43178779 ATTGTGTCATCTTGTAATTT-TTTAAGGATTTACAATTAGAACTTAATTTATAGGGGTTAAATAG
1 ATTGTGTCATCTTGTAATTTGCTTAAGGATTTATAATTAAAACTTAATTTA-A-AGGTTAAATAG
* * *
43178843 TAATTATACCTAGAATATATATGGTCCGTTATTGAAGTAAGCATGTATGTTATATTATAAAACAT
64 TAATTATACCTAAAATATATATGGTCGGTTATTGAAGTAAGTATGTATGTTATATTATAAAACAT
* * *
43178908 TAGTAATTAAAATTATAAAATTAAAATTTATTTAAATAGAACATAAGTGATAATGGGAATA---G
129 TAGTAATTAAAATTATAAAATGAAATTTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTG
* * * * * *
43178970 G--AAAACAAAAACATTTCCACCTTTTCTTCGTGCAAATCGAACCAAGGGGGAAAAAACAGAGGA
194 GAAAAAAAAAAAACATTTTCATCTTTTCTTCGTGCAAACCGAACCAA-GGAGAAAAAAGAGAGGA
* *
43179033 ACG-TTT-GGCTTTAAGGGTGTAACGCCTCAAAAATTTTTGCTTTTGGAAATGTTAAAACATGTC
258 ACGCTTTCGGCTTTAAGGGTGTAACGCCACAAAAATTTTTGTTTTTGGAAATGTTAAAACATGTC
* * ** *
43179096 AAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTTATATGACAAACTGCCATGGTTTCACCCATT
323 AAGGGTGTAAAGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCATGGTAACACCCATC
* * * * *
43179161 GTGTCGTCTTATTATAAAAATATTATTATTTTTATGATGAAATTGTTGCGGAGGCAATTTTAACA
388 GTGTCGTCTTATTATAAAAATATTATTATCTCTATCAAGAAATTGTTGCGGAGGCAATTTTAAAA
* *
43179226 AAAAAATTGATACAACGATTTCACCC
453 AAAAAACTGATACAACGATTTCACCA
* * *
43179252 ATTGTGTCATCTTATAATTTGCTTAAGGGTTTATAATTAAAACTTAATTTGAAGAGATTAAATAG
1 ATTGTGTCATCTTGTAATTTGCTTAAGGATTTATAATTAAAACTTAATTT-AA-AGGTTAAATAG
* * * *
43179317 TAATTATACCTAGAATATATATATGGCCGGTTATTGAAGTACGTATGCATGTTATATTATAAAGC
64 TAATTATACCTA-AA-ATATATATGGTCGGTTATTGAAGTAAGTATGTATGTTATATTATAAAAC
*
43179382 ATTAGTAATTAAAATTATAAAATGAAATTTTAATTAAATAATAGAACATAAGTGATAACGGGAAT
127 ATTAGTAATTAAAATTATAAAATGAAATTTTAATT--A-AATAGAACATAAGTGATAATGGGAAT
*
43179447 AGGTGGAAAAAAATAAAAACATTTTCATCTTTTCTTCGTGCAAACCGAACCAAGGTAGAAAGAAG
189 AGGTGGAAAAAAA-AAAAACATTTTCATCTTTTCTTCGTGCAAACCGAACCAAGG-AGAAAAAAG
* * * *
43179512 AGAGGAACGTTTGGCTTTTTCGGCTTTAAGGGTGTAACACTC-CAAAAATTTTCGTTTTTGGCAT
252 AGAGGAAC-----GC--TTTCGGCTTTAAGGGTGTAACGC-CACAAAAATTTTTGTTTTTGGAAA
*
43179576 TGCTAAAACATGTCAAGGGTGTAAAGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTACCG
309 TGTTAAAACATGTCAAGGGTGTAAAGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACT---G
*
43179641 CCTAATACGACGGTAACACCCATCGTGTTGTCTTATTAT-AAAA-A-TATTA-CTCTATCAAGAA
371 CC--AT-----GGTAACACCCATCGTGTCGTCTTATTATAAAAATATTATTATCTCTATCAAGAA
* *
43179702 ATTGTTGCGGAGGCAATTTTAATAAAAAAAACTGATACGACGGTTTCACCA
429 ATTGTTGCGGAGGCAATTTTAA-AAAAAAAACTGATACAACGATTTCACCA
43179753 ATTGTGTCATCTTGTAATTTGCTTAAGGATTTATAATTAAAACTTAATTTAACAGCGTTAAATAG
1 ATTGTGTCATCTTGTAATTTGCTTAAGGATTTATAATTAAAACTTAATTTAA-AG-GTTAAATAG
* *
43179818 TAATTATACCTAAAATATATATGGTCGGTTATTGAAGTAAGTATGTATGCTATATTATAAAAAAT
64 TAATTATACCTAAAATATATATGGTCGGTTATTGAAGTAAGTATGTATGTTATATTATAAAACAT
*
43179883 TAGCAATTAAAATTATAAAATGAAATTTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTG
129 TAGTAATTAAAATTATAAAATGAAATTTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTG
* *
43179948 GCAAAAAAAAAAAACATTTTCATCTTTTCTTCGTGCAAACCAAACCAATCGAGAGAAATAAGAGA
194 G-AAAAAAAAAAAACATTTTCATCTTTTCTTCGTGCAAACCGAACCAA--G-GAGAAAAAAGAGA
* * * *
43180013 GTAA--CATTCGGCTTTAAGGGTGTAACGCCAGAAAAATTTTTGTTTTTTGAAATGTTAAAACAT
255 GGAACGCTTTCGGCTTTAAGGGTGTAACGCCACAAAAATTTTTGTTTTTGGAAATGTTAAAACAT
* ** * *
43180076 GTCAAAGGTGTAGCGTTTGGCTTTAAAAATATTTTTTTATATGAGAAA----C-T-G---C-CCC
320 GTCAAGGGTGTAAAGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCATGGTAACACCC
* * * * *
43180131 ATTGTGTCGTTTTATTATAAAAATATTATTATTTTTAACATA-AAATTGTTGCGGAGGCAATTTT
385 ATCGTGTCGTCTTATTATAAAAATATTATTATCTCTATCA-AGAAATTGTTGCGGAGGCAATTTT
* * * * * *
43180195 AACAAAAAAATTGATACGATGGTTTCACCC
449 AAAAAAAAAACTGATACAACGATTTCACCA
* *
43180225 ATTATGTTATCTTGT
1 ATTGTGTCATCTTGT
43180240 TATAAAATAT
Statistics
Matches: 856, Mismatches: 86, Indels: 93
0.83 0.08 0.09
Matches are distributed among these distances:
469 18 0.02
470 5 0.01
471 1 0.00
472 42 0.05
473 49 0.06
474 49 0.06
475 2 0.00
476 75 0.09
478 1 0.00
479 27 0.03
482 3 0.00
484 6 0.01
485 50 0.06
488 1 0.00
489 91 0.11
490 1 0.00
491 1 0.00
493 3 0.00
494 94 0.11
495 1 0.00
496 69 0.08
497 11 0.01
498 15 0.02
499 80 0.09
500 36 0.04
501 96 0.11
502 1 0.00
503 4 0.00
504 24 0.03
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (478 bp):
ATTGTGTCATCTTGTAATTTGCTTAAGGATTTATAATTAAAACTTAATTTAAAGGTTAAATAGTA
ATTATACCTAAAATATATATGGTCGGTTATTGAAGTAAGTATGTATGTTATATTATAAAACATTA
GTAATTAAAATTATAAAATGAAATTTTAATTAAATAGAACATAAGTGATAATGGGAATAGGTGGA
AAAAAAAAAAACATTTTCATCTTTTCTTCGTGCAAACCGAACCAAGGAGAAAAAAGAGAGGAACG
CTTTCGGCTTTAAGGGTGTAACGCCACAAAAATTTTTGTTTTTGGAAATGTTAAAACATGTCAAG
GGTGTAAAGTTCGGCTTTGAAAATATTTTTTTATATGAGAAACTGCCATGGTAACACCCATCGTG
TCGTCTTATTATAAAAATATTATTATCTCTATCAAGAAATTGTTGCGGAGGCAATTTTAAAAAAA
AAACTGATACAACGATTTCACCA
Found at i:43180994 original size:541 final size:545
Alignment explanation
Indices: 43180131--43181192 Score: 1522
Period size: 541 Copynumber: 2.0 Consensus size: 545
43180121 AAACTGCCCC
* *
43180131 ATTGTGTCGTTTTATTATAAAAATATTATTATTTTTAACATAAAATTGTTGCGGAGGCAATTTTA
1 ATTGTGTCGTCTTATTATAAAAATATTATTATTTTTAACATAAAATTGTTGCGGAGGCAAATTTA
* * *
43180196 ACAAAAAAATTGATACGATGGTTTCACCCATTATGTTATCTTGTTATAAAATATTATTATTTTTA
66 ACAAAAAAACTGATACGACGGTTTCACCCATTATGTCATCTTGTTATAAAATATTATTATTTTTA
* * *
43180261 TCATGGAACTACTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTATATCTAGAACT
131 TCATGAAACCACTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTAGATCTAGAACT
*
43180326 TAATTTAAAGGGATTAAATAGTAATTATACCAATAATATATATGGCTGGTTATTGAAGTAAGTAT
196 TAATTTAAAGGGATTAAATAGTAATTATACCAATAATATATATGGCTGGTTATTGAAGTAACTAT
* * *
43180391 GTATGTTATATTATAAAACATTAGCAATTAAAATTATAAAATTAAAATTTAATTAAATAGAACAT
261 GTATGCTATATTATAAAACATTAGCAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACAG
* *
43180456 AAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATTTCCATCTTTTCTTC-ATGCAAATTGAA
326 AAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATTTCCACCTTTTCTTCGA-GCAAACTGAA
*
43180520 CCAAGGGAGAAAGAAGAGAGGAACGTTTGCCTTTTAAGGGTGTAACACCC-CAAAAAAAATT-AT
390 CCAAGGGAGAAAGAAGAGAGGAACGTTCGCC-TTTAAGGGTGTAACACCCTC-AAAAAAATTGAT
* * *
43180583 TTTTGAAACTGTTAAAACATGTCAAGGGCT-TAACGTTTGGCTTTGAAAATA-TTTTTATACGAG
453 TTTGGAAA-TGTTAAAACATGTCAAGGG-TGTAACGTTCGGCTTTGAAAATATTTTTTATACGAC
43180646 AAACTGCCACCTAATACGATAGTTTCACCT
516 AAACTGCCACCTAATACGATAGTTTCACCT
* * * * *
43180676 ATTGTGTTGTCTTATTAT-AAAA-A-TATTATTTTTATCATGAAATTGTTGTGGAGGTAAATTTA
1 ATTGTGTCGTCTTATTATAAAAATATTATTATTTTTAACATAAAATTGTTGCGGAGGCAAATTTA
*
43180738 ACAAAAAAACTGATACGACGGTTTCACCCATTGTGTCATCTTGTTAT-AAA-ATT-TTATTTTTA
66 ACAAAAAAACTGATACGACGGTTTCACCCATTATGTCATCTTGTTATAAAATATTATTATTTTTA
** * * *
43180800 TCATGAAACCGTTGTCAACCCATTGTGTCATCTTGTAATTTTCTTAAGGATTTACGAT-TAGAAC
131 TCATGAAACCACTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTA-GATCTAGAAC
* *
43180864 TTAATTTATAGGGGTTAAATAGTAATTATACCTAGA-ATATATATATGGTCT-GTTATTGAAGTA
195 TTAATTTAAAGGGATTAAATAGTAATTATACC-A-ATA-ATATATATGG-CTGGTTATTGAAGTA
* *
43180927 ACTATGTATGCTATATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTATTTAAATAG
256 ACTATGTATGCTATATTATAAAACATTAGCAATTAAAATTATAAAATGAAAATTTAATTAAATAG
* * *
43180992 AACGGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATTTCCACCTTTTCTTCGAGCAAAC
321 AACAGAAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATTTCCACCTTTTCTTCGAGCAAAC
* * * * ***
43181057 TGAACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCTCAAAAGTTTTG
386 TGAACCAAGGGAGAAAGAAGAGAGGAACGTTCGCCTTTAAGGGTGTAACACCCTCAAAAAAATTG
* * *
43181122 CTTTTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTATATGAC
451 ATTTTGGAAATGTTAAAACATGTCAAGGGTGTAACGTTCGGCTTTGAAAATATTTTTTATACGAC
43181187 AAACTG
516 AAACTG
43181193 TCATGATTTC
Statistics
Matches: 461, Mismatches: 46, Indels: 24
0.87 0.09 0.05
Matches are distributed among these distances:
539 93 0.20
540 68 0.15
541 199 0.43
542 80 0.17
543 1 0.00
544 4 0.01
545 16 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (545 bp):
ATTGTGTCGTCTTATTATAAAAATATTATTATTTTTAACATAAAATTGTTGCGGAGGCAAATTTA
ACAAAAAAACTGATACGACGGTTTCACCCATTATGTCATCTTGTTATAAAATATTATTATTTTTA
TCATGAAACCACTGTAAACCCATTGTGTCATCTTATAATTTGCTTAAGGATTTAGATCTAGAACT
TAATTTAAAGGGATTAAATAGTAATTATACCAATAATATATATGGCTGGTTATTGAAGTAACTAT
GTATGCTATATTATAAAACATTAGCAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACAG
AAGTGATAATGGGAATAGGTGGCAAAAACAAAAACATTTCCACCTTTTCTTCGAGCAAACTGAAC
CAAGGGAGAAAGAAGAGAGGAACGTTCGCCTTTAAGGGTGTAACACCCTCAAAAAAATTGATTTT
GGAAATGTTAAAACATGTCAAGGGTGTAACGTTCGGCTTTGAAAATATTTTTTATACGACAAACT
GCCACCTAATACGATAGTTTCACCT
Found at i:43181435 original size:277 final size:278
Alignment explanation
Indices: 43180930--43181484 Score: 1103
Period size: 277 Copynumber: 2.0 Consensus size: 278
43180920 TGAAGTAACT
43180930 ATGTATGCTATATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTATTTAAATAGAAC
1 ATGTATGCTATATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTATTTAAATAGAAC
43180995 GGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATTTCCACCTTTTCTTCGAGCAAACTGA
66 GGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATTTCCACCTTTTCTTCGAGCAAACTGA
43181060 ACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCTCAAAAGTTTTGCTT
131 ACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCTCAAAAGTTTTGCTT
43181125 TTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTATATGACAAA
196 TTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTATATGACAAA
43181190 CTGTCATGATTTCACCCA
261 CTGTCATGATTTCACCCA
43181208 ATGTATGCTA-ATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTATTTAAATAGAAC
1 ATGTATGCTATATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTATTTAAATAGAAC
43181272 GGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATTTCCACCTTTTCTTCGAGCAAACTGA
66 GGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATTTCCACCTTTTCTTCGAGCAAACTGA
43181337 ACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCTCAAAAGTTTTGCTT
131 ACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCTCAAAAGTTTTGCTT
43181402 TTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTATATGACAAA
196 TTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTATATGACAAA
43181467 CTGTCATGATTTCACCCA
261 CTGTCATGATTTCACCCA
43181485 TTGTGTCGTC
Statistics
Matches: 277, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
277 267 0.96
278 10 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (278 bp):
ATGTATGCTATATTATAAAACATTAGTAATTAAAATTATAAAATGAAAATTTATTTAAATAGAAC
GGAAGTGATAATGGGAATAGGTGGCAAAAAGAGAAACATTTCCACCTTTTCTTCGAGCAAACTGA
ACCAAGGGGGAAAGAAGAGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCTCAAAAGTTTTGCTT
TTGGAAATGTTAAAACATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTATATGACAAA
CTGTCATGATTTCACCCA
Found at i:43184441 original size:189 final size:188
Alignment explanation
Indices: 43184080--43184441 Score: 543
Period size: 187 Copynumber: 1.9 Consensus size: 188
43184070 CAATTTTAAC
*
43184080 AAAAAAAAACTGATACGACGGTTTCACCCATTGTGCCAGCTTGTTATAAAATATTATTATTATTA
1 AAAAAAAAACTGATACGACGGTTTCACCCATTGTGCCAACTTGTTATAAAATATTATTATTATTA
* * * * *
43184145 TCATGAAACTGTTGTAGACTCATTGTATCATCTTGTAATTTGCTCAAGGATTTATAATTAGAACT
66 TCACGAAACTGTTGTAAACTCATTGTATCATCTTGTAATTTGCTCAAGGATGTACAATTAGAACA
* * * *
43184210 TAATTTAAAGGGGTTAAATAGTACTTCTACCTAGAATATATATATATATATATATATA
131 TAATTTAAAGGGGTTAAATAGTAATTATACCAAAAATATATATATATATATATATATA
* * *
43184268 AAAAAAAACACTGATATGACGGTTTCACCCATTGTGTCAACTTGTTCTAAAATATTATT-TT-TT
1 AAAAAAAA-ACTGATACGACGGTTTCACCCATTGTGCCAACTTGTTATAAAATATTATTATTATT
*
43184331 ATCACGAAACTGTTGTAAA-TCCATTGTGTCATCTTGTAATTTGC-CTAAGGATGTACAATTAGA
65 ATCACGAAACTGTTGTAAACT-CATTGTATCATCTTGTAATTTGCTC-AAGGATGTACAATTAGA
43184394 ACATAATTTAAAGGGGTTAAATAGTAATTATACCAAAAATATATATAT
128 ACATAATTTAAAGGGGTTAAATAGTAATTATACCAAAAATATATATAT
43184442 GGTCTGTTAT
Statistics
Matches: 157, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
186 2 0.01
187 99 0.63
188 10 0.06
189 46 0.29
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (188 bp):
AAAAAAAAACTGATACGACGGTTTCACCCATTGTGCCAACTTGTTATAAAATATTATTATTATTA
TCACGAAACTGTTGTAAACTCATTGTATCATCTTGTAATTTGCTCAAGGATGTACAATTAGAACA
TAATTTAAAGGGGTTAAATAGTAATTATACCAAAAATATATATATATATATATATATA
Found at i:43184985 original size:729 final size:724
Alignment explanation
Indices: 43183622--43184985 Score: 1814
Period size: 729 Copynumber: 1.9 Consensus size: 724
43183612 TGAAACTGCT
* * *
43183622 CATTGTATCATCTTGTAAATTGCTTAAGGATGTATAATTAGAACTTAATTTAAAGGGGTTAAATT
1 CATTGTATCATCTTGTAAATTGCCTAAGGATGTACAATTAGAACATAATTTAAAGGGGTTAAATT
* * *
43183687 ATAATTATACCTAGAATATATATATGTCCGACTATTGAAGTATGTATGTTATATTATAAAACATC
66 ATAATTATACCAAAAATATATATATGTCCGACTATTGAAGTATGTATGCTATATTATAAAACATC
* * * **
43183752 AGTAATTAAAATTATACAATGAAAATTTAATTAAATACAATATATGTGATAATGGGAATTGGTGG
131 AGTAATTAAAATTATAAAATGAAAATTTAATTAAATACAACATATGTGATAATGAGAAGAGGTGG
* * *
43183817 CAAAAACAAAGACATGTCCATCTTTTCTTCGTACAAACCGAAACAAGCGACAAGGAAGTGAGGAA
196 CAAAAACAAAGACATGTCCATCTTTTCTTCCTACAAACCGAAACAAGCGACAAAGAAGAGAGGAA
* * * ***
43183882 TGTTCGGCTTTAAGGGTGTAATGCCCCAAAAAAAATTGTTTTTGGAGGTGTTAAAACATGTCAAG
261 TGTTCGGCTTTAAGGGTGTAACGCCCCAAAAAAAATTATTTTTAGAAACGTTAAAACATGTCAAG
* * * *
43183947 GGTGTAATGTTCGGCTTTGAAAAGATTTTTTTATATGAGAAATTGTCACCTGATACGACGGTTCC
326 GGTGTAATGTTCAGCTTTGAAAAGATTTTTTTATATGAGAAACTGCCACCTGATACAACGGTTCC
* * * * *
43184012 ACGCATTTTGTCGTCTTGTTATAAAATTATTATTATTATAATGAAATTGTTGCGGTGGCAATTTT
391 ACCCATTGTGTCGTCTTATTAAAAAATTATTATTATTATAATGAAATTATTGCGGTGGCAATTTT
*
43184077 AACAAAAAAAAACTGATACGACGGTTTCACCCATTGTGCCAGCTTGTTATAAAATATTATTATTA
456 AACAAAAAAAAACTGATACGACGGTTT---CCATTGT--CA-CTTGTTATAAAACATTATTATTA
* * * * *
43184142 TTATCATGAAACTGTTGTAGACTCATTGTATCATCTTGTAATTTGCTCAAGGATTTATAATTAGA
515 TTATCATGAAACTGCTATAAACTCATTGTACCATCTTGTAATTTGCTCAAGAATTTATAATTAGA
* *
43184207 ACTTAATTTAAAGGGGTTAAATAGTACTTCTACCTAGAATATATATATATATATATATATAAAAA
580 ACTTAATTTAAAGGGGTTAAATAGTACTTATACCAAGAATATATATATATATATATATATAAAAA
43184272 AAAACACTGATATGACGGTTTCACCCATTGTGTCAACTTGTTCTAAAATATTATTTTTTATCACG
645 AAAACACTGATATGACGGTTTCACCCATTGTGTCAACTTGTTCTAAAATATTATTTTTTATCACG
43184337 AAACTGTTGTAAATC
710 AAACTGTTGTAAATC
* *
43184352 CATTGTGTCATCTTGTAATTTGCCTAAGGATGTACAATTAGAACATAATTTAAAGGGGTTAAA-T
1 CATTGTATCATCTTGTAAATTGCCTAAGGATGTACAATTAGAACATAATTTAAAGGGGTTAAATT
* *
43184416 AGTAATTATACCAAAAATATATATATGGTCTG-TTATTGAAGTAAGTATGTATGCTATATTATAA
66 A-TAATTATACCAAAAATATATATAT-GTCCGACTATT---G-AAGTATGTATGCTATATTATAA
* * *
43184480 AACATTAGTAATTAAAATTATAAAATGAAAATTTTATTAAATAGAACATATGTGATAATGAGAAG
125 AACATCAGTAATTAAAATTATAAAATGAAAATTTAATTAAATACAACATATGTGATAATGAGAAG
* * * * * * *
43184545 AGGTGGTAAAAACAAAATACATTTCCATCTTTTCTTCCTGCAAATCGAACCAAGGGACAAAGAAG
190 AGGTGGCAAAAAC-AAAGACATGTCCATCTTTTCTTCCTACAAACCGAAACAAGCGACAAAGAAG
* * * *
43184610 AGAGGAATGTTCTGCTTTAAGGGTGTAACGCCTCAAAATATATATATATTTTAGAAACGTTAAAA
254 AGAGGAATGTTCGGCTTTAAGGGTGTAACGCCCCAAAAAAAAT-TAT-TTTTAGAAACGTTAAAA
* * **
43184675 CATGTCAAGGGTGTAATGTTTAGCTTTGAAAATATTTTTTTATATGAGAAACTGCCGTCTGATAC
317 CATGTCAAGGGTGTAATGTTCAGCTTTGAAAAGATTTTTTTATATGAGAAACTGCCACCTGATAC
* * * * *
43184740 AATGGTTGCACCCATTGTGTCGTCTTAATATAAAAATATTATTCTTTTTATCATGAAATTATTGC
382 AACGGTTCCACCCATTGTGTCGTCTT-AT-TAAAAA-ATTATTATTATTATAATGAAATTATTGC
* *
43184805 TGG-GGCAATTTT-A-ATAAAAAAATTGATACGACGGTTT-CATT-T-A-TTGTGTATAAAACAT
444 -GGTGGCAATTTTAACAAAAAAAAACTGATACGACGGTTTCCATTGTCACTTGT-TATAAAACAT
* * * *
43184863 TATTATTATTATCATGCAACTGCTATAAAC-CTATTGTGCCATCTTGTAATTTGGTTAAGAATTT
507 TATTATTATTATCATGAAACTGCTATAAACTC-ATTGTACCATCTTGTAATTTGCTCAAGAATTT
*
43184927 ATAATTAGAACTTAATTTAAAGGGGTTAAATATTTA-TTATACCAAGAATATATATATAT
571 ATAATTAGAACTTAATTTAAAGGGGTTAAATA-GTACTTATACCAAGAATATATATATAT
43184986 GGCTGGTTAA
Statistics
Matches: 547, Mismatches: 71, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
728 5 0.01
729 117 0.21
730 87 0.16
731 4 0.01
733 2 0.00
734 94 0.17
735 80 0.15
736 2 0.00
737 92 0.17
738 23 0.04
739 6 0.01
740 33 0.06
741 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (724 bp):
CATTGTATCATCTTGTAAATTGCCTAAGGATGTACAATTAGAACATAATTTAAAGGGGTTAAATT
ATAATTATACCAAAAATATATATATGTCCGACTATTGAAGTATGTATGCTATATTATAAAACATC
AGTAATTAAAATTATAAAATGAAAATTTAATTAAATACAACATATGTGATAATGAGAAGAGGTGG
CAAAAACAAAGACATGTCCATCTTTTCTTCCTACAAACCGAAACAAGCGACAAAGAAGAGAGGAA
TGTTCGGCTTTAAGGGTGTAACGCCCCAAAAAAAATTATTTTTAGAAACGTTAAAACATGTCAAG
GGTGTAATGTTCAGCTTTGAAAAGATTTTTTTATATGAGAAACTGCCACCTGATACAACGGTTCC
ACCCATTGTGTCGTCTTATTAAAAAATTATTATTATTATAATGAAATTATTGCGGTGGCAATTTT
AACAAAAAAAAACTGATACGACGGTTTCCATTGTCACTTGTTATAAAACATTATTATTATTATCA
TGAAACTGCTATAAACTCATTGTACCATCTTGTAATTTGCTCAAGAATTTATAATTAGAACTTAA
TTTAAAGGGGTTAAATAGTACTTATACCAAGAATATATATATATATATATATATAAAAAAAAACA
CTGATATGACGGTTTCACCCATTGTGTCAACTTGTTCTAAAATATTATTTTTTATCACGAAACTG
TTGTAAATC
Found at i:43217055 original size:45 final size:47
Alignment explanation
Indices: 43217004--43217092 Score: 121
Period size: 45 Copynumber: 1.9 Consensus size: 47
43216994 CCCTGATAAT
*
43217004 AACTCTTCA-GAGTTACCTGTTA-AGCTC-AATGAGCTTCCTGTTTTA
1 AACTCTT-ATGAGTTACCTGTTATAGCTCGAATAAGCTTCCTGTTTTA
* *
43217049 AACTCTTATGAGTTTCCTGTTATAGCTCGGATAAGCTTCCTGTT
1 AACTCTTATGAGTTACCTGTTATAGCTCGAATAAGCTTCCTGTT
43217093 ACATGGCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.03
45 19 0.50
46 5 0.13
47 13 0.34
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (47 bp):
AACTCTTATGAGTTACCTGTTATAGCTCGAATAAGCTTCCTGTTTTA
Found at i:43218728 original size:20 final size:20
Alignment explanation
Indices: 43218703--43218746 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
43218693 CCATGCCATT
*
43218703 ATATAATTTGTGATAGTGTG
1 ATATAATTTGTGATACTGTG
43218723 ATATAATTTGTGATACTGTG
1 ATATAATTTGTGATACTGTG
43218743 ATAT
1 ATAT
43218747 CTCCTGACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (20 bp):
ATATAATTTGTGATACTGTG
Found at i:43222114 original size:6 final size:6
Alignment explanation
Indices: 43222105--43222137 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
43222095 TAAGTCTAAG
43222105 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
43222138 CAAATAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:43223724 original size:29 final size:29
Alignment explanation
Indices: 43223649--43223731 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
43223639 TGAATAAACA
*
43223649 AGAATAAATAAAGAAATAA-ATAA-AATT
1 AGAATAAATAAAGAAATAATAAAATAATT
*
43223676 AGTAA-AACTAATA-AAA-AATAAAATAATT
1 AG-AATAAATAA-AGAAATAATAAAATAATT
*
43223704 AGAATAAATAAAGAAATAATAATATAAT
1 AGAATAAATAAAGAAATAATAAAATAAT
43223732 AATAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
26 2 0.04
27 16 0.36
28 17 0.38
29 10 0.22
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (29 bp):
AGAATAAATAAAGAAATAATAAAATAATT
Found at i:43228324 original size:17 final size:17
Alignment explanation
Indices: 43228275--43228332 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
43228265 CGACAGCCCA
* **
43228275 TGTGGCTCACACGGGCA
1 TGTGGCCCACACGGGTG
*
43228292 TTTGGCCCACACGGGTG
1 TGTGGCCCACACGGGTG
43228309 TGTGGCCCACACGGGTG
1 TGTGGCCCACACGGGTG
43228326 TGTGGCC
1 TGTGGCC
43228333 AACCCATGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (17 bp):
TGTGGCCCACACGGGTG
Found at i:43236620 original size:25 final size:25
Alignment explanation
Indices: 43236586--43236659 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 25
43236576 TCATTCTGTG
43236586 GCAAAGGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
* *
43236611 GCAAAGGATGAATTAACGGT-ATAT
1 GCAAAGGATGAATTGACGGTAAAAT
*
43236635 GCAAAGGATGAATTGACAG-AAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
43236659 G
1 G
43236660 TACCCAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.56
25 19 0.44
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (25 bp):
GCAAAGGATGAATTGACGGTAAAAT
Found at i:43236641 original size:24 final size:25
Alignment explanation
Indices: 43236586--43236648 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
43236576 TCATTCTGTG
*
43236586 GCAAAGGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTAACGGTAAAAT
*
43236611 GCAAAGGATGAATTAACGGT-ATAT
1 GCAAAGGATGAATTAACGGTAAAAT
43236635 GCAAAGGATGAATT
1 GCAAAGGATGAATT
43236649 GACAGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (25 bp):
GCAAAGGATGAATTAACGGTAAAAT
Found at i:43236772 original size:20 final size:19
Alignment explanation
Indices: 43236744--43236816 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 19
43236734 TGTTGACTCA
* *
43236744 TATGAGTTCTGTTTAACCC
1 TATGGGTTCTGATTAACCC
*
43236763 TTATGGGTTCTCGATTAGCTCC
1 -TATGGGTTCT-GATTAAC-CC
* *
43236785 TACGAGCTTCTGATTAACCCC
1 TATG-GGTTCTGATTAA-CCC
43236806 TATGGGTTCTG
1 TATGGGTTCTG
43236817 TTTAGCACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 15 0.37
21 18 0.44
22 8 0.20
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
TATGGGTTCTGATTAACCC
Found at i:43244305 original size:25 final size:24
Alignment explanation
Indices: 43244277--43244344 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
43244267 TCGTTCTGTG
*
43244277 GCAAAGGATGAATTGATGGTAAAAT
1 GCAAAGGATGAATTGACGGT-AAAT
*
43244302 GCAAAGGATGAATTGACGGTATAT
1 GCAAAGGATGAATTGACGGTAAAT
*
43244326 GAAAAGGATGAATTGACGG
1 GCAAAGGATGAATTGACGG
43244345 GGAATATACC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.41, C:0.06, G:0.31, T:0.22
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGTAAAT
Found at i:43246804 original size:23 final size:23
Alignment explanation
Indices: 43246760--43246807 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
43246750 TAGCAGTAGG
* * *
43246760 ATCTGAATCTTTATTTGATATGC
1 ATCTGAATATGTATCTGATATGC
*
43246783 ATCTGAATATGTATCTGCTATGC
1 ATCTGAATATGTATCTGATATGC
43246806 AT
1 AT
43246808 TGATGTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (23 bp):
ATCTGAATATGTATCTGATATGC
Found at i:43260752 original size:19 final size:19
Alignment explanation
Indices: 43260716--43260756 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
43260706 TCATACCGTT
*
43260716 GGACTGTTTCGGACTTTTG
1 GGACTGTTTCAGACTTTTG
* *
43260735 GGACTGTTTTAGATTTTTG
1 GGACTGTTTCAGACTTTTG
43260754 GGA
1 GGA
43260757 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.32, T:0.44
Consensus pattern (19 bp):
GGACTGTTTCAGACTTTTG
Found at i:43262558 original size:35 final size:35
Alignment explanation
Indices: 43262496--43262563 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
43262486 CAGTAAAATA
*
43262496 TTTTCCGTAAAATGATTTCGGGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTCGGGAAAAATATTTTAC
* *
43262531 TTTTCTGTAAAATGATTTACTGG-AAAATATTTT
1 TTTTCCGTAAAATGATTT-CGGGAAAAATATTTT
43262564 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTCGGGAAAAATATTTTAC
Found at i:43265370 original size:17 final size:17
Alignment explanation
Indices: 43265335--43265372 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
43265325 CGTTTTGCTT
*
43265335 AAAAATATTTTTATTTC
1 AAAAATATTTTTATATC
43265352 AAAAATATTTTT-TAATC
1 AAAAATATTTTTAT-ATC
43265369 AAAA
1 AAAA
43265373 GTGCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATATTTTTATATC
Found at i:43270651 original size:20 final size:20
Alignment explanation
Indices: 43270607--43270651 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
43270597 TTAGCAATGA
* *
43270607 TTTTATTATTATTTTTAAAT
1 TTTTTTTATTATTTTGAAAT
* *
43270627 ATTTTTTATTATTTTGGAAT
1 TTTTTTTATTATTTTGAAAT
43270647 TTTTT
1 TTTTT
43270652 GTAAGTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTTTATTATTTTGAAAT
Found at i:43273923 original size:143 final size:144
Alignment explanation
Indices: 43273534--43275828 Score: 2557
Period size: 143 Copynumber: 16.1 Consensus size: 144
43273524 CGAGGTAAAT
* * * * *
43273534 TTCTTATGTCTTATGACTTTTTTTTTCAATTCCATTTTTAAATAATGAAACTCGAATTTTGAGGC
1 TTCTCATGTCTTATGA--TTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* *
43273599 GCAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAA-GGAAATTTGCCAT
64 GAAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCAT
* * *
43273663 GTGATGCGTACCAAAG
129 GTGATGCATAGCGAAG
* * * *
43273679 TTCTTATGTCTTGTGATT-TTTTTAAATTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* ** * * *
43273743 AATTGGTTACAGAATCAAAAATAAAGTATAAACTTTTAACAGGTTAAAATGGAAATTTACCATGT
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
43273808 GATGCA-AG-GAAAG
131 GATGCATAGCG-AAG
* * * * * *
43273821 TTCTCATGTCTTATGATTCTTTTT-AATTTCATTGTTAAAATATTGAAGCTCGAATTTTAAAGTG
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATT-TTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * ** *
43273885 AAGCCCGTTATAGAA-CTAAAGATAAAGTATACATTTTTAAGAGGTTACAATAAAAATTTATCAT
65 AAGTCCGTTACAGAATC-AAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCAT
43273949 GTGATGCATAGCGAAG
129 GTGATGCATAGCGAAG
* * * * * * * *
43273965 TTCTTATGTCTTATAATT-TTTTTCAATTTCATTTTTAAATATTAAAACTTGGACTTCGAAGCAA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * * * *
43274029 AG-CCTTTACGGAATAAAAAATAAAGTATAAATTTTGAAGAGGTAAAAATGGAAATTTA-C----
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
43274088 -ATG--T---GAAG
131 GATGCATAGCGAAG
* * * *
43274096 TTCTTATGTCTTATGATTGTTTTTCAAATTT--TTTTTAAATATTGAAACTCGAATTTTGAGGCA
1 TTCTCATGTCTTATGATTCTTTTTC-AATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
** * *
43274159 AAGTCCGTTATGGAATCAAAGATAAAATATAAATTTTTAAGCA-GTTAAAATGGAAATTTAACAT
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAG-AGGTTAAAATGGAAATTTACCAT
43274223 GTGATGCATAGCGAAG
129 GTGATGCATAGCGAAG
* * * * *
43274239 TTCTTC-TGTCTTATGATT-TTTTTAAATTTCATTTTTAAATATTAAAGCTCAAATTTTGGGGTG
1 TTC-TCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * * *
43274302 AAGCCCGTTACGGAATCAAAGATCAAGTATAATTTTTTAAAAGGTTAAAATGGAAATTTACAATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
43274367 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
* * * * *
43274382 TTCTCGTGTCTTATGATT-TTTTTCAATTTCATTTTTAAATATTGACACTCAAATTTTGAGACGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * * *
43274446 AGTCTGTTAC-GAAATCAAAAATAAAATATAAATTATTAAGAGGTTAAAAAGGAAATTTACCATG
66 AGTCCGTTACAG-AATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
43274510 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
*
43274525 TTCTTATGTCTTATGATGT-TTTTT-AATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
1 TTCTCATGTCTTATGAT-TCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * *
43274588 AAGTCAGTTACAGAATCAAAGATATATTATAAAATTTTAAGAGGTTAAAATGGAAATTTACCATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
* *
43274653 TGATGCACAACGAAG
130 TGATGCATAGCGAAG
* * * * * *
43274668 TTCTCGTGTCTTATGATTCCTTTT-AATTTCAATTTTAAATATTAAAATTCAAATTTCGAGGCGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * *
43274732 AGT-CGATTACAAAATCTAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATG
66 AGTCCG-TTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
43274796 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
* * * ** * * *
43274811 TTCTCGTATCTTATAATTCTTACT-AATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCCA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * *
43274875 AGTTCGTTACGGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAAGGGAAATTTACCATCT
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
43274940 GATGCATAGCGAAG
131 GATGCATAGCGAAG
* *
43274954 TTC-CTATGTCTTATGA-TATTTTT-AATTTCATTTTTTAAATATTAAAACTTGAATTTTGAGGC
1 TTCTC-ATGTCTTATGATTCTTTTTCAATTTCA-TTTTTAAATATTAAAACTCGAATTTTGAGGC
** * * * * *
43275016 GAAGTTGGTTACAAAAACAAAGATATATTATAAAATTTTAAGAGGTTAAAATGGAAATTTACCAT
64 GAAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCAT
* *
43275081 GTGATGCACAACGAAG
129 GTGATGCATAGCGAAG
* * * * * *
43275097 TTCTCAAGTCGTATGATTCTTTTT-AATTTCAATTTTAAATATTAAAATTTGAATTTCT-AGTCG
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTT-TGAGGCG
* * * *
43275160 AAGTCGGTTATAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATAGAAATTTACAATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
*
43275225 TGATGAATAGCGAAG
130 TGATGCATAGCGAAG
* * * * *
43275240 TTCTCGTGTCTTATGATTCTTATT-AATTGCGTTTTTAAATATTAAAACTCAAATTTTGAGGAC-
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG-CG
* **
43275303 AAGTCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAATTTGGAAATTTACCATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
43275368 TGATGCATAGCGAAG
130 TGATGCATAGCGAAG
* * * * * * * * * *
43275383 TTTTTATGTCATATGAATTTTTTTTCAATTTCATTTTTAGATATTGAGACTCAAATTTTGAGACA
1 TTCTCATGTCTTATG-ATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * *
43275448 AAGTCTGTTACGGTATCAAAAATAAAGTA-AATATTTTTAAGAGATTAAAATGGAAATTTACCAT
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAA-ATTTTTAAGAGGTTAAAATGGAAATTTACCAT
* *
43275512 GTGATGCACATG-AAAG
129 GTGATGCATA-GCGAAG
* * * *
43275528 TTCTTATGTCGTATGATTTTTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGTG
1 TTCTCATGTCTTATGA-TTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCG
* * * * * *
43275593 AAGTCAGTTACAGAATGAAAGATATAGTATAAACTTTTAAGAGGTTAAAATGAAAATTAACCATG
65 AAGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATG
*
43275658 TGATGCATAGAGAAG
130 TGATGCATAGCGAAG
* * *
43275673 TTCTCGTGTCTTATGATTCTTTTT-TATTTCATTTTTAAATATTGAAACTCGAATTTTGAGGCGA
1 TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
* * * * * *
43275737 AGTCTGTTACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAATGGAAACTTACCTTGT
66 AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
**
43275802 GATGCATAATGAAG
131 GATGCATAGCGAAG
* *
43275816 TTCTTATATCTTA
1 TTCTCATGTCTTA
43275829 GCATTGTAAA
Statistics
Matches: 1823, Mismatches: 277, Indels: 102
0.83 0.13 0.05
Matches are distributed among these distances:
131 50 0.03
132 53 0.03
133 7 0.00
134 1 0.00
136 3 0.00
138 3 0.00
140 1 0.00
141 6 0.00
142 180 0.10
143 1197 0.66
144 75 0.04
145 244 0.13
146 3 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (144 bp):
TTCTCATGTCTTATGATTCTTTTTCAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCGA
AGTCCGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGT
GATGCATAGCGAAG
Found at i:43276002 original size:181 final size:180
Alignment explanation
Indices: 43275679--43276003 Score: 494
Period size: 181 Copynumber: 1.8 Consensus size: 180
43275669 GAAGTTCTCG
* **
43275679 TGTCTTATGATTCTTTTTTATTTCATTTTTAAATATTGAAACTCGAATTTTGAGGCGAAGTCTGT
1 TGTCTTATGATTCTTTTTTATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGAAGTCCAT
** *
43275744 TACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAATGGAAACTTACCTTGTGATGCAT
66 TACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAAAAGAAACTTACCTTGTAATGCAT
43275809 AATGAAGTTCTTATATCTTAGCATTGTAAAAAAAAAAAAAAGTTCTTATA
131 AATGAAGTTCTTATATCTTAGCATTGTAAAAAAAAAAAAAAGTTCTTATA
*
43275859 TGTCTTATGATT-TTTTTTCAATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGCAGTCC
1 TGTCTTATGATTCTTTTTT--ATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGAAGTCC
* *
43275923 ATTACGGAATCAAAGATAAAGTATA-ATTTTTTAAGAGGTTAAAAAAGAAATTTA-CTATGTAAT
64 ATTACGGAATCAAAGATAAAATATATA-TTTTTAAGAGGTTAAAAAAGAAACTTACCT-TGTAAT
* *
43275986 GTATACTGAAGTTCTTAT
127 GCATAATGAAGTTCTTAT
43276004 GATACATGCA
Statistics
Matches: 130, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
179 6 0.05
180 15 0.12
181 109 0.84
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (180 bp):
TGTCTTATGATTCTTTTTTATTTCATTTTTAAATATTGAAACTCAAATTTTGAGGCGAAGTCCAT
TACGGAATCAAAGATAAAATATATATTTTTAAGAGGTTAAAAAAGAAACTTACCTTGTAATGCAT
AATGAAGTTCTTATATCTTAGCATTGTAAAAAAAAAAAAAAGTTCTTATA
Found at i:43277675 original size:143 final size:142
Alignment explanation
Indices: 43277417--43280009 Score: 1768
Period size: 143 Copynumber: 18.1 Consensus size: 142
43277407 TAACAGATTC
* * * * * *
43277417 ATGTGATGCATGGCAAACTTCTCGTGTTTTATGATTATTTTTAATTTCATTTTTAAATATTAAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * ** * * * *
43277482 TTCAAATTTTGAGGCGAAATTCGGTACGGAATCAAATATAAAGTATAAATTTTTAATAGGTTAAA
66 CTCGAATTTTGAGGCGAAGCT-GTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
*
43277547 ATAGAAATTTACA
130 ATGGAAATTTACA
* *
43277560 ATGTGATGCAGAGCGAAGTTCTTGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * *
43277625 CTTGAATTTTGAGGCGAAGCTGTTACGGAATCAAAGATAAAGTATAAAATTTATT--GAGGTTAC
66 CTCGAATTTTGAGGCGAAGCTGTTACAGAATCAAAGATAAAGTAT-AAATTT-TTAAGAGGTTAA
* * *
43277688 AATCGATATTTACC
129 AATGGAAATTTACA
* ** *
43277702 ATGTGATGCATAGTGAAGTTCTTATGTCTTATGATAT-TTTTTAAAATTTCATTTTTAAATATTA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTT--AATTTCATTTTTAAATATTG
* * * * * * * *
43277766 AAACTCGAATTTAT-AGGCAAATTCGGCTACAGAAATCATAGATATAGTATAAAGTTTTATGAGG
63 AAACTCGAATTT-TGAGGCGAA-GCTGTTACAG-AATCAAAGATAAAGTATAAATTTTTAAGAGG
* *
43277830 TTAAAATTGAAATTTACC
125 TTAAAATGGAAATTTACA
* * * ** *
43277848 ATTTGATGCATAGTGAAGTTCTCGTGTTTTATGA-TAATTTT--TTT-ATTTTTAAATATTAAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * * *
43277909 TTCAAATTTCGAGGCAAAGTCAGTTATAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTGAA
66 CTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
*
43277974 ATGGTAATTTACA
130 ATGGAAATTTACA
* *
43277987 ATGTGATGCTTAGTGAAGTTCTCGTGTCTTATG----------A-TTC-TTTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * * *
43278040 CTC-AATTTTGAGGCACAATCCGTCACAGAATTAAAGATAAAATATAAATTTTTAAGAGGTTGAA
66 CTCGAATTTTGAGGC-GAAGCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
*
43278104 ATGGTAATTTACA
130 ATGGAAATTTACA
* *
43278117 ATGTGATGCTTAGTGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * ** ** * * * * *
43278182 CTCAAACTTTAAGGCTAAGTCCATTATGGAATTAAAGTTAAAATATAAAGTGTTAAGAGGTTAAA
66 CTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
* *
43278247 GTGGTAATTTACA
130 ATGGAAATTTACA
* * * *
43278260 ATGTGATGCGTAGTGAAGTTCTCATGTCTTATGATTCTTTTTAATTTTA-TTTTAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * *
43278324 CTCGAACTTTGAGGCGAAGTTCATTAC-GAAATTAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
66 CTCGAATTTTGAGGCGAAGCT-GTTACAG-AATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
* * *
43278388 ATTGGAAATATACC
129 AATGGAAATTTACA
* * * * * * * * *
43278402 ATGTAATGCATAGC-AGACTTCTCATGTTTTCTAATTTTTTTTAATTTCGTTTTTAAATATTAAA
1 ATGTGATGCATAGCGA-AGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAA
* * * * * *
43278466 ATTTGAATTTTGAGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAACTTTTAAAAGGTTAA
65 ACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
43278531 AATGGAAATTTACA
129 AATGGAAATTTACA
* * * * *
43278545 ATGTGATGTAGAGCGAAGCTCTCGTGTCTTATGATAT-TTTTTAATTTTCATTTCTAAATATTAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTTAA-TTTCATTTTTAAATATTGA
* * *
43278609 AACTCGAATTTTGTGGCGAAG-TCGATTACAGAATCAAAGATAAAGTATAAAATTTTGAGAGGTT
64 AACTCGAATTTTGAGGCGAAGCT-G-TTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTT
* *
43278673 CAAATGGAAATTTACC
127 AAAATGGAAATTTACA
* * * * * *
43278689 ATGTGATGCATAGCGAAGCTCTCATGTCTTATGATTCTTTTTAATTTAAATATTAAATATTAAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * *** * **
43278754 TTTAC-AATATGATGCATAGCAAAGTTCTCGTGTAATATGAATC--TTTTTAA-T-TTCA-TTTT
66 -CT-CGAAT-T-TTG-A-GGCGAAG--CT-GT-T-ACA-GAATCAAAGATAAAGTATAAATTTTT
* * * *
43278813 ATATA--TTGAAACTAGAATTTTGAGACA
119 A-AGAGGTT-AAAATGGAAATTT---ACA
* * * * * * *** ** *** *
43278840 AAGT-CTG-TTA-CGAAATTATAGATGAAGTAT-A-AATTTTTAA----AAGGTTAAA-ATGGAA
1 ATGTGATGCATAGCGAAGTTCTCG-TGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAA
* * ** * * * ** ** * * *
43278895 ATTTACCATATGATGCATAGCAAACTTCTCGGGTTTTATTGTTCTTCTTAAGATATAGTGTAAAT
65 A-CT-CGA-ATTTTG-A-GGCGAA--GCT---G--TTACAG--AATC-AAAGATAAAGTATAAAT
*
43278960 TTTTAATAGGTTAAAATGGAAATTTACA
115 TTTTAAGAGGTTAAAATGGAAATTTACA
* * *
43278988 ATGTGATGCATAGAGAAGTGCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAACATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * * * * * *
43279053 CTCGAATTTTAAGGCAAATTCCGTTACGGAATTATAGATAAATTATAAATTTTTAAGAGGTTAAA
66 CTCGAATTTTGAGGCGAA-GCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAA
* *
43279118 ATAGAAATTTACC
130 ATGGAAATTTACA
* * * * * *
43279131 ATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTTTTTTATTTAATTTCATTTTTAAATATTAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATG-ATTCTT-TTTAATTTCATTTTTAAATATTGA
* * ** * * * * * * * *
43279196 AATTCAAATTTCAAGACTAAGTCGGGTACAAAAT--AATATAAAGTATAATTTTTTAAAAGGTTA
64 AACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
**
43279259 AAACAGAAATTTACCA
128 AAATGGAAATTTA-CA
** * * * * * *
43279275 A-GTGACACATAACAAACTTCTCTTGTCTTATGATTCTTTTTAATTTCATTTTTCACTATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * * *
43279339 CTCGAATTTTGCGGCGAA-CTCCGTTACAAAATGAATGATAAAGTATAAATTTTTAAGAGGTTAA
66 CTCGAATTTTGAGGCGAAGCT--GTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
*
43279403 AATGGAAATTTACC
129 AATGGAAATTTACA
* * * * *
43279417 ATGTGATGCATAGCAAACTTCTAGTGTTTTATGATAT-TTTTAAATTTCATTTTTAAATA-TGAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTTAATTTCATTTTTAAATATTG-A
* * * * * * * * **
43279480 AATTTGAATTTCGAGGCAAAGTCGGTTACAAAATCAAAGATACAGTATAAATTTTTGACTGGTTA
64 AACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
*
43279545 AAATGGAAATTTAAA
128 AAATGGAAATTTACA
* * * * * * *
43279560 ATGTGATGCATAGCAAAGTTCTTGTGTCTTTTGATTGTTTTAAAGTT-ATTTATAAATATTGAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
* * *
43279624 CTCGAATTTTGAGGCGAA-CTCCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGTGGTTAA
66 CTCGAATTTTGAGGCGAAGCT--GTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAA
*
43279688 AATGGAAATTTACC
129 AATGGAAATTTACA
* ** * * *
43279702 ATGTGATGCATGGAAAACTTCTCGTGT-TATATGAATCTTTTTAATTTCATTTTTAAATATTAAA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCT-TATGATTCTTTTTAATTTCATTTTTAAATATTGAA
* * * * * *
43279766 ACTCAAATTTCGTGGCGAAG-TCGATTACAGATTCAAAGATAAAGTATAAACTTTTAAAAGGTTA
65 ACTCGAATTTTGAGGCGAAGCT-G-TTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
*
43279830 AAATGAAAATTTACA
128 AAATGGAAATTTACA
* * * * *
43279845 ATGTGAAGTAGAGCGAAGTTCTTGTGTCTTATGATAT-TTTTTAATTTTCATTTCTAAATATTGA
1 ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTTAA-TTTCATTTTTAAATATTGA
* * * ** * *
43279909 AACTCGAATTTTGTGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAAACTTTGAGAGGTTC
64 AACTCGAATTTTGAGGCGAAG-CTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTA
*
43279974 AAATGGAAATTTACC
128 AAATGGAAATTTACA
*
43279989 ATGTGATGCATAGCTAAGTTC
1 ATGTGATGCATAGCGAAGTTC
43280010 AAAGATAAAG
Statistics
Matches: 1954, Mismatches: 382, Indels: 227
0.76 0.15 0.09
Matches are distributed among these distances:
130 96 0.05
131 21 0.01
139 72 0.04
140 39 0.02
141 52 0.03
142 357 0.18
143 744 0.38
144 284 0.15
145 68 0.03
146 71 0.04
147 9 0.00
148 34 0.02
149 14 0.01
150 16 0.01
151 37 0.02
152 16 0.01
153 6 0.00
154 3 0.00
155 2 0.00
156 7 0.00
157 6 0.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (142 bp):
ATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGAAA
CTCGAATTTTGAGGCGAAGCTGTTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAA
TGGAAATTTACA
Found at i:43277993 original size:285 final size:283
Alignment explanation
Indices: 43277417--43280009 Score: 1600
Period size: 285 Copynumber: 9.1 Consensus size: 283
43277407 TAACAGATTC
* ** * * *
43277417 ATGTGATGCATGGCAAACTTCTCGTGTTTTATGATTATTTTTAATTTCATTTTTAAATATTAAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAA
* * * * * * *
43277482 TTCAAATTTTGAGGCGAAATTCG-GTACGGAATCAAATATAAAGTATAAATTTTTAATAGGTTAA
65 CTCGAATTTTGAGGC-AAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
* * * *
43277546 AATAGAAATTTACAATGTGATGCAGAGCGAAGTTCTTGTGTCTTATGATTCTTTTTAATTTCATT
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCATT
* * * *
43277611 TTTAAATATTGAAACTT-GAATTTTGAGGCGAAG-CTGTTACGGAATCAAAGATAAAGTATAAAA
193 TTTAAATATT-AAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTAT-AAA
* *
43277674 TTTATT--GAGGTTACAATCG-ATATTTACC
256 TTT-TTAAGAGGTTA-AATGGTA-ATTTACA
*
43277702 ATGTGATGCATAGTGAAGTTCTTATGTCTTATGATATTTTTTAAAATTTCATTTTTAAATATTAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGAT-TTTTTT--AATTTCATTTTTAAATATTAA
* * * *
43277767 AACTCGAATTTAT-AGGCAAATTCGGCTACAGAAATCATAGATATAGTATAAAGTTTTATGAGGT
63 AACTCGAATTT-TGAGGCAAATTCGACTACAG-AATCAAAGATAAAGTATAAAGTTTTAAGAGGT
* * * * **
43277831 TAAAATTGAAATTTACCATTTGATGCATAGTGAAGTTCTCGTGTTTTATGA-TAATTTT-TTT-A
126 TAAAATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTATTTCA
* * *
43277893 TTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTCAGTTATAGAATCAAAGATAAAGTATAAA
191 TTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAA
43277958 TTTTTAAGAGGTTGAAATGGTAATTTACA
256 TTTTTAAGAGGTT-AAATGGTAATTTACA
* * *
43277987 ATGTGATGCTTAGTGAAGTTCTCGTGTCTTATG---------A-TTC-TTTTTAAATATTGAAAC
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATTTTTTTAATTTCATTTTTAAATATTAAAAC
* * * * * *
43278041 TC-AATTTTGAGGCACAATCCGTC-ACAGAATTAAAGATAAAATATAAATTTTTAAGAGGTTGAA
66 TCGAATTTTGAGGCA-AATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAAA
* * * *
43278104 ATGGTAATTTACAATGTGATGCTTAGTGAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTT
130 ATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCATTT
* * * * * ** * * * *
43278169 TTAAATATTGAAACTCAAACTTTAAGGCTAAGTCCA-TTATGGAATTAAAGTTAAAATATAAAGT
194 TTAAATATTAAAATTCAAATTTTGAGGCGAAGT-CAGTTACAGAATCAAAGATAAAGTATAAATT
*
43278233 GTTAAGAGGTTAAAGTGGTAATTTACA
258 TTTAAGAGGTTAAA-TGGTAATTTACA
* * *
43278260 ATGTGATGCGTAGTGAAGTTCTCATGTCTTATGATTCTTTTTAATTTTA-TTTTAAATATTGAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAA
* * * *
43278324 CTCGAACTTTGAGGCGAAGTTC-ATTAC-GAAATTAAAGATAAAGTATAAAGTTTTAAGAGGTTA
65 CTCGAATTTTGAGGC-AAATTCGACTACAG-AATCAAAGATAAAGTATAAAGTTTTAAGAGGTTA
* * * * * * * * * *
43278387 AATTGGAAATATACCATGTAATGCATAGC-AGACTTCTCATGTTTTCTAATTTTTTTTAATTTCG
128 AAATGGAAATTTACCATGTGATGCATAGCGA-AGTTCTCGTGTCTTATGATTCTTTTT-ATTTCA
** * *
43278451 TTTTTAAATATTAAAATTTGAATTTTGAGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAA
191 TTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAA
* * *
43278516 CTTTTAAAAGGTTAAAATGGAAATTTACA
256 TTTTTAAGAGGTT-AAATGGTAATTTACA
* * * * * *
43278545 ATGTGATGTAGAGCGAAGCTCTCGTGTCTTATGATATTTTTTAATTTTCATTTCTAAATATTAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATGAT-TTTTTTAA-TTTCATTTTTAAATATTAAA
* * * * * * *
43278610 ACTCGAATTTTGTGGCGAAGTCGATTACAGAATCAAAGATAAAGTATAAAATTTTGAGAGGTTCA
64 ACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
* * * *
43278675 AATGGAAATTTACCATGTGATGCATAGCGAAGCTCTCATGTCTTATGATTCTTTTTAATTTAAAT
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCATT
* ** * * * * *** *
43278740 ATTAAATATTAAAATTTACAATATGATGCATAGCAAAGTTCTCGTGTAATATGAATC--TTTTTA
193 TTTAAATATTAAAA-TT-CAA-ATTTTG-A-GGCGAAG-TC-AGT-T-ACA-GAATCAAAGATAA
** * *
43278803 A-T-TTCA-TTTTATATA--TTGAAACTAG-AATTTTGAGACA
248 AGTATAAATTTTTA-AGAGGTT-AAA-TGGTAA-TTT---ACA
* * * * * * * *** ** *** *
43278840 AAGT-CTG-TTA-CGAAATTATAGATGAAGTAT-AAATTTTTAA----AAGGTTAAA-ATGGAAA
1 ATGTGATGCATAGTGAAGTTCT-CATGTCTTATGATTTTTTTAATTTCATTTTTAAATAT-TAAA
** * ** * ** ** ** * * * *
43278896 TTTACCATATGATGCATAGCAAACTTCTCGGGTTTTATTGTTCTTCTTAAGATATAGTGTAAATT
64 ACT-CGA-ATTTTG-A-GGCAAA--T-TC--G-ACTACAG--AATC-AAAGATAAAGTATAAAGT
* * * *
43278961 TTTAATAGGTTAAAATGGAAATTTACAATGTGATGCATAGAGAAGTGCTCGTGTCTTATGATTCT
116 TTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCT
* * * * * * * * * * *
43279026 TTTTAATTTCATTTTTAAACATTGAAACTCGAATTTTAAGGCAAATTCCGTTACGGAATTATAGA
181 TTTT-ATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGA
* * * *
43279091 TAAATTATAAATTTTTAAGAGGTTAAAATAGAAATTTACC
245 TAAAGTATAAATTTTTAAGAGGTT-AAATGGTAATTTACA
** * * * *
43279131 ATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTTTTTTATTTAATTTCATTTTTAAATATTAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCTTATG--ATTTT-TTTAATTTCATTTTTAAATATTAA
* * ** * * * ** * * ** *
43279196 AATTCAAATTTCAAGACTAAGTCGGGTACAAAAT--AATATAAAGTATAATTTTTTAAAAGGTTA
63 AACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTA
** * ** * * * *
43279259 AAACAGAAATTTACCAAGTGACACATAACAAACTTCTCTTGTCTTATGATTCTTTTTAATTTCAT
128 AAATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTT-ATTTCAT
* * * * * * * * * * *
43279324 TTTTCACTATTGAAACTCGAATTTTGCGGCGAACTCCGTTACAAAATGAATGATAAAGTATAAAT
192 TTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAAT
* *
43279389 TTTTAAGAGGTTAAAATGGAAATTTACC
257 TTTTAAGAGGTT-AAATGGTAATTTACA
** * * * *
43279417 ATGTGATGCATAGCAAACTTCT-AGTGTTTTATGATATTTTTAAATTTCATTTTTAAATATGAAA
1 ATGTGATGCATAGTGAAGTTCTCA-TGTCTTATGAT-TTTTTTAATTTCATTTTTAAATATTAAA
* * * * ** * * * * **
43279481 ATTTGAATTTCGAGGCAAAGTCGGTTACAAAATCAAAGATACAGTATAAATTTTTGACTGGTTAA
64 ACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
** * * * * * *
43279546 AATGGAAATTTAAAATGTGATGCATAGCAAAGTTCTTGTGTCTTTTGATTGTTTTAAAGTT-ATT
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTT-TATTTCATT
* * * * * * * *
43279610 TATAAATATTGAAACTCGAATTTTGAGGCGAACTCCGTTACGGAATTAAAGATAAAGTATAAATT
193 TTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAATT
* * *
43279675 TTTAAGTGGTTAAAATGGAAATTTACC
258 TTTAAGAGGTT-AAATGGTAATTTACA
* ** * * *
43279702 ATGTGATGCATGGAAAACTTCTCGTGT-TATATGAATCTTTTTAATTTCATTTTTAAATATTAAA
1 ATGTGATGCATAGTGAAGTTCTCATGTCT-TATG-ATTTTTTTAATTTCATTTTTAAATATTAAA
* * * * * * * * *
43279766 ACTCAAATTTCGTGGCGAAGTCGATTACAGATTCAAAGATAAAGTATAAACTTTTAAAAGGTTAA
64 ACTCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAA
* * * * * *
43279831 AATGAAAATTTACAATGTGAAGTAGAGCGAAGTTCTTGTGTCTTATGATAT-TTTTTAATTTTCA
129 AATGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGAT-TCTTTTT-A-TTTCA
* * * * * * *
43279895 TTTCTAAATATTGAAACTCGAATTTTGTGGCGAAGTCGGTTACAAAATCAAAGATAAAGTATAAA
191 TTTTTAAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAA
** * * *
43279960 ACTTTGAGAGGTTCAAATGGAAATTTACC
256 TTTTTAAGAGGTT-AAATGGTAATTTACA
43279989 ATGTGATGCATAGCT-AAGTTC
1 ATGTGATGCATAG-TGAAGTTC
43280010 AAAGATAAAG
Statistics
Matches: 1821, Mismatches: 378, Indels: 216
0.75 0.16 0.09
Matches are distributed among these distances:
269 71 0.04
270 19 0.01
271 24 0.01
272 9 0.00
273 108 0.06
274 2 0.00
283 8 0.00
284 107 0.06
285 547 0.30
286 292 0.16
287 271 0.15
288 79 0.04
289 6 0.00
290 9 0.00
291 26 0.01
292 29 0.02
293 27 0.01
294 29 0.02
295 19 0.01
296 11 0.01
297 14 0.01
298 4 0.00
299 95 0.05
300 2 0.00
301 11 0.01
302 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (283 bp):
ATGTGATGCATAGTGAAGTTCTCATGTCTTATGATTTTTTTAATTTCATTTTTAAATATTAAAAC
TCGAATTTTGAGGCAAATTCGACTACAGAATCAAAGATAAAGTATAAAGTTTTAAGAGGTTAAAA
TGGAAATTTACCATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCTTTTTATTTCATTTTT
AAATATTAAAATTCAAATTTTGAGGCGAAGTCAGTTACAGAATCAAAGATAAAGTATAAATTTTT
AAGAGGTTAAATGGTAATTTACA
Found at i:43278911 original size:213 final size:212
Alignment explanation
Indices: 43278536--43279199 Score: 681
Period size: 229 Copynumber: 3.0 Consensus size: 212
43278526 GTTAAAATGG
* * * *
43278536 AAATTTACAATGTGATGTAGAGCGAAGCTCTCGTGTCTTATGATAT-TTTTTAATTTTCATTTCT
1 AAATTTACAATGTGATGCATAGCAAAGTTCTCGTGTCTTATGA-ATCTTTTTAA-TTTCATTT-T
* * * * * *
43278600 AAATATTAAAACTCGAATTTTGTGGCGAAGTCGATTAC-AGAATCAAAGATAAAGTATAAAATTT
63 AAATATTGAAACTCGAATTTTGAGGCAAAGTCG-TTACGA-AATTATAGATAAAGTATAAATTTT
* * * * *
43278664 TGAGAGGTTCAAATGGAAATTTACCATGTGATGCATAGCGAAGC-TCTCATGTCTTATGATTCTT
126 TAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC-AAACTTCTCGTGTTTTATG-TTCTT
*
43278728 -TTTAATTTAAATATTAAATATTA
189 ATTTAATTTAAATTTTAAATATTA
* ** *
43278751 AAATTTACAATATGATGCATAGCAAAGTTCTCGTGTAATATGAATCTTTTTAATTTCATTTTATA
1 AAATTTACAATGTGATGCATAGCAAAGTTCTCGTGTCTTATGAATCTTTTTAATTTCATTTTAAA
* * * *
43278816 TATTGAAACTAGAATTTTGAGACAAAGTCTGTTACGAAATTATAGATGAAGTATAAATTTTTAAA
66 TATTGAAACTCGAATTTTGAGGCAAAGTC-GTTACGAAATTATAGATAAAGTATAAATTTTTAAG
* * *
43278881 AGGTTAAAATGGAAATTTACCATATGATGCATAGCAAACTTCTCGGGTTTTATTGTTCTTCTTAA
130 AGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTA-TGTTCTTATT--
* *
43278946 GATATAGTGTAAATTTTTAATAGGTTAAAA
192 --TA-A-TTTAAATTTTAAATA--TT---A
* *
43278976 TGGAAATTTACAATGTGATGCATAG-AGAAGTGCTCGTGTCTTATGATTCTTTTTAATTTCATTT
1 ---AAATTTACAATGTGATGCATAGCA-AAGTTCTCGTGTCTTATGAATCTTTTTAATTTCA-TT
* * * * *
43279040 TTAAACATTGAAACTCGAATTTTAAGGCAAATTCCGTTACGGAATTATAGATAAATTATAAATTT
61 TTAAATATTGAAACTCGAATTTTGAGGCAAAGT-CGTTACGAAATTATAGATAAAGTATAAATTT
* *
43279105 TTAAGAGGTTAAAATAGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTTTTT
125 TTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATG--TTCT
* *
43279170 TATTTAATTTCATTTTTAAATATTA
188 TATTTAATTTAAATTTTAAATATTA
43279195 AAATT
1 AAATT
43279200 CAAATTTCAA
Statistics
Matches: 372, Mismatches: 52, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
212 3 0.01
213 100 0.27
214 16 0.04
215 43 0.12
216 5 0.01
218 2 0.01
219 2 0.01
220 12 0.03
222 4 0.01
224 11 0.03
225 2 0.01
226 2 0.01
227 1 0.00
228 53 0.14
229 109 0.29
230 7 0.02
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (212 bp):
AAATTTACAATGTGATGCATAGCAAAGTTCTCGTGTCTTATGAATCTTTTTAATTTCATTTTAAA
TATTGAAACTCGAATTTTGAGGCAAAGTCGTTACGAAATTATAGATAAAGTATAAATTTTTAAGA
GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGTTCTTATTTAAT
TTAAATTTTAAATATTA
Found at i:43280036 original size:66 final size:66
Alignment explanation
Indices: 43279942--43280075 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 66
43279932 GGTTACAAAA
* * * * * *
43279942 TCAAAGATAAAGTATAAAACTTTGAGAGGTTCAAATGGAAATTTACCATGTGATGCATAGCTAAG
1 TCAAAGATAAAGTATAAAACTTTAAGAGGCTAAAATGGAAATTTACAATGTGATGAATAGCGAAG
43280007 T
66 T
* ** * *
43280008 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAAACTTTAAGAGGCTAAAATGGAAATTTACAATGTGATGAATAGCGAAG
43280073 T
66 T
43280074 TC
1 TC
43280076 TCGTGTGTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (66 bp):
TCAAAGATAAAGTATAAAACTTTAAGAGGCTAAAATGGAAATTTACAATGTGATGAATAGCGAAG
T
Found at i:43280163 original size:143 final size:142
Alignment explanation
Indices: 43280008--43281898 Score: 751
Period size: 142 Copynumber: 13.0 Consensus size: 142
43279998 ATAGCTAAGT
* * * * * * * *
43280008 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
43280073 TTCTCGTGTGTTATGATTCTTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGGGA
66 TTCTCGTGTTTTATGATTCTTTTTAATTTAA-TTTTTAAATATTAAAACTCAAATTTTG-AGGCA
* *
43280137 AGTCTGTTATGGAA
129 AGTCGGTTATAGAA
* * * * *
43280151 TTAAAGAAAAAGTTTAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
43280216 TTCTCATGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAT
66 TTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAA-
43280280 GTCGGTTATAGAA
130 GTCGGTTATAGAA
* * * *
43280293 TCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAATTTA-TATGTGATGTATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
43280356 TTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATATTAAAATTTAAATTTTGAGGTCA
66 TTCTCGTGTTTTATGA-TTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
*
43280421 AGTCGGTTATCGAA
129 AGTCGGTTATAGAA
* * * * * *
43280435 TCAAAGTTAAAGTATAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * *
43280500 TTCTCGTGTATTATGAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAA
66 TTCTCGTGTTTTATGATTC-TTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
*** **
43280565 AGTCCAATACGGAA
129 AGTCGGTTATAGAA
* * * *
43280579 TTATAA-ATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCA-AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
* * * * ** * *
43280643 CTTCTCGGGTTTGATTATTCTTCTTAAGATATTCTAAATTTTTAAGACGTTAAAA-TGAAAATTT
65 CTTCTCGTGTTTTATGATTCTT-TT--TA-ATT-T-AATTTTTAA-ATATTAAAACTCAAATTTT
* *
43280707 -A--CAATGT-GATGCATAGAGA
123 GAGGCAA-GTCGGT-TATAGA-A
** * *** * * ** *** *
43280726 --AGTGGTCGTGTCTTATGATACTTTTTAACTTCATTTTTAAATATTG-AAACCCA-AATATTGA
1 TCAAAGATAAAG---TAT-A-AATTTTTAA---GA-GGTTAAA-A-TGAAAATTTACAAT-GTGA
* * * * ** * ** * ** *** *
43280787 GGCAAAGC--CCGTT-ACG-GAATAATAGATAAAGTATAAAATTTTAAGAGGTTAAA-ATGAAAA
54 TGCATAGCAAAC-TTCTCGTGTTTTAT-GAT--TCTTTTTAA-TTTAA-TTTTTAAATATTAAAA
* * * * * * * **
43280847 TTTACCATGTGATGCATAGCATACTTCTTGTGTTTTATGA
113 CTCA-AAT-T-TTG-A-GGCA-A-GTC--G-GTTATAGAA
****** ** ** ** * *
43280887 TTTTTTTTAAA-T-TTCATTTTTAA-ATATTAAAATTCAAATTT-CGAGACTAAGTCGGGTACAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTAC-A-A-T--GT--GATGCA-
* * **** * * ** * ** ** *
43280948 AATCAAA-TAT-AAAAG-TATA-CATT-TTTAAAAGGTTAAAATGAAAAT-TTGAAACTCAAATT
58 TAGCAAACT-TCTCGTGTTTTATGATTCTTTTTAA-TTTAATTTTTAAATATTAAAACTCAAATT
* * * *
43281007 TTGAGGTGAACTCCGTTA-CGAAA
121 TTGAGG-CAAGTCGGTTATAG-AA
* * * * ** *
43281030 TTAAAGATATAGTATAAATTTTTAAGAGTTTAAAAT-AGAAATATACCGTGTGATGCATAGCAAT
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGA-AAATTTACAATGTGATGCATAGCAAA
* * * *
43281094 CTTCTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCAA
65 CTTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
** * *
43281159 AGTCAATTACATAA
129 AGTCGGTTATAGAA
* * * * * * *
43281173 TCAAAGATACAGTATAAATTTTTAACAAGTTAAAATGGAAATTTAAAATGTGATGTATAGCAAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * * * * * *
43281238 TTCTCGTGTCTT-CGAATTGTTTTAAATTT-ATTTATAAATATTGAAATTCGAATTCTGAGCCGA
66 TTCTCGTGTTTTATG-ATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
* *
43281301 ACTCCGG-TATGGAA
129 AGT-CGGTTATAGAA
* * * * * * * * * *
43281315 TTAAAGATAAAGTATAAACTTTTAAGTGGTTAATATGGAAATTTACCATGTAACGCATGGAAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* ** * * * * * ** *
43281380 TTCTCATGTAATATAAATCTTTTTAATTTCATTTTTAAATATTTAAACTCGAACGTCGAGGCGAA
66 TTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-AA
* * *
43281445 GTCAGTTAAAAAA
130 GTCGGTTATAGAA
* * * * *
43281458 TCAAAGAAAAACTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAATTTATAATTTGATGAATA
1 TCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATA
* * * * *
43281523 GCGAAGTTCTCGTG-TTAATGATTCTTTTTAATTTAATTTTTTAATATTAAAACTCGAATTTTGA
60 GCAAACTTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTG-
* ** *
43281587 AGGGAAGTCTATTATGGAA
124 AGGCAAGTCGGTTATAGAA
* * * * * *
43281606 TTAAAGAAAAAGTTTAAATATTTAAGAGTTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
43281671 TTCTCATGTTTTATGATTTTTTTTAATTTCATTTTTTTAAATATTAAAATTCAAATTTAGAGGCA
66 TTCTCGTGTTTTATGATTCTTTTTAATTT-A-ATTTTTAAATATTAAAACTCAAATTTTGAGGCA
43281736 ACGTCGGTTATAGAA
129 A-GTCGGTTATAGAA
* * * *
43281751 TCAAAGATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTA-TATGTGATGCATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * ** *
43281815 TTCTTGTGTTTTATGTTTTTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGTAA
66 TTCTCGTGTTTTATGATTCTTTTT-AATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
43281880 AGTCGGTTATCA-AA
129 AGTCGGTTAT-AGAA
43281894 TCAAA
1 TCAAA
43281899 ATCAAAATTT
Statistics
Matches: 1280, Mismatches: 364, Indels: 208
0.69 0.20 0.11
Matches are distributed among these distances:
139 5 0.00
140 38 0.03
141 33 0.03
142 306 0.24
143 305 0.24
144 194 0.15
145 93 0.07
146 22 0.02
147 7 0.01
148 60 0.05
149 77 0.06
150 23 0.02
151 16 0.01
152 20 0.02
153 18 0.01
154 12 0.01
155 16 0.01
156 14 0.01
157 4 0.00
158 6 0.00
159 4 0.00
161 1 0.00
162 3 0.00
163 3 0.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (142 bp):
TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
TTCTCGTGTTTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAAG
TCGGTTATAGAA
Found at i:43280317 original size:142 final size:141
Alignment explanation
Indices: 43280008--43281898 Score: 723
Period size: 143 Copynumber: 13.0 Consensus size: 141
43279998 ATAGCTAAGT
* * * * * * * *
43280008 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
43280073 TTCTCGTGTGTTATGATTCTTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGGGA
66 TTCTCGTGTTTTATGATT-TTTTTAATTTAA-TTTTTAAATATTAAAACTCAAATTTTG-AGGCA
*
43280137 AGTCTGTTATGGAA
128 AGTCGGTTATGGAA
* * * * *
43280151 TTAAAGAAAAAGTTTAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
43280216 TTCTCATGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAATG
66 TTCTCGTGTTTTATGATTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAA-G
*
43280281 TCGGTTATAGAA
130 TCGGTTATGGAA
* * * *
43280293 TCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAATTTA-TATGTGATGTATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * *
43280356 TTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATATTAAAATTTAAATTTTGAGGTCA
66 TTCTCGTGTTTTATGA--TTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
*
43280421 AGTCGGTTATCGAA
128 AGTCGGTTATGGAA
* * * * * *
43280435 TCAAAGTTAAAGTATAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
43280500 TTCTCGTGTATTATGAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAA
66 TTCTCGTGTTTTATG-AT-TTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
*** *
43280565 AGTCCAATACGGAA
128 AGTCGGTTATGGAA
* * * *
43280579 TTATAA-ATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCA-AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
* * * * ** * *
43280643 CTTCTCGGGTTTGATTATTCTTCTTAAGATATTCTAAATTTTTAAGACGTTAAAA-TGAAAATTT
65 CTTCTCGTGTTTTATGATT-TT-TT--TA-ATT-T-AATTTTTAA-ATATTAAAACTCAAATTTT
* *
43280707 -A--CAATGT-GATGCATAGAGAA
122 GAGGCAA-GTCGGT-TAT-G-GAA
**** **** * * ** *** * *
43280727 GTGGTCG-TGTCTTATGATACTTTTTAACTTCATTTTTAAATATTG-AAACCCA-AATATTGAGG
1 -TCAAAGATAAAGTAT-A-AATTTTTAA---GA-GGTTAAA-A-TGAAAATTTACAAT-GTGATG
* * * ** * * * ** *** * *
43280789 CAAAGC--CCGTT-ACG-GAATAATAGATAAAGTATAAAATTTTAAGAGGTTAAA-ATGAAAATT
56 CATAGCAAAC-TTCTCGTGTTTTAT-GAT---TTTTTTAA-TTTAA-TTTTTAAATATTAAAACT
* * * * * * ***
43280849 TACCATGTGATGCATAGCATACTTCTTGTGTTTTATGA
114 CA-AAT-T-TTG-A-GGCA-A-GTC--G-GTTATGGAA
****** ** ** ** * *
43280887 TTTTTTTTAAA-T-TTCATTTTTAA-ATATTAAAATTCAAATTT-CGAGACTAAGTCGGGTACAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTAC-A-A-T--GT--GATGCA-
* * **** * * ** * ** ** *
43280948 AATCAAA-TAT-AAAAG-TATA-CATTTTTAAAAGGTTAAAATGAAAAT-TTGAAACTCAAATTT
58 TAGCAAACT-TCTCGTGTTTTATGATTTTTTTAA-TTTAATTTTTAAATATTAAAACTCAAATTT
* * * * *
43281008 TGAGGTGAACTCCGTTACGAAA
121 TGAGG-CAAGTCGGTTATGGAA
* * * * ** *
43281030 TTAAAGATATAGTATAAATTTTTAAGAGTTTAAAAT-AGAAATATACCGTGTGATGCATAGCAAT
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGA-AAATTTACAATGTGATGCATAGCAAA
* * *
43281094 CTTCTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCAA
65 CTTCTCGTGTTTTATGA-TTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
** ***
43281159 AGTCAATTACATAA
128 AGTCGGTTATGGAA
* * * * * * *
43281173 TCAAAGATACAGTATAAATTTTTAACAAGTTAAAATGGAAATTTAAAATGTGATGTATAGCAAAG
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * * * * * *
43281238 TTCTCGTGTCTT-CGAATTGTTTTAAATTT-ATTTATAAATATTGAAATTCGAATTCTGAGCCGA
66 TTCTCGTGTTTTATG-ATT-TTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
*
43281301 ACTCCGG-TATGGAA
128 AGT-CGGTTATGGAA
* * * * * * * * * *
43281315 TTAAAGATAAAGTATAAACTTTTAAGTGGTTAATATGGAAATTTACCATGTAACGCATGGAAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* ** * * * * * ** *
43281380 TTCTCATGTAATATAAATCTTTTTAATTTCATTTTTAAATATTTAAACTCGAACGTCGAGGCGAA
66 TTCTCGTGTTTTAT-GATTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-AA
* ***
43281445 GTCAGTTAAAAAA
129 GTCGGTTATGGAA
* * * * *
43281458 TCAAAGAAAAACTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAATTTATAATTTGATGAATA
1 TCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATA
* * * * *
43281523 GCGAAGTTCTCGTG-TTAATGATTCTTTTTAATTTAATTTTTTAATATTAAAACTCGAATTTTGA
60 GCAAACTTCTCGTGTTTTATGATT-TTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTG-
* **
43281587 AGGGAAGTCTATTATGGAA
123 AGGCAAGTCGGTTATGGAA
* * * * * *
43281606 TTAAAGAAAAAGTTTAAATATTTAAGAGTTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * *
43281671 TTCTCATGTTTTATGATTTTTTTTAATTTCATTTTTTTAAATATTAAAATTCAAATTTAGAGGCA
66 TTCTCGTGTTTTATGA-TTTTTTTAATTT-A-ATTTTTAAATATTAAAACTCAAATTTTGAGGCA
*
43281736 ACGTCGGTTATAGAA
128 A-GTCGGTTATGGAA
* * * *
43281751 TCAAAGATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTA-TATGTGATGCATTGCAAAC
1 TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * ** *
43281815 TTCTTGTGTTTTATGTTTTTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGTAA
66 TTCTCGTGTTTTATG-ATTTTTTT-AATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
**
43281880 AGTCGGTTATCAAA
128 AGTCGGTTATGGAA
43281894 TCAAA
1 TCAAA
43281899 ATCAAAATTT
Statistics
Matches: 1279, Mismatches: 362, Indels: 214
0.69 0.20 0.12
Matches are distributed among these distances:
139 5 0.00
140 38 0.03
141 31 0.02
142 307 0.24
143 308 0.24
144 191 0.15
145 91 0.07
146 20 0.02
147 9 0.01
148 61 0.05
149 78 0.06
150 23 0.02
151 16 0.01
152 20 0.02
153 18 0.01
154 12 0.01
155 16 0.01
156 14 0.01
157 4 0.00
158 6 0.00
159 6 0.00
160 2 0.00
162 2 0.00
163 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (141 bp):
TCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
TTCTCGTGTTTTATGATTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAAGT
CGGTTATGGAA
Found at i:43280556 original size:144 final size:143
Alignment explanation
Indices: 43280008--43280654 Score: 691
Period size: 144 Copynumber: 4.5 Consensus size: 143
43279998 ATAGCTAAGT
* * * * * * * * *
43280008 TCAAAGATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAG
1 TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
43280073 TTCTCGTGTGTTATGATTC-TTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGGG
66 TTCTCGTGTTTTATGAATCTTTTTTAATTTAA-TTTTTAAATATTAAAACTCAAATTTTG-AGGC
* *
43280136 AAGTCTGTTATGGAA
129 AAGTCGGTTATCGAA
* * * *
43280151 TTAAAGAAAAAGTTTAAA-TATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCAAAGATAAAGTATAAACT-TTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
* * * *
43280215 CTTCTCATGTTTTATG-AT-TTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCA
65 CTTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCA
*
43280278 ATGTCGGTTATAGAA
130 A-GTCGGTTATCGAA
* * * * *
43280293 TCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAATTTA-TATGTGATGTATTGCAAAC
1 TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
43280356 TTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATATTAAAATTTAAATTTTGAGGTCA
66 TTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGG-CA
43280421 AGTCGGTTATCGAA
130 AGTCGGTTATCGAA
* * * * *
43280435 TCAAAGTTAAAGTATAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAG
1 TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
* * * * *
43280500 TTCTCGTGTATTATGAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAA
66 TTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGC-A
***
43280565 AGTCCAATA-CGGAA
130 AGTCGGTTATC-GAA
* * *
43280579 TTATAA-ATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
1 TCA-AAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAA
*
43280643 CTTCTCGGGTTT
65 CTTCTCGTGTTT
43280655 GATTATTCTT
Statistics
Matches: 421, Mismatches: 70, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
140 30 0.07
141 29 0.07
142 135 0.32
143 87 0.21
144 138 0.33
145 2 0.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (143 bp):
TCAAAGATAAAGTATAAACTTTTAAGAGGTTAAAATGAAAATTTACAATGTGATGCATAGCAAAC
TTCTCGTGTTTTATGAATCTTTTTTAATTTAATTTTTAAATATTAAAACTCAAATTTTGAGGCAA
GTCGGTTATCGAA
Found at i:43280591 original size:637 final size:640
Alignment explanation
Indices: 43279375--43280994 Score: 1757
Period size: 638 Copynumber: 2.5 Consensus size: 640
43279365 CAAAATGAAT
* * * *
43279375 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTA
1 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTC
* * * * * * *
43279440 GTGTTTTATGATAT-TTTTAAAT-TTCATTTTTAAATATGAAAATTTGAATTTCGAGGCAAAGTC
66 GTGTCTTATGAT-TCTTTTTAATCTAC-TTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
* ** * * * * ** * **
43279503 GGTTACAAAATCAAAGATACAGTATAAATTTTTGACTGGTTAAAATGGAAATTTAAAATGTGATG
129 CGTTACGGAATTAAAGATAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
* * * * * * *
43279568 CATAGCAAAGTTCTTGTGTCTTT-TGATTGTTTTAAAGTT-ATTTATAAATATTGAAACTCGAAT
194 CATAGCAAACTTCTTGTGT-TTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAATTCAAAT
* * * * * ** *
43279631 TTTGAGGCGAACTCCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGTGGTTAAAATGGAAA
257 TTCGAGGCGAAGTCGGTTACAGAATCAAAGATAAAGTATAAATTTTTAA-AAGTTAAAATGAAAA
* *
43279696 TTTACCATGTGATGCATGGAAAACTTCTCGTGTTATATGAATCTTTTTAATTTCATTTTTAAATA
321 TTTACCATGTGATGCATGGAAAACTTCTCGTGTTATATGAATCTTTTTAATTTAATTATTAAATA
* *
43279761 TTAAAACTCAAATTTCGTGGCGAAGTCGATTACAGATTCAAAGATAAAGTATAAACTTTTAAAAG
386 TTAAAACTCAAATTTCGAGGCGAAGTCGATTACAGAATCAAAGATAAAGTATAAACTTTTAAAAG
* * * *
43279826 GTTAAAATGAAAATTTACAATGTGAAGTAGAGCGAAGTTCTTGTGTCTTATGATATTTTTTAATT
451 GTTAAAATGAAAATTTACAATATGAAGCAGAGCGAAGTTCTCGTGTATTATGATATTTTTTAATT
* * ***
43279891 TTCATTTCTAAATATTGAAACTCGAATTTTGTGGCGAAGTCGGTTACAAAATCAAAGATAAAGTA
516 TTCATTTCTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACAAAATCAAAGATAAAGTA
* * * * *
43279956 TAAAAC-TTTGAGAGGTTCAAATGGAAATTTACCATGTGATGCATAGCTAA-GT-TC-AAA
581 T-AAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACGTCTCGAAA
* * * * *
43280013 GATAAAGTATATATTTTTAAGAGGCTAAAATGGAAATTTATAATTTGATGAATAGCGAAGTTCTC
1 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTC
* *
43280078 GTGTGTTATGATTCTTTTTAATCTAACTTTTT-AATATTAAAACTCGAATTTTGAAGG-GAAGTC
66 GTGTCTTATGATTCTTTTTAATCT-ACTTTTTAAATATTAAAACTCGAATTTTG-AGGCAAAGTC
* * * *
43280141 TGTTATGGAATTAAAGAAAAAGTTTAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
129 CGTTACGGAATTAAAGATAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
**
43280206 CATAGCAAACTTCTCATGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTT
194 CATAGCAAACTTCTTGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTT
*
43280271 CGAGGC-AATGTCGGTTATAGAATCAAAGATAAAGTATAAATTTTTAAAAGTTAAAATGAAAATT
259 CGAGGCGAA-GTCGGTTACAGAATCAAAGATAAAGTATAAATTTTTAAAAGTTAAAATGAAAATT
* * * * * * *
43280335 TA-TATGTGATGTATTGCAAACTTCTCGTGTTTTATGATTTTTTTTTAATTTAATTATTAAATAT
323 TACCATGTGATGCATGGAAAACTTCTCGTGTTATATGA-ATCTTTTTAATTTAATTATTAAATAT
* * * * * *
43280399 TAAAATTTAAATTTTGAGGTC-AAGTCGGTTATC-GAATCAAAGTTAAAGTATAAACTTTTAAGA
387 TAAAACTCAAATTTCGAGG-CGAAGTCGATTA-CAGAATCAAAGATAAAGTATAAACTTTTAAAA
* * * * *
43280462 GGTTAAAATGGAAATTTACAATATGATGCATAGCGAAGTTCTCGTGTATTATGAATCTTTTTTAC
450 GGTTAAAATGAAAATTTACAATATGAAGCAGAGCGAAGTTCTCGTGTATTATG-ATATTTTTTAA
* ** *
43280527 TTTT-ATTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACGGAATTATAA-ATAAA
514 TTTTCATTTCTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACAAAATCA-AAGATAAA
* ***
43280590 GTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACTTCTCGGGTTT
578 GTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACGTCTC--GAAA
* *
43280655 GATTATTCTTCTTAAGATATTCTAAATTTTTAAGACGTTAAAATGAAAATTTACAATGTGATGCA
1 GA-TA--------AAG-TA---TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCA
* ** * * * * * *
43280720 TAGAGAAGTGGTCGTGTCTTATGATACTTTTTAA-CTTCATTTTTAAATATTGAAACCCAAATAT
53 TAGCGAAGTTCTCGTGTCTTATGATTCTTTTTAATCTAC-TTTTTAAATATTAAAACTCGAATTT
*
43280784 TGAGGCAAAGCCCGTTACGGAA-TAATAGATAAAGTATAAA-ATTTTAAGAGGTTAAAATGAAAA
117 TGAGGCAAAGTCCGTTACGGAATTAA-AGATAAAGTATAAATA-TTTAAGAGGTTAAAATGAAAA
*
43280847 TTTACCATGTGATGCATAGCATACTTCTTGTGTTTTATGATTTTTTTTAAATTTCATTTTTAAAT
180 TTTACCATGTGATGCATAGCAAACTTCTTGTGTTTTATGA-TTTTTTT-AATTTCATTTTTAAAT
* * * * *
43280912 ATTAAAATTCAAATTTCGAGACTAAGTCGGGTACAGAATCAAATATAAAAGTATACATTTTTAAA
243 ATTAAAATTCAAATTTCGAGGCGAAGTCGGTTACAGAATCAAAGAT-AAAGTATAAATTTTTAAA
43280977 AGGTTAAAATGAAAATTT
307 A-GTTAAAATGAAAATTT
43280995 GAAACTCAAA
Statistics
Matches: 816, Mismatches: 125, Indels: 61
0.81 0.12 0.06
Matches are distributed among these distances:
636 34 0.04
637 239 0.29
638 245 0.30
639 11 0.01
640 1 0.00
642 2 0.00
643 2 0.00
651 3 0.00
652 2 0.00
653 1 0.00
654 14 0.02
655 164 0.20
656 7 0.01
657 55 0.07
658 20 0.02
659 16 0.02
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (640 bp):
GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTC
GTGTCTTATGATTCTTTTTAATCTACTTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTCCG
TTACGGAATTAAAGATAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCA
TAGCAAACTTCTTGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCG
AGGCGAAGTCGGTTACAGAATCAAAGATAAAGTATAAATTTTTAAAAGTTAAAATGAAAATTTAC
CATGTGATGCATGGAAAACTTCTCGTGTTATATGAATCTTTTTAATTTAATTATTAAATATTAAA
ACTCAAATTTCGAGGCGAAGTCGATTACAGAATCAAAGATAAAGTATAAACTTTTAAAAGGTTAA
AATGAAAATTTACAATATGAAGCAGAGCGAAGTTCTCGTGTATTATGATATTTTTTAATTTTCAT
TTCTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACAAAATCAAAGATAAAGTATAAAC
TTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAACGTCTCGAAA
Found at i:43280850 original size:227 final size:228
Alignment explanation
Indices: 43280449--43280874 Score: 640
Period size: 227 Copynumber: 1.9 Consensus size: 228
43280439 AGTTAAAGTA
* * * *
43280449 TAAACTTTTAAGAGGTTAAAATGGAAATTTACAATATGATGCATAGCGAAGTTCTCGTGTATTAT
1 TAAACTTTTAAGACGTTAAAATGAAAATTTACAATATGATGCATAGAGAAGTGCTCGTGTATTAT
* * * * * *
43280514 GAATCTTTTTTACTTTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCAATACGGAA
66 GAATCTTTTTAACTTTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCAATACGGAA
* *
43280579 TTATAAATAAAGTATAAACTTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
131 TAATAAATAAAGTATAAAATTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
43280644 TTCTCGGGTTTGATTATTCTTCTTAAGATATTC
196 TTCTCGGGTTTGATTATTCTTCTTAAGATATTC
* * * *
43280677 TAAATTTTTAAGACGTTAAAATGAAAATTTACAATGTGATGCATAGAGAAGTGGTCGTGTCTTAT
1 TAAACTTTTAAGACGTTAAAATGAAAATTTACAATATGATGCATAGAGAAGTGCTCGTGTATTAT
**
43280742 G-ATACTTTTTAAC-TTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCGTTACGGA
66 GAAT-CTTTTTAACTTTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCAATACGGA
* * *
43280805 ATAATAGATAAAGTATAAAATTTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGCATA
130 ATAATAAATAAAGTATAAAATTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAA
43280870 CTTCT
195 CTTCT
43280875 TGTGTTTTAT
Statistics
Matches: 176, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
227 110 0.62
228 66 0.38
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (228 bp):
TAAACTTTTAAGACGTTAAAATGAAAATTTACAATATGATGCATAGAGAAGTGCTCGTGTATTAT
GAATCTTTTTAACTTTCATTTTTAAATATTGAAACCCAAATATTGAGGCAAAGCCCAATACGGAA
TAATAAATAAAGTATAAAATTTTAAAAGGTTAAAATGAAAATTTACCATGTGATGCATAGCAAAC
TTCTCGGGTTTGATTATTCTTCTTAAGATATTC
Found at i:43281065 original size:224 final size:222
Alignment explanation
Indices: 43280764--43281216 Score: 601
Period size: 224 Copynumber: 2.0 Consensus size: 222
43280754 CTTCATTTTT
*
43280764 AAATATTGAAACCCAAATATTGAGGCAAAGCCCGTTACGGAATAATAGATAAAGTATAAAATTTT
1 AAAT-TTGAAACCCAAATATTGAGGCAAAGCCCGTTACGAAATAATAGATAAAGTATAAAATTTT
* *
43280829 AAGAGGTTAAAAT-GAAAATTTACCATGTGATGCATAGC-ATACTTCTTGTGTTTTATGATTTTT
65 AAGAGGTTAAAATAG-AAATATACCATGTGATGCATAGCAAT-CTTCTAGTGTTTTATGATTTTT
* ** *
43280892 TTTAAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACTAAGTCGGGTACAGAATCAAATA
128 TTT-AATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACAAAGTCAAGTACAGAATCAAAGA
*
43280957 TAAAAGTATACATTTTTAA-AAGGTTAAAATGA
192 T-AAAGTATAAATTTTTAACAA-GTTAAAATGA
* * ** * *
43280989 AAATTTGAAACTCAAATTTTGAGGTGAA-CTCCGTTACGAAATTAA-AGATATAGTATAAATTTT
1 AAATTTGAAACCCAAATATTGAGGCAAAGC-CCGTTACGAAA-TAATAGATAAAGTATAAAATTT
* *
43281052 TAAGAGTTTAAAATAGAAATATACCGTGTGATGCATAGCAATCTTCTAGTGTTTTATGATTTTTT
64 TAAGAGGTTAAAATAGAAATATACCATGTGATGCATAGCAATCTTCTAGTGTTTTATGATTTTTT
* * * *
43281117 TTAATTTCATTTTTAAATATTAAAATTCAAATTTTGAGGCAAAGTCAATTACATAATCAAAGATA
129 TTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACAAAGTCAAGTACAGAATCAAAGATA
* *
43281182 CAGTATAAATTTTTAACAAGTTAAAATGG
194 AAGTATAAATTTTTAACAAGTTAAAATGA
43281211 AAATTT
1 AAATTT
43281217 AAAATGTGAT
Statistics
Matches: 201, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
222 30 0.15
223 57 0.28
224 104 0.52
225 10 0.05
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.36
Consensus pattern (222 bp):
AAATTTGAAACCCAAATATTGAGGCAAAGCCCGTTACGAAATAATAGATAAAGTATAAAATTTTA
AGAGGTTAAAATAGAAATATACCATGTGATGCATAGCAATCTTCTAGTGTTTTATGATTTTTTTT
AATTTCATTTTTAAATATTAAAATTCAAATTTCGAGACAAAGTCAAGTACAGAATCAAAGATAAA
GTATAAATTTTTAACAAGTTAAAATGA
Found at i:43281608 original size:291 final size:285
Alignment explanation
Indices: 43281028--43281871 Score: 763
Period size: 291 Copynumber: 2.9 Consensus size: 285
43281018 TCCGTTACGA
* * * * * * * * *
43281028 AATTAAAGATATAGTATAAATTTTTAAGAGTTTAAAAT-AGAAATATACCGTGTGATGCATAGCA
1 AATTAAAGAAAAAGTATAAATATTTAAGAGGTTAAAATGA-AAATTTACCATGTAACGCATAGAA
* ** * * * * ** *
43281092 ATCTTCT-AGTGTTTTATGATTTTTTTTAATTTCA-TTTTTAAATATTAAAATTCAAATTTTGAG
65 AACTTCTCA-TGTAATATAAATCTTTTTAATTTCATTTTTTAAATATTAAAACTCAAACGTAGAG
* * * * * * * *
43281155 GCAAAGTCAATTACATAATCAAAGATACAGTATAAATTTTTAACAAGTTAAAATGGAAATTTAAA
129 GCAACGTCAGTTAAAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATA
* * * * *
43281220 ATGTGATGTATAGCAAAGTTCTCGTGTCT-TCGAATTGTTTTAAATTT-ATTTATAAATATTGAA
194 ATGTGATGAATAGCAAAGTTCTCGTGT-TAT-G-ATTCTTTTTAATTTAATTTTTAAATATTAAA
* *
43281283 ATTCGAATTCTGAGCCGAACTCCGGTATGG
256 ATTCGAATTTTGAGCCGAACTCCAGTATGG
* * * * *
43281313 AATTAAAGATAAAGTATAAACT-TTTAAGTGGTTAATATGGAAATTTACCATGTAACGCATGGAA
1 AATTAAAGAAAAAGTATAAA-TATTTAAGAGGTTAAAATGAAAATTTACCATGTAACGCATAGAA
* * *
43281377 AACTTCTCATGTAATATAAATCTTTTTAATTTCA-TTTTTAAATATTTAAACTCGAACGTCGAGG
65 AACTTCTCATGTAATATAAATCTTTTTAATTTCATTTTTTAAATATTAAAACTCAAACGTAGAGG
*
43281441 CGAA-GTCAGTTAAAAAATCAAAGAAAAACTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAA
130 C-AACGTCAGTTAAAAAATCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAA
* * *
43281505 TTTATAATTTGATGAATAGCGAAGTTCTCGTGTTAATGATTCTTTTTAATTTAATTTTTTAATAT
188 TTTATAATGTGATGAATAGCAAAGTTCTCGTGTT-ATGATTCTTTTTAATTTAATTTTTAAATAT
* * * * *
43281570 TAAAACTCGAATTTTGAAG-GGAAGTCTATTATGG
252 TAAAATTCGAATTTTG-AGCCGAACTCCAGTATGG
* * * * *
43281604 AATTAAAGAAAAAGTTTAAATATTTAAGAGTTTAAAATGAAAATTTACCATGTGATGCATAGCAA
1 AATTAAAGAAAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTAACGCATAGAAA
** * * * * **
43281669 ACTTCTCATGTTTTATGATTTTTTTTAATTTCATTTTTTTAAATATTAAAATTCAAATTTAGAGG
66 ACTTCTCATGTAATATAAATCTTTTTAATTTCA-TTTTTTAAATATTAAAACTCAAACGTAGAGG
* * * *
43281734 CAACGTCGGTTATAGAATCAAAGATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTAT-A
130 CAACGTCAGTTAAAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATAA
* * * * * * *
43281798 TGTGATGCATTGCAAACTTCTTGTGTTTTATGTTTTTTTTTAAATTTAATTATTAAATATTAAAA
195 TGTGATGAATAGCAAAGTTCTCGTG--TTATGATTCTTTTT-AATTTAATTTTTAAATATTAAAA
*
43281863 TTCAAATTT
257 TTCGAATTT
43281872 CAAGGTAAAG
Statistics
Matches: 454, Mismatches: 84, Indels: 39
0.79 0.15 0.07
Matches are distributed among these distances:
285 117 0.26
286 24 0.05
287 47 0.10
288 30 0.07
289 2 0.00
290 14 0.03
291 174 0.38
292 5 0.01
293 41 0.09
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (285 bp):
AATTAAAGAAAAAGTATAAATATTTAAGAGGTTAAAATGAAAATTTACCATGTAACGCATAGAAA
ACTTCTCATGTAATATAAATCTTTTTAATTTCATTTTTTAAATATTAAAACTCAAACGTAGAGGC
AACGTCAGTTAAAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATAAT
GTGATGAATAGCAAAGTTCTCGTGTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAATTCG
AATTTTGAGCCGAACTCCAGTATGG
Found at i:43282143 original size:86 final size:86
Alignment explanation
Indices: 43281986--43282157 Score: 213
Period size: 86 Copynumber: 2.0 Consensus size: 86
43281976 CAGAATTATT
* * * *
43281986 GATAAAGTATAAATTCTTAAAAGGTTAAAGTGGAAATTTACCATGTGATGCATGGTAAACTTCTC
1 GATAAAGTATAAATTCTTAAAAGGTTAAAATAGAAATTTACAATGTGATGCATAGTAAACTTCTC
*
43282051 GGGTCTTATTATTCTTCTTAA
66 GGGTCTTATGATTCTTCTTAA
* * * *
43282072 GATATAGTGTAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCATAG-AGAA-TTGC
1 GATAAAGTATAAATTCTTAAAAGGTTAAAATAGAAATTTACAATGTGATGCATAGTA-AACTT-C
* *
43282135 TCGTGTCTTATGATTCTTTTTAA
64 TCGGGTCTTATGATTCTTCTTAA
43282158 CTTCATTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 3 0.04
86 70 0.96
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (86 bp):
GATAAAGTATAAATTCTTAAAAGGTTAAAATAGAAATTTACAATGTGATGCATAGTAAACTTCTC
GGGTCTTATGATTCTTCTTAA
Found at i:43282532 original size:142 final size:143
Alignment explanation
Indices: 43282070--43283727 Score: 1400
Period size: 142 Copynumber: 11.6 Consensus size: 143
43282060 TATTCTTCTT
* * * *
43282070 AAGATATAGTGTAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCATAG-AGAA-TT
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA-AACTT
* * *
43282133 GCTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAACTATTGAAACTCGAATTTTGAGGCAAAG
65 -CTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG
43282198 TCCGTTAC-AGAATTA
129 TCCGTTACGA-AATTA
* * * * *
43282213 TAGATAAAATATAAATTTTTAAGAGGTTAAAAAGGAAATTTACCATGTAATGCATAGCACACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * *
43282278 TCGTGAT-TTATGATT-TTTTTAATTTCATTTTT-AATATTAAAATTTGCATTTCGAGACTAAGT
66 TCGTG-TCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
** * *
43282340 TGGATAC-AGAATCA
130 CCGTTACGA-AATTA
* * * *
43282354 AATATAAAGTATACATTTTTAAAAGGTTAAAATGGAAATTTACCATGTGATGCATAGGAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * *
43282419 TTGTATCTTATGATTCTTTTTAATTTCATTTTTAACTATTGAAACTCGAATTTTGAGGC-AACTC
66 TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
43282483 CGTTACGAAATTA
131 CGTTACGAAATTA
* * *
43282496 AAGATAAAGTATAAACTTTTAAGA-GTTAAAAATGGAAAATTACCGTGTGATGCATAGCAAACTT
1 AAGATAAAGTATAAATTTTTAAGAGGTT-AAAATGGAAATTTACCATGTGATGCATAGCAAACTT
* * * * * * *
43282560 CTAGTGTTTTATGATT-TTTTTAATTTCGTTTTTAAATATTAAAATTTGAATTTCGAGACAAAGT
65 CTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
* *
43282624 CAGTTAC-AGAATCA
130 CCGTTACGA-AATTA
* * * * ** * * *
43282638 AAGATACAGAATAGATTTTTAACAGGTTAAAATGGAAATTTAGAATGTGATGCATAGAAAAGTTA
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * * *
43282703 TCGTGTCTTCTGATTGC-TTTAAATTT-ATTTATAAATATTGAAACTTGAATTTTGAGGCGAACT
66 TCGTGTCTTATGATT-CTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
** * *
43282766 CTATTATGGAATTA
130 CCGTTACGAAATTA
* * * * *
43282780 AAGATAAAGTATAAATTTTTAAGTGGTTAAAATGGAAATTTAACATGTGATGCATAGAAAAGTTA
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * *
43282845 TCGTGTCTTCTGATT-TTTTTAAATTT--TTTTATGAATATTGAAACTCAAATTTTGAGGCGAAC
66 TCGTGTCTTATGATTCTTTTT-AATTTCATTTT-TAAATATTAAAACTCGAATTTTGAGGCAAAG
*
43282907 TCCATTACTG-AATTA
129 TCCGTTAC-GAAATTA
* * * * *
43282922 AAGATATAGTACAAAATTTTAAGTGGTTAAAATGGAAATTTACCATGTGATGCAT-GAAAAACTT
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAG-CAAACTT
* * * *
43282986 CTCGTGT-TATATGAATCTTTTTAATTTCATTTTTAAATATTAAAACTTGAATTTCGAGGCGAAG
65 CTCGTGTCT-TATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG
* *
43283050 TCAGTTAC-AGAATCA
129 TCCGTTACGA-AATTA
* * ** * **
43283065 AAGAAAAACTTAATGTATATATTTTTAAGAGGTTAAAATGGAAATTTATAATTTGATTAATTA-C
1 AAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCA-TAGC
* * * * * * * * * *
43283129 GAAGTTCTCATGTGTAATGAATCTATTTAATTTAATTTTTTAATATTAAAACTCGATTTTTGAAG
59 AAACTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTG-AG
* * * *
43283194 G-AATGTCTGTTATGGAATTA
123 GCAAAGTCCGTTACGAAATTA
* * * * *
43283214 AAGAAAAAGTTTAAATATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGTATAGCAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
* * * * * * * *
43283279 TCGTGTTTTATGATT-TTTTTAATTTAATTTTTAAATATTAACATTTGAATTTCGAGGCAACGTT
66 TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
* * *
43283343 GGTTA-TAGAATCA
131 CGTTACGA-AATTA
* *
43283356 AAGATACAA-TATAAATTTTTAAGAGGTTAAAATGGAAATTTA-TATGTGATGCATTGCAAACTT
1 AAGATA-AAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTT
* * * * * * * * ** * *
43283419 CGCATGTTTTATGATT-TTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGCCAATT
65 CTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT
* * *
43283483 CGGTTAGCG-GATCA
130 CCGTTA-CGAAATTA
* * * * * *
43283497 AA-ATTAAAGT-TAAAATTTTTAAGAGTTTAAAATGGGAATTTACAATGTGATGCAGAACAAAGT
1 AAGA-TAAAGTAT-AAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACT
* * * * * *
43283560 TCTCGTGTATTATGAATCTTTTTAATTTCATTTTCAATTATTGAAACTAGAATTTTGAGGCAAAG
64 TCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG
*
43283625 TCCGTTATGAAATTA
129 TCCGTTACGAAATTA
* * *
43283640 TAGATAAAGTATAAATTTTTGCA-AGGTTAAAAAGGAAATTTACCATGTGATGCATAGCAAACTT
1 AAGATAAAGTATAAATTTTT-AAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTT
* * *
43283704 CTTAG-GTCTTATTATTCTTCTTAA
65 C-TCGTGTCTTATGATTCTTTTTAA
43283728 GATATAGTGT
Statistics
Matches: 1217, Mismatches: 246, Indels: 104
0.78 0.16 0.07
Matches are distributed among these distances:
140 5 0.00
141 263 0.22
142 521 0.43
143 304 0.25
144 13 0.01
145 1 0.00
147 1 0.00
149 104 0.09
150 5 0.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (143 bp):
AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTC
TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC
CGTTACGAAATTA
Found at i:43283921 original size:233 final size:233
Alignment explanation
Indices: 43283514--43283939 Score: 649
Period size: 233 Copynumber: 1.8 Consensus size: 233
43283504 AGTTAAAATT
* * * *
43283514 TTTAAGAGTTTAAAATGGGAATTTACAATGTGATGCAGAACAAAGTTCTCGTGTATTATGAATCT
1 TTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCACAACAAAGTGCTCGTGTATTATGAATCT
* * *
43283579 TTTTAATTTCATTTTCAATTATTGAAACTAGAATTTTGAGGCAAAGTCCGTTATGAAATTATAGA
66 TTTTAACTTCATTTTCAAATATTGAAACTAGAATTTTGAGGCAAAGCCCGTTATGAAATTATAGA
* *
43283644 TAAAGTATAAATTTTTGCAAGGTTAAAAAGGAAATTTACCATGTGATGCATAGCAAACTTCTTAG
131 TAAAGTATAAATTTTTGAAAGGTTAAAAAGAAAATTTACCATGTGATGCATAGCAAACTTCTTAG
43283709 GTCTTATTATTCTTCTTAAGATATAGTGTAAATTTTTA
196 GTCTTATTATTCTTCTTAAGATATAGTGTAAATTTTTA
* * * *
43283747 TTTAAGAGGTTAAAATGGAAATTTACATTGTGATGCACAGA-GAAGTGCTCGTGTCTTATGATTC
1 TTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCACA-ACAAAGTGCTCGTGTATTATGAATC
* * *
43283811 TTTTTAACTTCATTTTTAAATATTGAAACTTGAATTTTGAGGCAAAGCCCGTTATGGAATTATAG
65 TTTTTAACTTCATTTTCAAATATTGAAACTAGAATTTTGAGGCAAAGCCCGTTATGAAATTATAG
* * *
43283876 ATAAAGTATAAATTTTT-AAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGGACACTTCTT
130 ATAAAGTATAAATTTTTGAA-AGGTTAAAAAGAAAATTTACCATGTGATGCATAGCAAACTTCTT
43283940 GTGTTTTATG
Statistics
Matches: 172, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
232 1 0.01
233 170 0.99
234 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (233 bp):
TTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCACAACAAAGTGCTCGTGTATTATGAATCT
TTTTAACTTCATTTTCAAATATTGAAACTAGAATTTTGAGGCAAAGCCCGTTATGAAATTATAGA
TAAAGTATAAATTTTTGAAAGGTTAAAAAGAAAATTTACCATGTGATGCATAGCAAACTTCTTAG
GTCTTATTATTCTTCTTAAGATATAGTGTAAATTTTTA
Found at i:43284211 original size:520 final size:515
Alignment explanation
Indices: 43283229--43284224 Score: 1245
Period size: 520 Copynumber: 1.9 Consensus size: 515
43283219 AAAGTTTAAA
* * * *
43283229 TATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGTATAGCAAACTTCTCGTGTTTTATGATT
1 TATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGCACAGCAAACTGCTCGTGTCTTATGATT
* * * ***
43283294 TTTTTAATTTAATTTTTAAATATTAACATTTGAATTTCGAGGCAACGTTGGTTATAGAATCAAAG
66 TTTTTAACTTAATTTTTAAATATTAACACTTGAATTTCGAGGCAAAGCCCGTTATAGAATCAAAG
* * *
43283359 ATACAATATAAATTTTTAAGAGGTTAAAATGGAAATTTATATGTGATGCATTGCAAACTTCGCAT
131 ATACAATATAAATTTTTAAGAGGTTAAAATGAAAATTTACATGTGATGCATAGCAAACTTCGCAT
* * *
43283424 GTTTTATGATTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGGCCAATTCGGTTA
196 GTTTTATGATTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGACCAAGTCGGGTA
* * * *
43283489 GCGGATCAAAATTAAAGTTAAAATTTTTAAGAGTTTAAAATGGGAATTTACAATGTGATGCAGAA
261 GCGAATCAAAATTAAAGTTAAAATTTTTAAAAGGTTAAAATGGAAATTTACAATGTGATGCAGAA
* * *
43283554 CAAAGTTCTCGTGTATTATGAATCTTTTTAATTTCATTTTCAATTATTGAAACTAGAATTTTGAG
326 CAAACTTCTCGTATATTATGAATCTTTTTAATTTCATTTTCAACTATTGAAACTAGAATTTTGAG
* * * * *
43283619 GCAAAGTCCGTTATGAAATTATAGATAAAGTATAAATTTTTGCAAGGTTAAAAAGGAAATTTACC
391 GCAAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTT-CAAGGTTAAAAAGGAAATTTACC
43283684 ATGTGATGCATAGCAAACTTCTTAGGTCTTATTATTCTTCTTAAGATATAGTGTAAATTTT
455 ATGTGATGCATAGCAAACTTCTTAGGTCTTATTATTCTTCTTAAGATATAGTGTAAATTTT
* *
43283745 TATTTAAGAGGTTAAAATGGAAATTTA-CATTGTGATGCACAG-AGAAGTGCTCGTGTCTTATGA
1 TATTAAAGAGGTTAAAATGGAAATTTACCA-TGTGATGCACAGCA-AACTGCTCGTGTCTTATGA
* * * *
43283808 TTCTTTTTAACTTCATTTTTAAATATTGAA-ACTTGAATTTTGAGGCAAAGCCCGTTATGGAATT
64 TT-TTTTTAACTTAATTTTTAAATATT-AACACTTGAATTTCGAGGCAAAGCCCGTTATAGAATC
* * *
43283872 ATAGATA-AAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGGACACT
127 AAAGATACAA-TATAAATTTTTAAGAGGTTAAAATGAAAATTTA-CATGTGATGCATAGCAAACT
*** * * * ** * *
43283936 TCTTGTGTTTTATGATTTTTTTTTAATTTCATTTTTAAATATTAAAATTTGAATTTCGAGACTAA
190 TCGCATGTTTTATGA--TTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGACCAA
* * *
43284001 GTCGGGTA-CATAATC-AAATATAAAG-TATACATTTTTAAAAGGTTAAAA-GGAAAATTTACCA
253 GTCGGGTAGC-GAATCAAAAT-TAAAGTTA-AAATTTTTAAAAGGTTAAAATGG-AAATTTACAA
* ** * * * *
43284062 TGTGATGCATAGGAAACTTCTCGTATCTTTTGATTCTTTTTAATTTCATTTTTAACTATTGAAAC
314 TGTGATGCAGAACAAACTTCTCGTATATTATGAATCTTTTTAATTTCATTTTCAACTATTGAAAC
* *
43284127 TCGAATTTTGAGGCGAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTT-AAGGGTGTAAA
379 TAGAATTTTGAGGCAAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTTCAA-GGT-TAAA
* *
43284191 ATGGAAATTTACCTTGTGATGCATAGCAAACTTC
442 AAGGAAATTTACCATGTGATGCATAGCAAACTTC
43284225 CAGTGTTTTA
Statistics
Matches: 405, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
515 3 0.01
516 56 0.14
517 86 0.21
518 32 0.08
519 12 0.03
520 216 0.53
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (515 bp):
TATTAAAGAGGTTAAAATGGAAATTTACCATGTGATGCACAGCAAACTGCTCGTGTCTTATGATT
TTTTTAACTTAATTTTTAAATATTAACACTTGAATTTCGAGGCAAAGCCCGTTATAGAATCAAAG
ATACAATATAAATTTTTAAGAGGTTAAAATGAAAATTTACATGTGATGCATAGCAAACTTCGCAT
GTTTTATGATTTTTTAAATTTAATTATTAAATATTAAAATTCAAATTTCAAGACCAAGTCGGGTA
GCGAATCAAAATTAAAGTTAAAATTTTTAAAAGGTTAAAATGGAAATTTACAATGTGATGCAGAA
CAAACTTCTCGTATATTATGAATCTTTTTAATTTCATTTTCAACTATTGAAACTAGAATTTTGAG
GCAAACTCCGTTACGAAATGAAAGATAAAGTATAAACTTTTCAAGGTTAAAAAGGAAATTTACCA
TGTGATGCATAGCAAACTTCTTAGGTCTTATTATTCTTCTTAAGATATAGTGTAAATTTT
Found at i:43284322 original size:142 final size:140
Alignment explanation
Indices: 43283747--43285242 Score: 1241
Period size: 142 Copynumber: 10.5 Consensus size: 140
43283737 TAAATTTTTA
* * * *
43283747 TTTAAGAGGTTAAAATGGAAATTTA-CATTGTGATGCACAG-AGAAGTGCTCGTGTCTTATGATT
1 TTTAAG-GGTTAAAATGGAAATTTACCA-TGTGATGCATAGCA-AACTTCTCGTGTTTTATGATT
* * * * ** * *
43283810 CTTTTTAACTTCATTTTTAAATATTGAAACTTGAATTTTGAGGCAAAGCCCGTTATGGAATTATA
63 -TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAG-TCGTTACAGAATCAAA
43283875 GATAAAGTATAAATT
126 GATAAAGTATAAATT
* * * *
43283890 TTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATAGGACACTTCTTGTGTTTTATGATTTT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGA--TT
* * * * * * * *
43283955 TTTTTAATTTCATTTTTAAATATTAAAATTTGAATTTCGAGACTAAGTCGGGTACATAATCAAAT
63 TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTACAGAATCAAAG
*
43284020 ATAAAGTATACATT
127 ATAAAGTATAAATT
* * *
43284034 TTTAAAAGGTTAAAA-GGAAAATTTACCATGTGATGCATAGGAAACTTCTCGTATCTTT-TGATT
1 TTT-AAGGGTTAAAATGG-AAATTTACCATGTGATGCATAGCAAACTTCTCGTGT-TTTATGATT
* * * * *
43284097 CTTTTTAATTTCATTTTTAACTATTGAAACTCGAATTTTGAGGCGAACTCCGTTAC-GAAATGAA
63 -TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT-CGTTACAG-AATCAA
*
43284161 AGATAAAGTATAAACT
125 AGATAAAGTATAAATT
*
43284177 TTTAAGGGTGTAAAATGGAAATTTACCTTGTGATGCATAGCAAACTTC-CAGTGTTTTATGATTT
1 TTTAAGGGT-TAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTC-GTGTTTTATGATTT
* * * * * *
43284241 TTTTAATTTCGTTTTTAAATATTAAAATTTGAATTTCGAGACAAAGTCGATTACAAAATCAAAGA
64 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTCG-TTACAGAATCAAAGA
*
43284306 TACAGTATAAATT
128 TAAAGTATAAATT
** * ** * * * * *
43284319 TTTAACAAGTTAGAATGGAAATTTAAAATGTGATGCATAGAAAAGTTATCGTGTCTTCTGATTTT
1 TTTAA-GGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTT
* * * * * * ** *
43284384 TTTAAATTT--TTTTATGAATATTGAAACTCAAATTTTGAGGCGAACTCCATTATTGAATTAAAG
65 TTT-AATTTCATTTT-TAAATATTAAAACTCGAATTTTGAGGCAAAGT-CGTTACAGAATCAAAG
*
43284447 ATAAAGTATAAAAT
127 ATAAAGTATAAATT
* * *
43284461 TTTAAGTGGTTAAAATGGAAATTTACCATGTGATGCAT-GAAAAACTTCTCGTGTTATATGAATC
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAG-CAAACTTCTCGTGTTTTATG-ATT
*
43284525 TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTCGAGGCAAAGTCGGTTACAGAATCAAAG
63 TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTACAGAATCAAAG
* *
43284590 AAAAACTTAATGTATATATT
127 ----A--TAAAGTATAAATT
* ** * * * * * * *
43284610 TTTAAGAGGAT-AAATGGAAATTTATAATTTGATGAATATCGAAGTTCTCGTGTGTTATGAATCT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATG-ATTT
* * * * * * ** *
43284674 ATTTAATTTAATTTTTTAATATTAAAACTCGAGTTTTGAAGG-GATGTCTGTTATGGAATTAAAG
64 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTG-AGGCAAAGTC-GTTACAGAATCAAAG
* * *
43284738 AAAAAGTTTAAATA
127 ATAAAGTATAAATT
* *
43284752 TTAAAGAGGTTAAAATGGAAATTTACCATGTGATGTATAGCAAACTTCTCGTGTTTTATGATTTT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTT
* * * * * * *
43284817 TTTAATTTAATTTTTAAATATTAACATTTGAATTTCGA-GCAATGTCTGTTATAGAATCAAAGAT
65 TTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTACAGAATCAAAGAT
** *
43284881 ACTGTATTAA-T
129 AAAGTATAAATT
* * * *
43284892 TTTAAGAGGTTAAAATGAAAATTTA-TATGTGATGCATTGCAAACTTCTCATGTTTTATGATTTT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTT
* * * * * * * * *
43284956 TTTAATTTAATTATTAAATAGTAAAATTCAAATTTAGAGGCCAATTCGGTTAGCGGAA-CAATAG
65 TTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTC-GTTA-CAGAATCAA-AG
43285020 -TAAAGTATAAATT
127 ATAAAGTATAAATT
* * * * * *
43285033 TTTAAGAGTTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTATGAATCT
1 TTTAAG-GGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATG-ATTT
* * * *
43285098 TTTTAATTTCATTTTT-AA-A-T-AAACTAGAATTTTGAGGCAAAGTCCGTTACAAAATTATAGA
64 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGT-CGTTACAGAATCAAAGA
*
43285159 TAAAGTAAAAAATT
128 TAAAGT-ATAAATT
* * * * * *
43285173 TTAAAAGGTTAAAATGGAAATGTACCATGTGATGCATAGCAAACTTCTCGAGTCTTATTATTCTT
1 TTTAAGGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATT-TT
43285238 TTTAA
65 TTTAA
43285243 GATATAGTGT
Statistics
Matches: 1086, Mismatches: 218, Indels: 102
0.77 0.16 0.07
Matches are distributed among these distances:
138 7 0.01
139 147 0.14
140 56 0.05
141 64 0.06
142 304 0.28
143 267 0.25
144 120 0.11
145 7 0.01
147 1 0.00
148 91 0.08
149 22 0.02
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (140 bp):
TTTAAGGGTTAAAATGGAAATTTACCATGTGATGCATAGCAAACTTCTCGTGTTTTATGATTTTT
TTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCAAAGTCGTTACAGAATCAAAGATAA
AGTATAAATT
Found at i:43285314 original size:86 final size:86
Alignment explanation
Indices: 43285171--43285328 Score: 239
Period size: 86 Copynumber: 1.8 Consensus size: 86
43285161 AAGTAAAAAA
* *
43285171 TTTTAAAAGGTTAAAATGGAAATGTACCATGTGATGCATAGCAAACTTCTCGAGTCTTATTATTC
1 TTTTAAAAGGTTAAAATGGAAATGTACAATGTGATGCATAGCAAACTTCTCGAGTCTTATGATTC
43285236 TTTTTAAGATATAGTGTAAAT
66 TTTTTAAGATATAGTGTAAAT
* * *
43285257 TTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-AGAA-TTGCTCGTGTCTTATGAT
1 TTTTAAAAGGTTAAAATGGAAATGTACAATGTGATGCATAGCA-AACTT-CTCGAGTCTTATGAT
43285320 TCTTTTTAA
64 TCTTTTTAA
43285329 CTTCATTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 3 0.05
86 62 0.95
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (86 bp):
TTTTAAAAGGTTAAAATGGAAATGTACAATGTGATGCATAGCAAACTTCTCGAGTCTTATGATTC
TTTTTAAGATATAGTGTAAAT
Found at i:43285447 original size:229 final size:225
Alignment explanation
Indices: 43285027--43285471 Score: 615
Period size: 229 Copynumber: 2.0 Consensus size: 225
43285017 TAGTAAAGTA
*
43285027 TAAATTTTTAAGAGTTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTAT
1 TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTAT
* *
43285092 GAATCTTTTTAATTTCATTTTTAAATAAACTAGAATTTTGAGGCAAAGTCCGTTACAAAATTATA
66 GAATCTTTTTAACTTCATTTTTAAATAAACTAGAATTTTAAGGCAAAGTCCGTTACAAAATTATA
* *
43285157 GATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATGCATAGCAAACTTCTC
131 GATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATACATAACAAACTTCTC
*
43285222 GAGTCTTATTATTCTTTTTAAGATATAGTG
196 GAGTCTTATGATTCTTTTTAAGATATAGTG
* *
43285252 TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-AGAA-TTGCTCGTGTCTT
1 TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCAGAGCA-AAGTT-CTCGTGTATT
* * ***
43285315 ATGATTCTTTTTAACTTCATTTTTAAAGATTGAAACTAGAATTTTAAGGCAAAGTTCGTTATGGA
64 ATGAATCTTTTTAACTTCATTTTT-AA-A-T-AAACTAGAATTTTAAGGCAAAGTCCGTTACAAA
* * * * * *
43285380 ATTATAGATAAAGTACACATTTTTAAGAGGTTAAAATGGAAGTTTACCATGTGATACATAACAAA
125 ATTATAGATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATACATAACAAA
* * * *
43285445 CTTGTCGTGTTTTATGATTTTTTTTAA
190 CTTCTCGAGTCTTATGATTCTTTTTAA
43285472 AAATTTCATT
Statistics
Matches: 191, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
224 3 0.02
225 77 0.40
226 2 0.01
227 1 0.01
228 1 0.01
229 107 0.56
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (225 bp):
TAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCAGAGCAAAGTTCTCGTGTATTAT
GAATCTTTTTAACTTCATTTTTAAATAAACTAGAATTTTAAGGCAAAGTCCGTTACAAAATTATA
GATAAAGTAAAAAATTTTAAAAGGTTAAAATGGAAATGTACCATGTGATACATAACAAACTTCTC
GAGTCTTATGATTCTTTTTAAGATATAGTG
Found at i:43285918 original size:142 final size:142
Alignment explanation
Indices: 43285511--43287151 Score: 1463
Period size: 143 Copynumber: 11.6 Consensus size: 142
43285501 AGTCGGGTAC
* * * * *
43285511 AAATCAAATATAAAGTACAAATTTTTTAA-AGGTTAAAACGGAAATTTACCATGTAATGCATAGG
1 AAATCAAAGATAAAGTATAAA-TTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC
* * * * * * * *
43285575 AAACTTCTCGTATCTTATGGTTCCTTTTAGTTTCATTTGTAACTATTGAAACTCGAATTTTGAGG
65 AAACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG
* * *
43285640 CGAACTCCATTACG
129 CAAAGTCCGTTACG
* * *
43285654 AAATGAAAGATAAAGTATAAATTTTTAAGAGCTTAAAATGGAAATTTACAATGTGATGCATAG-A
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* ** * * * * *
43285718 GAAGTGGTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAATGTTGAAACTCAAATTTTGAGG
66 -AACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG
*
43285783 TAAAGTCCGTTACG
129 CAAAGTCCGTTACG
* * * * *
43285797 GAATTATAGATAAAGTATAAA-TTTTAAGAGGTTAAAATGGAAGTTTACCATGTGATACATAGCA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * * * * *
43285861 AACTTGTCATGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCAAAATTCGAGACT
66 AACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCA
* *
43285926 AAGTCGGGTAC-
131 AAGTCCGTTACG
* * * *
43285937 AAATCAAATATAAAGTACACATTTTTCAA-ATGTTAAAATGGAAATTTACCATGTGATGCATAGC
1 AAATCAAAGATAAAGTATAAATTTTT-AAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC
* * *
43286001 AAACTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAACTATTAAAACTCAAATTTTGAGG
65 AAACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGG
* * * *
43286066 CGAACTCC-ATATG
129 CAAAGTCCGTTACG
* * *
43286079 AAATGAAAGATAAAGTATAAATTTTTAAGAGGTTAGAATGGAAATTTACCATGTGATGCATAACA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * **
43286144 AACTTCTAGTGTTGTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCAAGGC
66 AACTTCTCGTGTTTTATGA-TTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
*
43286209 AAAGT-CGTTTACA
130 AAAGTCCG-TTACG
* * ** *
43286222 AAATCAAAGATACAGTATAAATTTTTAACAGGTTAAAATGGAAATTTAAAATGTGATGCATAGTA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * * * *
43286287 AAGTTCTCGTGTCTTCTGATTATTTTAAAGTT-ATTTATAAATATTGAAACTCGAATTTTGAGGC
66 AACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* *
43286351 GAACTCCGTTACG
130 AAAGTCCGTTACG
* * * * * * * *
43286364 GAATTAAAGATAAAGTATACATTTTTAAGTGGTTAAAATGAAAATTTACCACGTGATGCATGGAA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * * * *
43286429 AACTTCTTGTGTTATATGAATCTTTTTAATTTCATTTTTAAATATTAAAACTCAAATTTCGTGGC
66 AACTTCTCGTGTTTTATG-ATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* ** *
43286494 GAAGTTGGTTACA
130 AAAGTCCGTTACG
* * * ** *
43286507 AAATCAAAGAAAAAGTTAAAGTATACATTTTTAAGATGTTAAAATGAAAATTTATAATTTGATGC
1 AAATCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGC
* * * * * *
43286572 ATAGCAAAGTTCTTGTGTGTTATGATTCTTATTAATTTAATTTTTTAATATTAAAACTCGAATTT
60 ATAGCAAACTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAACTCGAATTT
* * ** *
43286637 TGAAGG-GATGTCTATTATG
124 TG-AGGCAAAGTCCGTTACG
* * * * *
43286656 GAATTAAAGATAAAGTTTAAATATTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGAA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * *
43286721 AACTTGTCGCGTTTTATGATTTTATTTAATTTTATTTTTAAATATTAAAATTCGAATTTTGAGG-
66 AACTTCTCGTGTTTTATGATTTT-TTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
* *
43286785 AAACGTCGGTTACA
130 AAA-GTCCGTTACG
* * * * *
43286799 AAATCAAAGATAAATTATAAATTTTTAAGAGATTGAAATGGAAATTTA-TATGTGATGCATTGCA
1 AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
* * * ** * *
43286863 AACTTGTCGTGTTTTATGA--TTTTTAATTTAATTATTAAATATTAAAGTTCGAATTTCGAGACC
66 AACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAG-GC
* *
43286926 AAA-TCGGTTATTG
130 AAAGTCCGTTA-CG
* * * *
43286939 --ATCAAA-ATTAAGGTACAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCATAGC
1 AAATCAAAGA-TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGC
* * * *
43287001 GAAGTTCTC----------A---TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTTAGAC
65 AAACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGC
*
43287053 AAAGTCCATTACG
130 AAAGTCCGTTACG
* * * * *
43287066 GAATTATAGATAAAGTATAAATTTTTAA-ATGGTTAAAATAGAAATTTACCATGTAATGCATAGC
1 AAATCAAAGATAAAGTATAAATTTTTAAGA-GGTTAAAATGGAAATTTACCATGTGATGCATAGC
* *
43287130 AAACTTCTCGGGTCTTATGATT
65 AAACTTCTCGTGTTTTATGATT
43287152 CTTCGTAAGA
Statistics
Matches: 1213, Mismatches: 238, Indels: 96
0.78 0.15 0.06
Matches are distributed among these distances:
127 5 0.00
128 40 0.03
129 60 0.05
130 1 0.00
137 1 0.00
138 38 0.03
139 62 0.05
140 17 0.01
141 107 0.09
142 365 0.30
143 401 0.33
145 1 0.00
147 1 0.00
148 2 0.00
149 110 0.09
150 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (142 bp):
AAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCA
AACTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTGAGGCA
AAGTCCGTTACG
Found at i:43286375 original size:285 final size:285
Alignment explanation
Indices: 43285241--43287154 Score: 1555
Period size: 285 Copynumber: 6.8 Consensus size: 285
43285231 TATTCTTTTT
* * * *
43285241 AAGATATAGTGTAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGAGAA-TTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTT-
* * * * * * * **
43285305 CTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAAGATTGAAACT-AGAATTTTAAGGCAAAG
64 CTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCA-AATTTCGAGGCAAAG
*** * * * * * **
43285369 TTC-GTTATGGAATTATAGATAAAGTACACATTTTTAAGAGGTTAAAATGGAAGTTTACCATGTG
128 -TCGGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTG
* * * * * * * *
43285433 ATACATAACAAACTTGTCGTGTTTTATGATTTTTTTTAAAAATTTCATTTCTAAACATT-----T
192 ATGCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTT---AATTTCATTTTTAAATATTAAAACT
* * * * ** *
43285493 CG-A----GA--CTAAGTCGGGTA-CAAATCA
254 CGAATTTTGAGGCGAACTCCGTTATGGAATTA
* * * * *
43285517 AATATAAAGTACAAATTTTTTAA-AGGTTAAAACGGAAATTTACCATGTAATGCATAGGAAACTT
1 AAGATAAAGTATAAA-TTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTT
* * * * ** * * * * * * * * *
43285581 CTCGTATCTTATGGTTCCTTTTAGTTTCATTTGTAACTATTGAAACTCGAATTTTGAGGCGAACT
64 CTAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGT
** * * * *
43285646 CCATTACGAAATGAAAGATAAAGTATAAATTTTTAAGAGCTTAAAATGGAAATTTACAATGTGAT
129 CGGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGAT
** * * * *
43285711 GCATAG-AGAAGTGGTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAATGTTGAAACTCAAA
194 GCATAGCA-AAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAA
** * *
43285775 TTTTGAGGTAAAGTCCGTTACGGAATTA
258 TTTTGAGGCGAACTCCGTTATGGAATTA
* * * * *
43285803 TAGATAAAGTATAAA-TTTTAAGAGGTTAAAATGGAAGTTTACCATGTGATACATAGCAAACTTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTTC
* * *
43285867 TCA-TGTTTTATGA-TTTTTTTAATTTCATTTTTAAATATTAAAATTCAAAATTCGAGACTAAGT
65 T-AGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGT
* * * * * **
43285930 CGGGTAC-AAATCAAATATAAAGTACACATTTTTCAA-ATGTTAAAATGGAAATTTACCATGTGA
129 CGGTTACAAAATCAAAGATAAAGTATAAATTTTT-AAGAGGTTAAAATGGAAATTTAAAATGTGA
* * *
43285993 TGCATAGCAAACTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAACTATTAAAACTCAAA
193 TGCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAA
* * *
43286058 TTTTGAGGCGAACTCC-ATATGAAATGA
258 TTTTGAGGCGAACTCCGTTATGGAATTA
*
43286085 AAGATAAAGTATAAATTTTTAAGAGGTTAGAATGGAAATTTACCATGTGATGCATAACAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAA-AAACTTC
* *
43286150 TAGTGTTGTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCAAGGCAAAGTC
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTC
* * *
43286215 GTTTACAAAATCAAAGATACAGTATAAATTTTTAACAGGTTAAAATGGAAATTTAAAATGTGATG
130 GGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGATG
* * * * * * *
43286280 CATAGTAAAGTTCTCGTGTCTTCTGATTATTTTAAAGTT-ATTTATAAATATTGAAACTCGAATT
195 CATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATT
*
43286344 TTGAGGCGAACTCCGTTACGGAATTA
260 TTGAGGCGAACTCCGTTATGGAATTA
* * * * *
43286370 AAGATAAAGTATACATTTTTAAGTGGTTAAAATGAAAATTTACCACGTGATGCATGGAAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCAT-AAAAACTTC
* * * * * * * *
43286435 TTGTGTTATATGAATCTTTTTAATTTCATTTTTAAATATTAAAACTCAAATTTCGTGGCGAAGTT
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTC
* * * *
43286500 GGTTACAAAATCAAAGAAAAAGTTAAAGTATACATTTTTAAGATGTTAAAATGAAAATTTATAAT
130 GGTTACAAAATCAAAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAAT
* * * * * *
43286565 TTGATGCATAGCAAAGTTCTTGTGTGTTATGATTCTTATTAATTTAATTTTTTAATATTAAAACT
189 GTGATGCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACT
** **
43286630 CGAATTTTGAAGG-GATGTCTATTATGGAATTA
254 CGAATTTTG-AGGCGAACTCCGTTATGGAATTA
* * *
43286662 AAGATAAAGTTTAAATATTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGAAAACTTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA-AAAACTTC
* * * * * *
43286727 TCGCGTTTTATGATTTTATTTAATTTTATTTTTAAATATTAAAATTCGAATTTTGAGG-AAACGT
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAA-GT
* * * *
43286791 CGGTTACAAAATCAAAGATAAATTATAAATTTTTAAGAGATTGAAATGGAAATTT-ATATGTGAT
129 CGGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGAT
* * * * * * **
43286855 GCATTGCAAACTTGTCGTGTTTTATGA---TTTTTAATTTAATTATTAAATATTAAAGTTCGAAT
194 GCATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAAT
* * * * * * *
43286917 TTCGAGACCAAATCGGTTATTG-ATCA
259 TTTGAGGCGAACTCCGTTATGGAATTA
* * * * *
43286943 AA-ATTAAGGTACAAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATGCAT----A--GC
1 AAGA-TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAAAAACTTC
* * * * * * ** *
43287001 GA-AG--TTCTCA----TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTTAGACAAAGTC
65 TAGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTC
** ** * * * ** *
43287059 CATTACGGAATTATAGATAAAGTATAAATTTTTAA-ATGGTTAAAATAGAAATTTACCATGTAAT
130 GGTTACAAAATCAAAGATAAAGTATAAATTTTTAAGA-GGTTAAAATGGAAATTTAAAATGTGAT
* *
43287123 GCATAGCAAACTTCTCGGGTCTTATGATTCTT
194 GCATAGCAAAGTTCTCGTGTCTTATGATTCTT
43287155 CGTAAGATAT
Statistics
Matches: 1334, Mismatches: 256, Indels: 101
0.79 0.15 0.06
Matches are distributed among these distances:
266 1 0.00
267 81 0.06
268 32 0.02
271 6 0.00
273 16 0.01
275 3 0.00
276 176 0.13
277 9 0.01
278 2 0.00
279 1 0.00
280 1 0.00
281 52 0.04
282 63 0.05
283 170 0.13
284 138 0.10
285 296 0.22
286 48 0.04
288 1 0.00
289 1 0.00
291 74 0.06
292 160 0.12
293 3 0.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (285 bp):
AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAAAAACTTCT
AGTGTTTTATGATTTTTTTTAATTTCATTTTTAAATATTAAAATTCAAATTTCGAGGCAAAGTCG
GTTACAAAATCAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTAAAATGTGATGC
ATAGCAAAGTTCTCGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTAAAACTCGAATTT
TGAGGCGAACTCCGTTATGGAATTA
Found at i:43287046 original size:128 final size:129
Alignment explanation
Indices: 43286883--43287138 Score: 295
Period size: 129 Copynumber: 2.0 Consensus size: 129
43286873 GTTTTATGAT
** ** **
43286883 TTTTAATTTAATTATTAAATATTAAAGTTCGAATTTCGAGACCAAA-TCGGTTATTG-ATCA-AA
1 TTTTAATTTAATTATTAAATATTAAAACTCGAATTTCGAGA-CAAAGTCCATTACGGAATCATAA
* * * *
43286945 ATTAAGGTACAAATTTTTAAGA-GGTTAAAATAGAAATTTACAATGTGATGCATAGCGAAGTTCT
65 A-TAAAGTACAAATTTTTAA-ATGGTTAAAATAGAAATTTACAATGTAATGCATAGCAAACTTCT
43287009 CA
128 CA
* * ** * *
43287011 TTTTAATTTCATTTTTAAATATTAAAACTCGAATTTTTAGACAAAGTCCATTACGGAATTATAGA
1 TTTTAATTTAATTATTAAATATTAAAACTCGAATTTCGAGACAAAGTCCATTACGGAATCATAAA
* *
43287076 TAAAGTATAAATTTTTAAATGGTTAAAATAGAAATTTACCATGTAATGCATAGCAAACTTCTC
66 TAAAGTACAAATTTTTAAATGGTTAAAATAGAAATTTACAATGTAATGCATAGCAAACTTCTC
43287139 GGGTCTTATG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
127 4 0.04
128 42 0.40
129 58 0.55
130 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (129 bp):
TTTTAATTTAATTATTAAATATTAAAACTCGAATTTCGAGACAAAGTCCATTACGGAATCATAAA
TAAAGTACAAATTTTTAAATGGTTAAAATAGAAATTTACAATGTAATGCATAGCAAACTTCTCA
Done.