Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold765
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: 464481
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 2 of 3
Found at i:182498 original size:13 final size:13
Alignment explanation
Indices: 182480--182516 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
182470 ATAGTAAATG
182480 TATCGATACAATA
1 TATCGATACAATA
*
182493 TATCGATACAATG
1 TATCGATACAATA
182506 TATCGATACAA
1 TATCGATACAA
182517 AACTACCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:182593 original size:20 final size:20
Alignment explanation
Indices: 182540--182617 Score: 95
Period size: 20 Copynumber: 3.8 Consensus size: 20
182530 ACTACCAAGG
*
182540 AAATATATCGATACATAAGT
1 AAATGTATCGATACATAAGT
*
182560 AAATGTATTGATACATAAGT
1 AAATGTATCGATACATAAGT
*
182580 AAATGTATCAATACATACTTA-T
1 AAATGTATCGATACATA---AGT
182602 AAATGTATCGATACAT
1 AAATGTATCGATACAT
182618 GCAAGCAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 33 0.66
22 16 0.32
23 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACATAAGT
Found at i:185070 original size:79 final size:79
Alignment explanation
Indices: 184968--185545 Score: 603
Period size: 79 Copynumber: 7.3 Consensus size: 79
184958 TCATTAATGT
* * * *
184968 TTTTATTTCTAAAATATCGATTTTCCACCATCGGAGATACTCCAACCACGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGGA
* *
185033 TACTCTAACCCCGA
66 TACTCCAACCTCGA
* * ** * * * * *
185047 TATTATTTCTAAAACATCAATTTTTTACAATTGGGGATACTCTAACCCCGTTATTT-TGAGAGAA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGGA
* * *
185111 TATTCTAACCTCAA
66 TACTCCAACCTCGA
* * ** *
185125 TTTTATTTTTAAAACA-CTGATTTTCCACCATCGGGGATACTCTAACGTTATTATTTCAGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGG
*
185189 ATACTCCAACCTTGA
65 ATACTCCAACCTCGA
** * * **
185204 TTTTATTTCTAAAACATCGATTTTTTACCATCGGGGATACTCCAACCTCATTATTT-TCGAAAGG
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCT-GAGGGG
*
185268 ATACTCAAACCTCGA
65 ATACTCCAACCTCGA
* * ***
185283 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTTTAACCTTGTTATTTCTGAGAAAA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGGA
185348 TACTCCAACC-CTGA
66 TACTCCAACCTC-GA
* * * * * *
185362 TTTTA-TTCTTAAAAAATCGATTTTTCACCATTGGAGATACTCCAACCTCGTTATTTCAGAGGGG
1 TTTTATTTC-TAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGG
* *
185426 ATACTCTAA-CTCTTA
65 ATACTCCAACCTC-GA
* *
185441 TTTTATTTCTAAAACATCGA-TTTCTCACCATCGGGGATACTCTAACCTCGTTGTTTCTGAGGAG
1 TTTTATTTCTAAAACATCGATTTTC-CACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGG
185505 ATACTCCAACCTCGA
65 ATACTCCAACCTCGA
* * *
185520 TTTTGTTTCCAAAATATCGACTTTTC
1 TTTTATTTCTAAAACATCGA-TTTTC
185546 ACTATCGAGG
Statistics
Matches: 406, Mismatches: 80, Indels: 24
0.80 0.16 0.05
Matches are distributed among these distances:
77 1 0.00
78 68 0.17
79 325 0.80
80 8 0.02
81 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGGGA
TACTCCAACCTCGA
Found at i:185338 original size:158 final size:158
Alignment explanation
Indices: 184968--185571 Score: 671
Period size: 158 Copynumber: 3.8 Consensus size: 158
184958 TCATTAATGT
* * * * *
184968 TTTTATTTCTAAAATATCGATTTTCCACCATCGGAGATACTCCAACCACGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGAGA
* * * * * * * *
185033 TACTCTAACCCCGATATTATTTCTAAAACATCAATTTTTTACAATTGGGGATACTCTAACCCCGT
66 TACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCAT
* *
185098 TATTTT-GAGAGAATATTCTAACCTCAA
131 TATTTTCGAGAGGATACTCTAACCTCAA
* * ** * *
185125 TTTTATTTTTAAAACA-CTGATTTTCCACCATCGGGGATACTCTAACGTTATTATTTCAGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGAG
** * *
185189 ATACTCCAACCTTGATTTTATTTCTAAAACATCGATTTTTTACCATCGGGGATACTCCAACCTCA
65 ATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCA
* * *
185254 TTATTTTCGAAAGGATACTCAAACCTCGA
130 TTATTTTCGAGAGGATACTCTAACCTCAA
* * * *
185283 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTTTAACCTTGTTATTTCTGAGAAAA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGAGA
* * * * * *
185348 TACTCCAACCCTGATTTTA-TTCTTAAAAAATCGATTTTTCACCATTGGAGATACTCCAACCTCG
66 TACTCCAACCCCGATTTTATTTC-TAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCA
* *
185412 TTA-TTTCAGAGGGGATACTCTAA-CTCTTA
130 TTATTTTC-GAGAGGATACTCTAACCTC-AA
*
185441 TTTTATTTCTAAAACATCGA-TTTCTCACCATCGGGGATACTCTAACCTCGTTGTTTCTGAGGAG
1 TTTTATTTCTAAAACATCGATTTTC-CACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGAG
* * * * * * * * *
185505 ATACTCCAACCTCGATTTTGTTTCCAAAATATCGACTTTTCACTATCGAGGTTTCTCCAACCCCA
65 ATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCA
185570 TT
130 TT
185572 TTTATTTCTA
Statistics
Matches: 378, Mismatches: 61, Indels: 15
0.83 0.13 0.03
Matches are distributed among these distances:
156 1 0.00
157 129 0.34
158 244 0.65
159 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (158 bp):
TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCTAACCTCGTTATTTCTGAGGAGA
TACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCAT
TATTTTCGAGAGGATACTCTAACCTCAA
Found at i:185473 original size:237 final size:235
Alignment explanation
Indices: 184968--185545 Score: 689
Period size: 237 Copynumber: 2.4 Consensus size: 235
184958 TCATTAATGT
* * * *
184968 TTTTATTTCTAAAATATCGATTTTCCACCATCGGAGATACTCCAACCACGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTT-CACCATCGGGGATACTCCAACCTCGTTATTTCTGAAGGGA
* * * * ** *
185033 TACTCTAACCCCGATATTATTTCTAAAACATCAATTTTTTACAATTGGGGATACTCTAACCCCGT
65 TACTCAAACCTCGATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCTAACCCCGT
* * * * * *
185098 TATTTTGAGAGAATATTCTAACCTCAATTTTATTTTTAAAACACTGATTTTCCACCATCGGGGAT
130 TATTTTGAGAAAATACTCCAACCTCAATTTTATTCTTAAAAAACTGATTTTCCACCATCGGAGAT
* * *
185163 ACTCTAACGTTATTATTTCAGAGGGGATACTCCAACCTTGA
195 ACTCCAACCTCATTATTTCAGAGGGGATACTCCAACCTTGA
* * *
185204 TTTTATTTCTAAAACATCGATTTTTTACCATCGGGGATACTCCAACCTCATTATTT-TCGAAAGG
1 TTTTATTTCTAAAACATCGA-TTTTCACCATCGGGGATACTCCAACCTCGTTATTTCT-GAAGGG
* * **
185268 ATACTCAAACCTCGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTTTAACCTTG
64 ATACTCAAACCTCGATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCTAACCCCG
* * *
185333 TTATTTCTGAGAAAATACTCCAACC-CTGATTTTATTCTTAAAAAA-TCGATTTTTCACCATTGG
129 TTATTT-TGAGAAAATACTCCAACCTC-AATTTTATTCTTAAAAAACT-GATTTTCCACCATCGG
* *
185396 AGATACTCCAACCTCGTTATTTCAGAGGGGATACTCTAACTCTT-A
191 AGATACTCCAACCTCATTATTTCAGAGGGGATACTCCAAC-CTTGA
* *
185441 TTTTATTTCTAAAACATCGATTTCTCACCATCGGGGATACTCTAACCTCGTTGTTTCTG-AGGAG
1 TTTTATTTCTAAAACATCGATTT-TCACCATCGGGGATACTCCAACCTCGTTATTTCTGAAGG-G
* * * *
185505 ATACTCCAACCTCGATTTTGTTTCCAAAATATCGACTTTTC
64 ATACTCAAACCTCGATTTTATTTCTAAAACATCGA-TTTTC
185546 ACTATCGAGG
Statistics
Matches: 291, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
235 1 0.00
236 117 0.40
237 164 0.56
238 9 0.03
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (235 bp):
TTTTATTTCTAAAACATCGATTTTCACCATCGGGGATACTCCAACCTCGTTATTTCTGAAGGGAT
ACTCAAACCTCGATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCTAACCCCGTT
ATTTTGAGAAAATACTCCAACCTCAATTTTATTCTTAAAAAACTGATTTTCCACCATCGGAGATA
CTCCAACCTCATTATTTCAGAGGGGATACTCCAACCTTGA
Found at i:188380 original size:150 final size:147
Alignment explanation
Indices: 188108--188380 Score: 316
Period size: 150 Copynumber: 1.8 Consensus size: 147
188098 CTAATTTTAT
* *
188108 TTTTTAAAATAATAAATTTAAAAGATATAAATACTCTTATTTATTTTTTTGTTATTTTAGTTTTG
1 TTTTTAAAATAATAAATTTAAAAGACATAAATACTCTTATTTATTTTTTTGTTATTTTAATTTTG
* * * ** * * *
188173 GGTTTTTTTCGTCAATTCTCTTGACTAAATTGGTATTATTTGACTTGTGACGCCAAATTCAATAA
66 GGTTTTTTTCGTCAATTCTCTTAACTAAATTAGTATCACATGACTCGTAACACCAAATTCAATAA
188238 AAAGCATTATAATAATA
131 AAAGCATTATAATAATA
* *
188255 TTTTTGAAATAATAAATTTAAAA-ACGTAAATACTCTTATTTA-TTTTTTGTTATTCTTTTAATT
1 TTTTTAAAATAATAAATTTAAAAGACATAAATACTCTTATTTATTTTTTTGTTA---TTTTAATT
* * * * * * *
188318 TTAGGTTTTTTTTTTGTCAATTCTCTTAATTTAATTAGTGTCGCATGACTCGTAACATCAAAT
63 TT-GG-GTTTTTTTCGTCAATTCTCTTAACTAAATTAGTATCACATGACTCGTAACACCAAAT
188381 ATAACGAAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
145 10 0.10
146 17 0.17
147 22 0.22
148 9 0.09
149 2 0.02
150 42 0.41
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (147 bp):
TTTTTAAAATAATAAATTTAAAAGACATAAATACTCTTATTTATTTTTTTGTTATTTTAATTTTG
GGTTTTTTTCGTCAATTCTCTTAACTAAATTAGTATCACATGACTCGTAACACCAAATTCAATAA
AAAGCATTATAATAATA
Found at i:189407 original size:18 final size:18
Alignment explanation
Indices: 189386--189504 Score: 92
Period size: 17 Copynumber: 6.9 Consensus size: 18
189376 ATATAAAAAT
189386 TATATTTTAAATATTTTA
1 TATATTTTAAATATTTTA
*
189404 TATA-TTTAAAT-TTTAA
1 TATATTTTAAATATTTTA
* *
189420 TAT-TTTGTTAATATTATA
1 TATATTT-TAAATATTTTA
*
189438 TAAACTTTTAAATA-TTTA
1 TATA-TTTTAAATATTTTA
189456 TATA--TT-AATATTTTA
1 TATATTTTAAATATTTTA
*
189471 TTATATTTTAATTATTTT-
1 -TATATTTTAAATATTTTA
* *
189489 TATATTATAATTATTT
1 TATATTTTAAATATTT
189505 AATAAAATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
14 4 0.05
15 6 0.07
16 13 0.16
17 26 0.32
18 17 0.21
19 12 0.15
20 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.61
Consensus pattern (18 bp):
TATATTTTAAATATTTTA
Found at i:189424 original size:8 final size:8
Alignment explanation
Indices: 189387--189508 Score: 58
Period size: 8 Copynumber: 14.4 Consensus size: 8
189377 TATAAAAATT
189387 ATATTTTAA
1 ATATTTT-A
189396 ATATTTT-
1 ATATTTTA
189403 ATATATTTA
1 ATAT-TTTA
189412 A-ATTTTA
1 ATATTTTA
189419 ATATTTTGTTA
1 ATA--TT-TTA
189430 ATATTATATA
1 ATATT-T-TA
189440 A-ACTTTTA
1 ATA-TTTTA
189448 A-ATATTT-
1 ATAT-TTTA
*
189455 ATATATTA
1 ATATTTTA
189463 ATATTTTA
1 ATATTTTA
189471 TTATATTTTA
1 --ATATTTTA
*
189481 ATTATTTTT
1 A-TATTTTA
*
189490 ATATTATA
1 ATATTTTA
189498 AT-TATTTA
1 ATAT-TTTA
189506 ATA
1 ATA
189509 AAATATTTAA
Statistics
Matches: 90, Mismatches: 7, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
7 14 0.16
8 35 0.39
9 20 0.22
10 15 0.17
11 6 0.07
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (8 bp):
ATATTTTA
Found at i:189484 original size:11 final size:12
Alignment explanation
Indices: 189449--189497 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 12
189439 AAACTTTTAA
189449 ATATTTATATATT
1 ATATTT-TATATT
189462 A-ATATTT-TATT
1 ATAT-TTTATATT
189473 ATATTTTA-ATT
1 ATATTTTATATT
189484 AT-TTTTATATT
1 ATATTTTATATT
189495 ATA
1 ATA
189498 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
10 5 0.16
11 18 0.58
12 5 0.16
13 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTTTATATT
Found at i:190347 original size:7 final size:7
Alignment explanation
Indices: 190335--190360 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
190325 CACATTAACT
190335 TGATCAA
1 TGATCAA
190342 TGATCAA
1 TGATCAA
190349 TGATCAA
1 TGATCAA
190356 TGATC
1 TGATC
190361 CAAAGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (7 bp):
TGATCAA
Found at i:190410 original size:17 final size:18
Alignment explanation
Indices: 190385--190420 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
190375 TTCTTTTTGT
*
190385 CCCCGCCCCCC-CCCCCC
1 CCCCACCCCCCACCCCCC
190402 CCCCACCCCCCACCCCCC
1 CCCCACCCCCCACCCCCC
190420 C
1 C
190421 GGTGCTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.06, C:0.92, G:0.03, T:0.00
Consensus pattern (18 bp):
CCCCACCCCCCACCCCCC
Found at i:198489 original size:18 final size:18
Alignment explanation
Indices: 198459--198505 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
198449 ATCTTTTTCT
198459 CTCCTC-CTCCTATCATCC
1 CTCCTCTCT-CTATCATCC
* *
198477 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATCATCC
*
198495 CTCCTATCTCT
1 CTCCTCTCTCT
198506 CCTCCTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.11, C:0.47, G:0.00, T:0.43
Consensus pattern (18 bp):
CTCCTCTCTCTATCATCC
Found at i:198514 original size:42 final size:42
Alignment explanation
Indices: 198462--198580 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 42
198452 TTTTTCTCTC
* * *
198462 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCATATCT
198504 CTCCTCCTATCATCCC-CCATATCTCTACTATCTCTCATATCT
1 CTCCTCCTATCATCCCTCC-TATCTCTACTATCTCTCATATCT
* *
198546 CTCCTCCTATCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
198581 TTAAGGGCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
41 2 0.03
42 66 0.94
43 2 0.03
ACGTcount: A:0.13, C:0.45, G:0.00, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCATATCT
Found at i:201343 original size:19 final size:19
Alignment explanation
Indices: 201316--201365 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
201306 TTATTATAAT
201316 TAAA-ATTTAATATTTAAA
1 TAAATATTTAATATTTAAA
201334 -AAATATTTTAATA-TTAAA
1 TAAATA-TTTAATATTTAAA
201352 TAAATATTTAATAT
1 TAAATATTTAATAT
201366 AGTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.11
18 13 0.46
19 12 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATATTTAATATTTAAA
Found at i:204618 original size:16 final size:17
Alignment explanation
Indices: 204594--204629 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
204584 ACTTTAAAAG
204594 TTACATTTAA-TATTTT
1 TTACATTTAATTATTTT
*
204610 TTACCTTTAATTATTTT
1 TTACATTTAATTATTTT
204627 TTA
1 TTA
204630 TTATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (17 bp):
TTACATTTAATTATTTT
Found at i:206119 original size:33 final size:32
Alignment explanation
Indices: 206073--206151 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
206063 AAAAAATAAT
*
206073 TAAAATATATAATTTTATTAAAATTTATATACA
1 TAAAATATATAA-TTTATCAAAATTTATATACA
* * * *
206106 TAAATTATTTAATTTATCAAATTTTATATAAA
1 TAAAATATATAATTTATCAAAATTTATATACA
*
206138 T-ATATA-ATAATTTA
1 TAAAATATATAATTTA
206152 AATCAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 7 0.18
31 3 0.08
32 18 0.47
33 10 0.26
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TAAAATATATAATTTATCAAAATTTATATACA
Found at i:206163 original size:20 final size:21
Alignment explanation
Indices: 206135--206173 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
206125 AATTTTATAT
206135 AAATATATAATAAT-TTAAATC
1 AAATATATAA-AATATTAAATC
206156 AAAT-TATAAAATATTAAA
1 AAATATATAAAATATTAAA
206174 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATATATAAAATATTAAATC
Found at i:206841 original size:5 final size:5
Alignment explanation
Indices: 206831--206865 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
206821 AACAACTAAT
206831 GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA
1 GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA
206866 ACAAGATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:212562 original size:55 final size:55
Alignment explanation
Indices: 212496--212601 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
212486 TGTATATAAT
*
212496 AATATTTTATTAAAAAACTTAAAAATAAACTATATATA-AATATTTAAAAAGTAAG
1 AATATTTTATTAAAAAACTTAAAAATAAACTATATATATAAT-TTGAAAAAGTAAG
* * * *
212551 AATATTTTATTAGAAAACTTGAAAATAAATTTTATATATAATTTGAAAAAG
1 AATATTTTATTAAAAAACTTAAAAATAAACTATATATATAATTTGAAAAAG
212602 CAGGTTAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 42 0.93
56 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.37
Consensus pattern (55 bp):
AATATTTTATTAAAAAACTTAAAAATAAACTATATATATAATTTGAAAAAGTAAG
Found at i:214656 original size:51 final size:51
Alignment explanation
Indices: 214598--214705 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
214588 GGTGTTAGAA
* *
214598 TATCCCCAATTGTGGAAAATCGATGTTTTGAAAATAAAATCGGAGTTGGAG
1 TATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATCGGAGTTGGAG
* *
214649 TATCCCCAATGGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAG
1 TATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATCGGAGTTGGAG
214700 TATCCC
1 TATCCC
214706 TTCGGAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
TATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATCGGAGTTGGAG
Found at i:214832 original size:50 final size:50
Alignment explanation
Indices: 214719--214832 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
214709 GGAAATAATA
* *
214719 GGGTTGGAGTATGCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCG
1 GGGTTGGAGTAT-CCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCG
* * * *
214770 GGATTGGGGTATCCCGATGGTGAAAAAT-TGATGTTTTAGAAATAAAACCG
1 GGGTTGGAGTATCCCGATGGTGAAAAATCAG-TATTTTAGAAATAAAACCG
*
214820 GGGTTAGAGTATC
1 GGGTTGGAGTATC
214833 TCCTCGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
49 1 0.02
50 42 0.79
51 10 0.19
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (50 bp):
GGGTTGGAGTATCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCG
Found at i:214844 original size:129 final size:129
Alignment explanation
Indices: 214533--214912 Score: 486
Period size: 129 Copynumber: 2.9 Consensus size: 129
214523 ATCGATTATT
* * *
214533 AAAAATTGGTGTTTTGGAAATAAAATCGGGATTGGAGTATCCCTTCGAAAATAA-CGGTGTTAGA
1 AAAAATTGATGTTTT-GAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAATAGG-GTTAGA
* * * *
214597 ATATCCCCAATTGTGGAAAATCG-ATGTTTTGAAAATAAAATC-GGAGTTGGAGTATCCCCAATG
64 GTATCCCCGATTGTGAAAAATCGTAT-TTTAG-AAATAAAATCGGGAGTTGGAGTATCCCCAATG
214660 GTG
127 GTG
* *
214663 AAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCGGAAATAATAGGGTTGGAG
1 AAAAATTGATGTTTTG-AAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAATAGGGTTAGAG
* * *
214728 TATGCCCGATTGTGAAAAATCAGTATTTTAGAAATAAAATCGGGA-TTGGGGTAT-CCCGATGGT
65 TATCCCCGATTGTGAAAAATC-GTATTTTAGAAATAAAATCGGGAGTTGGAGTATCCCCAATGGT
214791 G
129 G
* * *
214792 AAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCTCC-TCGAAAATAATAAGGTTAGA
1 AAAAATTGATGTTTT-GAAATAAAATCGGGGTTGGAGTATC-CCTTCGAAAATAATAGGGTTAGA
*
214856 GTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGG-GTTAGAGTATCC
64 GTATCCCCGATTGTGAAAAATCG-TATTTTAGAAATAAAATCGGGAGTTGGAGTATCC
214913 TCTTGAAAAT
Statistics
Matches: 220, Mismatches: 20, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
128 1 0.00
129 113 0.51
130 94 0.43
131 10 0.05
132 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (129 bp):
AAAAATTGATGTTTTGAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAATAGGGTTAGAGT
ATCCCCGATTGTGAAAAATCGTATTTTAGAAATAAAATCGGGAGTTGGAGTATCCCCAATGGTG
Found at i:214886 original size:79 final size:79
Alignment explanation
Indices: 214773--215702 Score: 1001
Period size: 79 Copynumber: 11.8 Consensus size: 79
214763 AAAATCGGGA
* * * * * * *
214773 TTGGGGTAT-CCCGATGGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCTCCT
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
* *
214837 CGAAAATAATAAGG
66 CGAAAATAACAGGG
* * *
214851 TTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCTCT
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
* *
214916 TGAAAATAACAAGG
66 CGAAAATAACAGGG
* * *
214930 TTGG-GATATCTCCGATTGTGGAAAAT-TAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCC
1 TTGGAG-TATCCCCGATTGTGAAAAATCGA-TATTTTAGAAATAAAATCGGGGTTGGAGTATCCC
*
214993 CTCGGAAATAAC-GAGG
64 CTCGAAAATAACAG-GG
* * * * * *
215009 TTGGAGTATCTCCGATTGTAAAAAATTGATATTTTAAAAATAAAATCGGAGTTGGAGTATCCACT
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
*
215074 CGGAAATAACAGGG
66 CGAAAATAACAGGG
* ** * *
215088 TTGGAGTATCCTCGATTGTGAAAAATTAATATTTTAGAAATAAAATTGGGGTTGGAGTATTCCCT
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
*
215153 CGGAAATAACAGGG
66 CGAAAATAACAGGG
* **
215167 TTGGAGTATCCCCGATTGTGAAAAAT-TAGTATTTTAGAAATAAAATTAGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATCGA-TATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* *
215231 TTGAAAATAAC-GGAA
65 TCGAAAATAACAGG-G
* *
215246 TT-GAGTATCCTCGATTGT-AGAAAATCGATATTTTAGAAATAAAATTGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGA-AAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
215309 TC-AGAAATAAC-GAGG
65 TCGA-AAATAACAG-GG
* ** * * * * *
215324 TTAGAGTATCTTCGATTGTGGAAAATCAATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCTCT
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
215389 C-AGAAATAACAGGG
66 CGA-AAATAACAGGG
* * * *
215403 TTGGAGTATCCTCGATTGTGAAAAAT-TAGTATTTTAGAAATAAAATCGGGGTTAGAGTAT-CTC
1 TTGGAGTATCCCCGATTGTGAAAAATCGA-TATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
215466 TCGAAAATAACGGGG
65 TCGAAAATAACAGGG
* * * * *
215481 TTGAAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAA-CTAGGGTTAGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATC-GGGGTTGGAGTATCCCC
*
215545 TC-AGAAATAACGGGG
65 TCGA-AAATAACAGGG
* * *
215560 TTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
** *
215625 AAAAAATAACGGGG
66 CGAAAATAACAGGG
* * * * * * *
215639 TTAGAGTATTCTCGATTGTGAAAAATCAATATTTTTGAAATAAAA-CTAGGGTTAGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATC-GGGGTTGGAGTATCCCC
215703 GATTGTGCAA
Statistics
Matches: 745, Mismatches: 82, Indels: 49
0.85 0.09 0.06
Matches are distributed among these distances:
77 3 0.00
78 144 0.19
79 593 0.80
80 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
CGAAAATAACAGGG
Found at i:215377 original size:236 final size:236
Alignment explanation
Indices: 214793--215702 Score: 1073
Period size: 236 Copynumber: 3.9 Consensus size: 236
214783 CCGATGGTGA
* * * **
214793 AAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCTCCTC-GAAAATAATAAGGTTAGAG
1 AAAATCGATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAG-AAATAACGAGGTTAGAG
* * **
214857 TATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCTCTTGAAAA
65 TATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAA
* * * * *
214922 TAACAAGGTTGG-GATATCTCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGA
130 TAACAGGGTTGGAG-TATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCAGGGTTAGA
* *
214986 GTATCCCCTCGGAAATAAC-GAGGTTGGAGTAT-CTCCGATTGTAA
194 GTATCCCCTCGAAAATAACGGA-GTT-GAGTATCCT-CGATTGTAG
* * * * * * * *
215030 AAAATTGATATTTTAAAAATAAAATCGGAGTTGGAGTATCCACTCGGAAATAAC-AGGGTTGGAG
1 AAAATCGATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGA-GGTTAGAG
* * * **
215094 TATCCTCGATTGTGAAAAATTAATATTTTAGAAATAAAATTGGGGTTGGAGTATTCC-CTCGGAA
65 TATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTA-TCCTCTCAAAA
* *
215158 ATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATTAGGGTTGGA
129 ATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCAGGGTTAGA
* *
215223 GTATCCCCTTGAAAATAACGGAATTGAGTATCCTCGATTGTAG
194 GTATCCCCTCGAAAATAACGGAGTTGAGTATCCTCGATTGTAG
** *
215266 AAAATCGATATTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGT
1 AAAATCGATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTAGAGT
** * * * *
215331 ATCTTCGATTGTGGAAAATCAATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCTCTCAGAAAT
66 ATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAAT
* *
215396 AACAGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTAGAGT
131 AACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCAGGGTTAGAGT
* * *
215461 AT-CTCTCGAAAATAACGGGGTTGAAGTATCCCCGATTGT-G
196 ATCCCCTCGAAAATAACGGAGTTG-AGTATCCTCGATTGTAG
* * ** * *
215501 AAAAATCGATGTTTTGGAAATAAAACTAGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAG
1 -AAAATCGATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTAGAG
* * * * * *
215566 TATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGTATCCCCTAAAAAA
65 TATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAA
* * * * * * *
215631 TAACGGGGTTAGAGTATTCTCGATTGTGAAAAATCAATATTTTTGAAATAAAA-CTAGGGTTAGA
130 TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATC-AGGGTTAGA
215695 GTATCCCC
194 GTATCCCC
215703 GATTGTGCAA
Statistics
Matches: 590, Mismatches: 71, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
235 22 0.04
236 375 0.64
237 186 0.32
238 7 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (236 bp):
AAAATCGATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTAGAGT
ATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCTCTCAAAAAT
AACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCAGGGTTAGAGT
ATCCCCTCGAAAATAACGGAGTTGAGTATCCTCGATTGTAG
Found at i:215700 original size:130 final size:130
Alignment explanation
Indices: 215557--215813 Score: 406
Period size: 130 Copynumber: 2.0 Consensus size: 130
215547 AGAAATAACG
* *
215557 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
* *
215622 CCTAAAAAATAACGGGGTTAGAGTATTCTCGATTGTGAAAAATCAATATTTTTGAAATAAAACTA
66 CCTAAAAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAAATCAATATTTTAGAAATAAAACTA
*
215687 GGGTTAGAGTATCCCCGATTGTGCAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
* * * * * * *
215752 CCTTAGAAATAACGGGGTTGGAGTATCCTTGATTGTGGAAAATCGATGTTTTAGAAATAAAA
66 CCTAAAAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAAATCAATATTTTAGAAATAAAA
215814 ATATGAATGA
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 115 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (130 bp):
GGGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
CCTAAAAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAAATCAATATTTTAGAAATAAAACTA
Found at i:215706 original size:51 final size:51
Alignment explanation
Indices: 215636--215753 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
215626 AAAAATAACG
* * *
215636 GGGTTAGAGTATTCTCGATTGTGAAAAATCAATATTTTTGAAATAAAA-CTA
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAATC-A
* * * *
215687 GGGTTAGAGTATCCCCGATTGTGCAAAATCGATGTTTTGGAAATAAAATCG
1 GGGTTAGAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAATCA
*
215738 GGGTTGGAGTATCCCC
1 GGGTTAGAGTATCCCC
215754 TTAGAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
GGGTTAGAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAATCA
Found at i:218201 original size:21 final size:21
Alignment explanation
Indices: 218157--218201 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
218147 TCAAAAATAC
218157 CTGA-AAATGTATCGATACAT
1 CTGAGAAATGTATCGATACAT
218177 -TGAGAAATGTATCGATACAT
1 CTGAGAAATGTATCGATACAT
218197 CTGAG
1 CTGAG
218202 TTAAAACCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (21 bp):
CTGAGAAATGTATCGATACAT
Found at i:218278 original size:46 final size:48
Alignment explanation
Indices: 218162--218290 Score: 154
Period size: 51 Copynumber: 2.7 Consensus size: 48
218152 AATACCTGAA
* * *
218162 AATGTATCGATACATTGAGAAATGTATCGATACATCTGAGTTAAAACCCAG
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTGAGGT-AAA--CAG
* *
218213 AATGTATCAATACAATGAAAAATGTATCGATACATCTGGGGT-AA-AG
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTGAGGTAAACAG
* *
218259 AATGTGTCGATACAATGAAAGATGTATCGATA
1 AATGTATCGATACAATGAAAAATGTATCGATA
218291 TAATTTGTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 31 0.44
49 2 0.03
51 37 0.53
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCTGAGGTAAACAG
Found at i:218288 original size:20 final size:20
Alignment explanation
Indices: 218214--218290 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 20
218204 AAAACCCAGA
* *
218214 ATGTATCAATACAATGAAAA
1 ATGTATCGATACAATGAAAG
*
218234 ATGTATCGATACATCTGGGGTAAAG
1 ATGTATCGATACA-AT---G-AAAG
*
218259 AATGTGTCGATACAATGAAAG
1 -ATGTATCGATACAATGAAAG
218280 ATGTATCGATA
1 ATGTATCGATA
218291 TAATTTGTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 22 0.49
21 5 0.11
22 1 0.02
24 1 0.02
25 4 0.09
26 12 0.27
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAG
Found at i:220866 original size:16 final size:16
Alignment explanation
Indices: 220845--220876 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
220835 AGGGTGGTAT
220845 TTTGGTCATTTCCTTC
1 TTTGGTCATTTCCTTC
220861 TTTGGTCATTTCCTTC
1 TTTGGTCATTTCCTTC
220877 CACCCATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.12, T:0.56
Consensus pattern (16 bp):
TTTGGTCATTTCCTTC
Found at i:222077 original size:17 final size:17
Alignment explanation
Indices: 222055--222142 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
222045 TTAAGTAAGT
*
222055 GACTAATCGAATTATTG
1 GACTAATCGAATTATTA
* * *
222072 GACTAAATAGCAAGTATCA
1 GACT-AATCG-AATTATTA
* *
222091 TACTAATCGAATTATTG
1 GACTAATCGAATTATTA
* *
222108 GACTAAATAGCAATTATCA
1 GACT-AATCG-AATTATTA
*
222127 TACTAATCGAATTATT
1 GACTAATCGAATTATT
222143 TGATGACGCC
Statistics
Matches: 51, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
17 18 0.35
18 16 0.31
19 17 0.33
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (17 bp):
GACTAATCGAATTATTA
Found at i:222087 original size:36 final size:35
Alignment explanation
Indices: 222056--222142 Score: 147
Period size: 36 Copynumber: 2.4 Consensus size: 35
222046 TAAGTAAGTG
222056 ACTAATCGAATTATTGGACTAAATAGCAAGTATCAT
1 ACTAATCGAATTATTGGACTAAATAGCAAGTA-CAT
*
222092 ACTAATCGAATTATTGGACTAAATAGCAATTATCAT
1 ACTAATCGAATTATTGGACTAAATAGCAAGTA-CAT
222128 ACTAATCGAATTATT
1 ACTAATCGAATTATT
222143 TGATGACGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (35 bp):
ACTAATCGAATTATTGGACTAAATAGCAAGTACAT
Found at i:222124 original size:19 final size:19
Alignment explanation
Indices: 222064--222124 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
222054 TGACTAATCG
222064 AATTATTGGACTAAATAGC
1 AATTATTGGACTAAATAGC
* *** *
222083 AAGTATCATACT-AATCG-
1 AATTATTGGACTAAATAGC
222100 AATTATTGGACTAAATAGC
1 AATTATTGGACTAAATAGC
222119 AATTAT
1 AATTAT
222125 CATACTAATC
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 8 0.27
18 8 0.27
19 14 0.47
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (19 bp):
AATTATTGGACTAAATAGC
Found at i:222131 original size:19 final size:19
Alignment explanation
Indices: 222073--222132 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
222063 GAATTATTGG
*
222073 ACTAAATAGCAAGTATCAT
1 ACTAAATAGCAATTATCAT
* ***
222092 ACT-AATCG-AATTATTGG
1 ACTAAATAGCAATTATCAT
222109 ACTAAATAGCAATTATCAT
1 ACTAAATAGCAATTATCAT
222128 ACTAA
1 ACTAA
222133 TCGAATTATT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
17 8 0.27
18 8 0.27
19 14 0.47
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (19 bp):
ACTAAATAGCAATTATCAT
Found at i:224132 original size:21 final size:21
Alignment explanation
Indices: 224108--224152 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
224098 ATTTATTATT
224108 TAATTATAACATAATTAATAA
1 TAATTATAACATAATTAATAA
* *
224129 TAATTTTAATATAATTAATAA
1 TAATTATAACATAATTAATAA
224150 TAA
1 TAA
224153 ACTCGTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATTATAACATAATTAATAA
Found at i:227070 original size:8 final size:8
Alignment explanation
Indices: 227041--227106 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
227031 TTAATTTTAC
227041 TAAAACAAT
1 TAAAA-AAT
*
227050 TAACAAAT
1 TAAAAAAT
*
227058 AAAAAAAT
1 TAAAAAAT
*
227066 TAAAAAAA
1 TAAAAAAT
227074 TAATAAAAT
1 TAA-AAAAT
227083 TATAAAAA-
1 TA-AAAAAT
*
227091 TAAAAATT
1 TAAAAAAT
*
227099 TTAAAAAT
1 TAAAAAAT
227107 ATAATATTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
7 4 0.09
8 26 0.58
9 14 0.31
10 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAAAAT
Found at i:227071 original size:9 final size:8
Alignment explanation
Indices: 227054--227142 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 8
227044 AACAATTAAC
227054 AAATAAAA
1 AAATAAAA
227062 AAATTAAAA
1 AAA-TAAAA
227071 AAATAATAA
1 AAATAA-AA
* *
227080 AATTATAA
1 AAATAAAA
227088 AAATAAAA
1 AAATAAAA
**
227096 ATTTTAAAA
1 A-AATAAAA
* *
227105 ATATAATATT
1 AAATAA-A-A
227115 AAAT-AAA
1 AAATAAAA
227122 AAATAAATA
1 AAATAAA-A
227131 ATAATAAAA
1 A-AATAAAA
227140 AAA
1 AAA
227143 AAACCTATGC
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
7 4 0.06
8 24 0.38
9 26 0.41
10 9 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAATAAAA
Found at i:227074 original size:17 final size:17
Alignment explanation
Indices: 227041--227110 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 17
227031 TTAATTTTAC
* *
227041 TAAAACAATT-AACAAA
1 TAAAAAAATTAAAAAAA
227057 TAAAAAAATTAAAAAAA
1 TAAAAAAATTAAAAAAA
* *
227074 TAATAAAATTATAAAAA
1 TAAAAAAATTAAAAAAA
** *
227091 TAAAAATTTTAAAAATA
1 TAAAAAAATTAAAAAAA
227108 TAA
1 TAA
227111 TATTAAATAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 9 0.20
17 35 0.80
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAAATTAAAAAAA
Found at i:227093 original size:34 final size:33
Alignment explanation
Indices: 227054--227143 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 33
227044 AACAATTAAC
227054 AAATAAAAAAATTAAAAAAATAATA-AAATTATAA
1 AAATAAAAAAATTAAAAAAATAATATAAA-TA-AA
** *
227088 AAATAAAAATTTTAAAAATATAATATTAAATAAA
1 AAATAAAAAAATTAAAAAAATAATA-TAAATAAA
*
227122 AAATAAATAATAATAAAAAAAA
1 AAATAAA-AA-AATTAAAAAAA
227144 AACCTATGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
34 31 0.69
35 4 0.09
36 10 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (33 bp):
AAATAAAAAAATTAAAAAAATAATATAAATAAA
Found at i:227136 original size:17 final size:17
Alignment explanation
Indices: 227068--227141 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 17
227058 AAAAAAATTA
227068 AAAAAAT-AATAA-AATT
1 AAAAAATAAATAATAA-T
*
227084 ATAAAAATAAA-AAT-TT
1 A-AAAAATAAATAATAAT
* *
227100 TAAAAATATAATATTAAAT
1 AAAAAATA-AATAAT-AAT
227119 AAAAAATAAATAATAAT
1 AAAAAATAAATAATAAT
227136 AAAAAA
1 AAAAAA
227142 AAAACCTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
15 7 0.16
16 4 0.09
17 19 0.42
18 7 0.16
19 8 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATAAATAATAAT
Found at i:228046 original size:12 final size:12
Alignment explanation
Indices: 228031--228066 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
228021 TATGCTATTC
* *
228031 TCTTTCTTTCTC
1 TCTTTCTCTCTT
228043 TCTTTCTCTCTT
1 TCTTTCTCTCTT
228055 TCTTTCTCTCTT
1 TCTTTCTCTCTT
228067 ATAATGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
TCTTTCTCTCTT
Found at i:228054 original size:20 final size:20
Alignment explanation
Indices: 228029--228066 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
228019 TCTATGCTAT
228029 TCTCTTTCTTTCTCTCTTTC
1 TCTCTTTCTTTCTCTCTTTC
228049 TCTCTTTCTTTCTCTCTT
1 TCTCTTTCTTTCTCTCTT
228067 ATAATGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTCTTTCTTTCTCTCTTTC
Found at i:239318 original size:194 final size:192
Alignment explanation
Indices: 238688--239517 Score: 425
Period size: 194 Copynumber: 4.3 Consensus size: 192
238678 GTATGTTTTG
* * * * * * *
238688 TAATTTCATT-TTCATTTTGGGTTTAGGATTTTATTATTTGTTCTATTAAATTACTTAATTTTAT
1 TAATTTCATTACTC-TTTT-GGTTTAAGATTTTACTAATT-TTC-CTTAAATTACTTGATTTT-G
** * * * * * * *
238752 TACAAGTTTACTAAAAATATTAGAATAAGTTATAAGAAAATTAT-GTAGTTTTCATTTTATAT-T
61 TATGAGTTTACTAAATATATTAAAATAAATGAGAAGAAAATTATCG-AATTTTCATTTTAAATAT
* * * * * * * * *
238815 TTTTCTTTATTAATTGCATATTATTCTTA-TAGATTACAAGATTTGTTAAATGTTTAGATAATAA
125 TTTTCATGA--AATTACATATTATTCTCACCAAATTACAAGATTTATTAAATGTTTTGATAATAT
*
238879 ATATA
188 ATCTA
* * * * ** *
238884 GTAATGTCTTTTAC-CTTTGGGGTTTAGGA-TTTACTGCTTTTTCTATTAAATTACTTGATGTTT
1 -TAATTTC-ATTACTCTTT-TGGTTTAAGATTTTACT-AATTTTC-CTTAAATTACTTGAT-TTT
* * *** * * * * **
238947 -TGTGAGTGTAAC-AAATATATTAAAATCGGTGA-TACAAAATTAT-GTAATTTTTATTGTGCAT
60 GTATGAGT-TTACTAAATATATTAAAATAAATGAGAAGAAAATTATCG-AATTTTCATTTTAAAT
* * * * * * * * * *
239008 AATTTTCTTTATAACTTACATATTATT-TTACTAAATTAGAAGATTTGTTGAAT-ATTTGATAAC
123 ATTTTTCATGA-AA-TTACATATTATTCTCACCAAATTACAAGATTTATTAAATGTTTTGATAAT
*
239071 ATACCTTA
186 ATATC-TA
* * * *
239079 CAATTTCATTTAC-C---T--TTTAGGATTTCACTACTTTTTCCTTAAATTACTTGATTTTGTAA
1 TAATTTCA-TTACTCTTTTGGTTTAAGATTTTACTA-ATTTTCCTTAAATTACTTGATTTTGT-A
* ** ** * * * *
239138 TGAGTTTAC-CAATATATTAGTATAGGTGAGACGAATATTGT-GCAATTTTCATTTTAAATCTTT
63 TGAGTTTACTAAATATATTAAAATAAATGAGAAGAAAATTATCG-AATTTTCATTTTAAAT-ATT
* * * ** *
239201 TTTC-TG-CATTATATATTATTCTTACCAAATTACTAATTTTTTTTAAAAT-TTTATGATAATAT
126 TTTCATGAAATTACATATTATTCTCACCAAATTAC-AAGATTTATT-AAATGTTT-TGATAATAT
*
239263 ATTTTA
188 A-TCTA
* * *
239269 TAATTTCATTAC-CTTTTGGGTTT-AGATTTTATTACTTTTCACTTAAATTAC-TAATTTTGTAT
1 TAATTTCATTACTCTTTT-GGTTTAAGATTTTACTAATTTTC-CTTAAATTACTTGATTTTGTAT
* * * *
239331 GATTTTACTAAATATATTAAAATAAATGATAAGAAAATTATCGAATTTTTATTTTACATATTTTT
64 GAGTTTACTAAATATATTAAAATAAATGAGAAGAAAATTATCGAATTTTCATTTTAAATATTTTT
239396 CATGTAAATTACATATTATTCTCACCAAATTACAAGATTTATTAAATGTTTTGATAATATATCTA
129 CATG-AAATTACATATTATTCTCACCAAATTACAAGATTTATTAAATGTTTTGATAATATATCTA
* *
239461 TAATTTCATTTCTCTTTTGGTTTAAAGATTTTACTAATTTTCTGTTAAATTACTTGA
1 TAATTTCATTACTCTTTTGGTTT-AAGATTTTACTAATTTTC-CTTAAATTACTTGA
239518 AGAATGTTGC
Statistics
Matches: 490, Mismatches: 104, Indels: 80
0.73 0.15 0.12
Matches are distributed among these distances:
186 11 0.02
187 14 0.03
188 48 0.10
189 46 0.09
190 23 0.05
192 35 0.07
193 71 0.14
194 100 0.20
195 89 0.18
196 26 0.05
197 24 0.05
198 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (192 bp):
TAATTTCATTACTCTTTTGGTTTAAGATTTTACTAATTTTCCTTAAATTACTTGATTTTGTATGA
GTTTACTAAATATATTAAAATAAATGAGAAGAAAATTATCGAATTTTCATTTTAAATATTTTTCA
TGAAATTACATATTATTCTCACCAAATTACAAGATTTATTAAATGTTTTGATAATATATCTA
Found at i:240491 original size:20 final size:20
Alignment explanation
Indices: 240455--240496 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
240445 AGAATATATT
*
240455 TTTTTTATAATATTTTAAAA
1 TTTTTTATAATAATTTAAAA
* *
240475 TTTTTTATACTAATTTAGAA
1 TTTTTTATAATAATTTAAAA
240495 TT
1 TT
240497 AAAATATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTTATAATAATTTAAAA
Found at i:244958 original size:16 final size:15
Alignment explanation
Indices: 244934--244990 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
244924 TAAAAGTTTG
*
244934 AATTCAAAATAATTTA
1 AATTTAAAA-AATTTA
*
244950 AATTTAAAAATTTTA
1 AATTTAAAAAATTTA
244965 AATTTAAAAAATTTGA
1 AATTTAAAAAATTT-A
*
244981 AATTGAAAAA
1 AATTTAAAAA
244991 GCTCGAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
15 18 0.50
16 18 0.50
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (15 bp):
AATTTAAAAAATTTA
Found at i:244990 original size:31 final size:31
Alignment explanation
Indices: 244925--244991 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
244915 TTAAAAAGTT
* *
244925 AAAAGTTTGAATTCAAAATAATTTAAATTTA
1 AAAAGTTTAAATTCAAAATAATTTAAATTGA
* *
244956 AAAATTTTAAATTTAAAA-AATTTGAAATTGA
1 AAAAGTTTAAATTCAAAATAATTT-AAATTGA
244987 AAAAG
1 AAAAG
244992 CTCGAAATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (31 bp):
AAAAGTTTAAATTCAAAATAATTTAAATTGA
Found at i:245979 original size:2 final size:2
Alignment explanation
Indices: 245974--246005 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
245964 TAATTTTTTA
245974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
246006 GAGTAAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:246757 original size:21 final size:21
Alignment explanation
Indices: 246728--246767 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
246718 CAACTTGTAC
246728 TTATCTTTTATCA-TATTTTAA
1 TTATCTTTTAT-ATTATTTTAA
*
246749 TTATTTTTTATATTATTTT
1 TTATCTTTTATATTATTTT
246768 TATACCGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATCTTTTATATTATTTTAA
Found at i:247566 original size:2 final size:2
Alignment explanation
Indices: 247559--247602 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
247549 ATGAATTTTC
* *
247559 AT AT AT AT AT AT AT AT AT AT AT -T TT AT AT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
247600 AT A
1 AT A
247603 CATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:247663 original size:14 final size:14
Alignment explanation
Indices: 247644--247670 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
247634 AGATGAGAAA
247644 ATACATACATACAC
1 ATACATACATACAC
247658 ATACATACATACA
1 ATACATACATACA
247671 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
ATACATACATACAC
Found at i:247677 original size:2 final size:2
Alignment explanation
Indices: 247670--247700 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
247660 ACATACATAC
247670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
247701 ATAGTGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:253058 original size:78 final size:79
Alignment explanation
Indices: 252929--253100 Score: 242
Period size: 78 Copynumber: 2.2 Consensus size: 79
252919 ACAACGGGGC
* * * *
252929 TGGAGTATCCCCGATTGTGGAAAATCTATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGC
1 TGGAGTATCCCCGATTGTGGAAAATCAATACTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCGC
252994 -AAAATAAC-AGGGT
66 GAAAATAACGA-GGT
* *
253007 TGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCT
1 TGGAGTATCCCCGATTGTGGA-AAATCAATACTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCG
*
253071 CGGAAATAACGAGGT
65 CGAAAATAACGAGGT
253086 TGGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
253101 GAAATAACAA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.02
78 56 0.67
79 25 0.30
80 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (79 bp):
TGGAGTATCCCCGATTGTGGAAAATCAATACTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCGC
GAAAATAACGAGGT
Found at i:253128 original size:28 final size:28
Alignment explanation
Indices: 253055--253128 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
253045 ATAAAGCCGG
* *** *
253055 GGTTAGAGTATCCCCTCGGAAATAACGA
1 GGTTGGAGTATCCCCGATGAAATAACAA
253083 GGTTGGAGTATCCCCGATGAAATAACAA
1 GGTTGGAGTATCCCCGATGAAATAACAA
253111 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
253129 TATGAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACAA
Found at i:253171 original size:107 final size:106
Alignment explanation
Indices: 252977--253176 Score: 251
Period size: 107 Copynumber: 1.9 Consensus size: 106
252967 ATAAGGCCGG
* * *
252977 GGTTGGAGTATCCCCGCAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 GGTTGGAGTATCCCCGCAAAATAACAAGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTA
* * *
253042 GAAATAAAGCCGGGGTTAGAGTATCCCCTCGGAAATAACGA
66 GAAATAAAACCAGAGTTAGAGTATCCCCTCGGAAATAACGA
*** *
253083 GGTTGGAGTATCCCCG-ATGAAATAACAAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTT
1 GGTTGGAGTATCCCCGCA--AAATAACAAGGTTGGAGTATCCCCGATTATGAAAAATCAATATTT
* *
253147 T-GAAAATAAAATCAGAGTTGGAGTATCCCC
64 TAG-AAATAAAACCAGAGTTAGAGTATCCCC
253177 GATTGTGGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
105 1 0.01
106 17 0.22
107 61 0.77
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (106 bp):
GGTTGGAGTATCCCCGCAAAATAACAAGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTA
GAAATAAAACCAGAGTTAGAGTATCCCCTCGGAAATAACGA
Found at i:253172 original size:51 final size:51
Alignment explanation
Indices: 253112--253227 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
253102 AAATAACAAG
* *
253112 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAG-AAATAAAACCAGA
* * * *
253163 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCAGA
253214 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
253228 TCAGAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCAGA
Found at i:255679 original size:20 final size:20
Alignment explanation
Indices: 255654--255727 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
255644 GTAAACCCAG
255654 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAT
*
255674 AATGTATCGATATAATGAAT
1 AATGTATCGATACAATGAAT
* *
255694 AATGTATCGATATAATGAAC
1 AATGTATCGATACAATGAAT
255714 AATGTATCGATACA
1 AATGTATCGATACA
255728 TCTGGGTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACAATGAAT
Found at i:255769 original size:90 final size:89
Alignment explanation
Indices: 255605--255775 Score: 261
Period size: 90 Copynumber: 1.9 Consensus size: 89
255595 AAAATGCTAG
* ** *
255605 AATGTATCAATACATTGAAAAATGTATCGATGTATCTGGGTAAACCCAGAATGTATCGATACAAT
1 AATGTATCAATACAATGAAAAATGTATCGATACATCTGGGTAAACCCAGAATGTATCAATACAAT
255670 GAATAATGTATCGATATAATGAAT
66 GAATAATGTATCGATATAATGAAT
* * * *
255694 AATGTATCGATATAATGAACAATGTATCGATACATCTGGGTAAAACCCAGAATGTGTCAATACAA
1 AATGTATCAATACAATGAAAAATGTATCGATACATCTGGGT-AAACCCAGAATGTATCAATACAA
255759 TGAATAATGTATCGATA
65 TGAATAATGTATCGATA
255776 CAAATTGTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 35 0.48
90 38 0.52
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (89 bp):
AATGTATCAATACAATGAAAAATGTATCGATACATCTGGGTAAACCCAGAATGTATCAATACAAT
GAATAATGTATCGATATAATGAAT
Found at i:259981 original size:12 final size:12
Alignment explanation
Indices: 259964--259998 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
259954 AAGGCTTATT
*
259964 TGATTGTGATTG
1 TGATTGTAATTG
259976 TGATTGTAATTG
1 TGATTGTAATTG
*
259988 TAATTGTAATT
1 TGATTGTAATT
259999 CTTTTGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (12 bp):
TGATTGTAATTG
Found at i:260202 original size:20 final size:20
Alignment explanation
Indices: 260166--260220 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
260156 AAAATATGAA
*
260166 ATACATATACATATACAA-AG
1 ATACATATA-GTATACAATAG
260186 ATTACATATAGTATACAATAG
1 A-TACATATAGTATACAATAG
260207 ATATC-TATAGTATA
1 ATA-CATATAGTATA
260221 TAAAATACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (20 bp):
ATACATATAGTATACAATAG
Found at i:261370 original size:21 final size:21
Alignment explanation
Indices: 261344--261396 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
261334 TTCAGCAATT
261344 TGTATCGATACAATAAG-GTAA
1 TGTATCGATACAATAAGTG-AA
261365 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
261385 TGTATCGATACA
1 TGTATCGATACA
261397 TGCTTGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:261386 original size:20 final size:21
Alignment explanation
Indices: 261344--261417 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
261334 TTCAGCAATT
*
261344 TGTATCGATACAATAAG-GTAA
1 TGTATCGATAC-ATAAGTGAAA
261365 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
261385 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTGAAA
261406 TGTATCGATACA
1 TGTATCGATACA
261418 GGACCATGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
20 22 0.46
21 26 0.54
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:261517 original size:51 final size:52
Alignment explanation
Indices: 261453--261571 Score: 186
Period size: 51 Copynumber: 2.3 Consensus size: 52
261443 TCTAGAAAGA
* * *
261453 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGGG-TTTTAACCC
1 AAATGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTTAACCC
* *
261504 AATTGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTTAACCC
261556 AAATGTATCGATACAT
1 AAATGTATCGATACAT
261572 CCAGTTAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 38 0.62
52 23 0.38
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTTAACCC
Found at i:261530 original size:20 final size:20
Alignment explanation
Indices: 261505--261542 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
261495 TTTTAACCCA
*
261505 ATTGTATCGATACATTCTTC
1 ATTGTATCAATACATTCTTC
261525 ATTGTATCAATACATTCT
1 ATTGTATCAATACATTCT
261543 GGGTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (20 bp):
ATTGTATCAATACATTCTTC
Found at i:266197 original size:156 final size:156
Alignment explanation
Indices: 265779--266208 Score: 519
Period size: 156 Copynumber: 2.8 Consensus size: 156
265769 TGCCCAATAT
265779 CCATAAAAGACTTAAAAAGATTAGAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAG
1 CCATAAAAGACTTAAAAAGATTAGAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATA-
* ** * *
265844 AAA-CAAACCCAGTGGTAACCTAGGACTCGATTTCAGGAAATTATGAAAATGC-CCTTATGAGTA
65 AAAGCGAACCCAGTGACAACCTAGGACTCG-GTTCTGGAAATTATGAAAATGCTCCTTATGAGTA
265907 TACCTTTGACGTGAAAGTATCCTGGTAA
129 TACCTTTGACGTGAAAGTATCCTGGTAA
* * * * * *
265935 CCATAAAAGACTTCAGAAGATTAGAGATAGGATGAACCTATCCTAAATACCCATCTTCGACATCA
1 CCATAAAAGACTTAAAAAGATTAGAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAA
* * * * *
266000 AAGCGGACCCATTGACGACCTAGGACTCAGTTTTAGGAAATTATGAAAATGCTCC-TAT-AGGTA
66 AAGCGAACCCAGTGACAACCTAGGACTCGGTTCT-GGAAATTATGAAAATGCTCCTTATGA-GTA
*
266063 TA-CTTTCGACGTGAAAGTATCTTGGTAA
129 TACCTTT-GACGTGAAAGTATCCTGGTAA
* * * * *
266091 CCCTAAAAGACTTAAAAAGATTAAAGATGGGATAAACCTCTCCTAAATATCCACCTTCGGCATAA
1 CCATAAAAGACTTAAAAAGATTAGAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAA
** * * * *
266156 AAGCGAACCTGGTGACAACCTAAGAATTGGTTCTGGAAAATTTTGAAAATGCT
66 AAGCGAACCCAGTGACAACCTAGGACTCGGTTCTGG-AAATTATGAAAATGCT
266209 TCTAAGAGAT
Statistics
Matches: 229, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
155 12 0.05
156 215 0.94
157 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (156 bp):
CCATAAAAGACTTAAAAAGATTAGAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAA
AAGCGAACCCAGTGACAACCTAGGACTCGGTTCTGGAAATTATGAAAATGCTCCTTATGAGTATA
CCTTTGACGTGAAAGTATCCTGGTAA
Found at i:268377 original size:166 final size:165
Alignment explanation
Indices: 268192--268713 Score: 447
Period size: 166 Copynumber: 3.1 Consensus size: 165
268182 ATTAGAGTTT
* * * *
268192 AATAACAATATTAGATGAATTTTAAAAATTTTAAATCAAGACAATCTC-CCCGGAAACATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAATCAAGAAAATCTCTCCC-GAAAAATTTACG
* *
268256 GAGGAGAAAACTCAGTTTTTTAGAAATATGAAAATTTCAAAGAAAAAAATTCAAAACTCATGAAA
65 GAGAAGAAAACTCAGTTTTTTAGAAAAATGAAAATTTC-AAGAAAAAAATTCAAAACTCATGAAA
*
268321 ATAAATTAATTTTTTAAAACTGATTTAATATGAATTA
129 ATAAATTAATTTTTTAAAACTGATTTAATGTGAATTA
* * *
268358 AATAATAATATTTGATGAATTTTAAAAATTTTAAATCCATGAAAAATC-CTCCCGAAAAAATTAT
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAAT-CAAG-AAAATCTCTCCCGAAAAATTTAC
* * * ** * * * *
268422 GAAGTAGAAAA-TAACGTATTTCGAAAAAAAT-CAAATTTTAAG-GAAAAATTCAGAAACTCATG
64 GGAGAAGAAAACTCA-GT-TTTTTAGAAAAATGAAAATTTCAAGAAAAAAATTCA-AAACTCATG
* * * * * * *
268484 AAAATGAATTAAATTTTGAAAAATAATTTAATGTGGATCA
126 AAAATAAATTAATTTTTTAAAACTGATTTAATGTGAATTA
* * * *
268524 AGTGATAATATTTGAT-AGATTTAAAAAATTTTAAATCAATGAAAAT-TCTCCCAAAATAATTTA
1 AATAATAATATTTGATGA-ATTTTAAAAATTTTAAATCAA-GAAAATCTCTCCCGAAA-AATTTA
** * *
268587 CGGAGAAGAAAATCTC-GTAATTT-GAAAACATGAAGAATTTCAA-AAGATAA-TCAATAACTCA
63 CGGAGAAGAAAA-CTCAGTTTTTTAGAAAA-ATGAA-AATTTCAAGAAAAAAATTCAA-AACTCA
* ** * *
268648 -AAAAATAAAAGGAATTTTTTTAAAACTGATTTCATGGGAATTA
124 TGAAAAT-AAATTAA-TTTTTTAAAACTGATTTAATGTGAATTA
* *
268691 AATGATAATATTTGAAGAATTTT
1 AATAATAATATTTGATGAATTTT
268714 GATGTTTGAA
Statistics
Matches: 276, Mismatches: 60, Indels: 39
0.74 0.16 0.10
Matches are distributed among these distances:
164 4 0.01
165 34 0.12
166 142 0.51
167 77 0.28
168 19 0.07
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (165 bp):
AATAATAATATTTGATGAATTTTAAAAATTTTAAATCAAGAAAATCTCTCCCGAAAAATTTACGG
AGAAGAAAACTCAGTTTTTTAGAAAAATGAAAATTTCAAGAAAAAAATTCAAAACTCATGAAAAT
AAATTAATTTTTTAAAACTGATTTAATGTGAATTA
Found at i:271013 original size:16 final size:16
Alignment explanation
Indices: 270994--271024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
270984 AAGTTGCGTG
*
270994 TATGAATGACCAAATA
1 TATGAATGAACAAATA
271010 TATGAATGAACAAAT
1 TATGAATGAACAAAT
271025 GAATGGGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
TATGAATGAACAAATA
Found at i:271990 original size:20 final size:20
Alignment explanation
Indices: 271967--272039 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
271957 ACAATTCAAA
271967 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
271987 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
272008 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
272028 GTATCGATACAT
1 GTATCGATACAT
272040 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:272011 original size:21 final size:21
Alignment explanation
Indices: 271985--272060 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
271975 ACATGTTGCA
271985 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
272006 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
272026 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
272047 ATGTATCGATACAT
1 ATGTATCGATACAT
272061 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:272018 original size:41 final size:41
Alignment explanation
Indices: 271967--272060 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
271957 ACAATTCAAA
*
271967 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
272008 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
272049 GTATCGATACAT
1 GTATCGATACAT
272061 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:272117 original size:13 final size:13
Alignment explanation
Indices: 272099--272124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
272089 TACAGCAAGT
272099 ATGTATCGATACA
1 ATGTATCGATACA
272112 ATGTATCGATACA
1 ATGTATCGATACA
272125 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:276206 original size:15 final size:15
Alignment explanation
Indices: 276186--276224 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
276176 TAAAAATGTC
*
276186 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
276201 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
276216 CCAAATGAA
1 CAAAATGAA
276225 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:278309 original size:20 final size:21
Alignment explanation
Indices: 278231--278308 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
278221 ATGTCCAAAA
*
278231 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
278251 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
278275 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
278296 TGTATCGATACAT
1 TGTATCGATACAT
278309 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:278313 original size:13 final size:13
Alignment explanation
Indices: 278295--278333 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
278285 ACATTTTTTG
278295 TTGTATCGATACA
1 TTGTATCGATACA
278308 TTGTATCGATACA
1 TTGTATCGATACA
*
278321 CTGTATCGATACA
1 TTGTATCGATACA
278334 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:280808 original size:20 final size:20
Alignment explanation
Indices: 280785--280857 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
280775 ACAATTCAAA
280785 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
280805 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
280826 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
280846 GTATCGATACAT
1 GTATCGATACAT
280858 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:280829 original size:21 final size:21
Alignment explanation
Indices: 280803--280878 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
280793 ACATGTTGCA
280803 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
280824 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
280844 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
280865 ATGTATCGATACAT
1 ATGTATCGATACAT
280879 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:280836 original size:41 final size:41
Alignment explanation
Indices: 280785--280878 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
280775 ACAATTCAAA
*
280785 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
280826 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
280867 GTATCGATACAT
1 GTATCGATACAT
280879 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:280935 original size:13 final size:13
Alignment explanation
Indices: 280917--280942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
280907 TACAGCAAGT
280917 ATGTATCGATACA
1 ATGTATCGATACA
280930 ATGTATCGATACA
1 ATGTATCGATACA
280943 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:282656 original size:3 final size:3
Alignment explanation
Indices: 282639--282680 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
282629 AATCAATAGG
*
282639 ATA ATA AAA AT- ATA ATA ATA A-A ATA ATA ATA ATA ATTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A
282681 AAAATAGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:282686 original size:14 final size:15
Alignment explanation
Indices: 282639--282673 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
282629 AATCAATAGG
282639 ATAATAAAA-ATATA
1 ATAATAAAATATATA
282653 ATAATAAAATA-ATA
1 ATAATAAAATATATA
282667 ATAATAA
1 ATAATAA
282674 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAAAATATATA
Found at i:284574 original size:159 final size:156
Alignment explanation
Indices: 284363--284690 Score: 464
Period size: 159 Copynumber: 2.1 Consensus size: 156
284353 GTAAACTTAT
284363 ATTTTAATATTTTTTAATCTTTCATATTCCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAA
1 ATTTTAATATTTTTTAATCTTTCATATTCCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAA
* * * *
284428 ATATTTCATATCCTTT-TGGGTTTCCATTAGGGTATAAAATGGTATTTTCAAAAATAAAGAAAAT
66 ACATTTCATATCCTTTCT-GGCTTCCATTAGGGTACAAAATGGTATCTTCAAAAATAAAGAAAAT
*
284492 TAAATTGAATTAATACTTTCGGGATGA
130 AAAATTGAATTAATACTTTCGGGATGA
* * *
284519 ATTTTAACTATTTTTTCTAATCTTTTATATTCCTAT-GAGTA-TCTGTTGGGGTATAAAAGATTT
1 ATTTTAA-TA-TTTTT-TAATCTTTCATATTCCTATAG-GCATTC-GTAGGGGTATAAAAGATTT
*
284582 CAAAAACATTTCATATCCTTTCTGGCTTCCATTAGGGTACAAAATGGTATCTTCAAAAATAAATA
61 CAAAAACATTTCATATCCTTTCTGGCTTCCATTAGGGTACAAAATGGTATCTTCAAAAATAAAGA
* **
284647 AAATAAAATTGAATTAATACTTTCGAGAAAA
126 AAATAAAATTGAATTAATACTTTCGGGATGA
*
284678 ATTTTAATCTTTT
1 ATTTTAATATTTT
284691 ATATTCCTAT
Statistics
Matches: 153, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
156 7 0.05
157 6 0.04
158 9 0.06
159 130 0.85
160 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (156 bp):
ATTTTAATATTTTTTAATCTTTCATATTCCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAA
ACATTTCATATCCTTTCTGGCTTCCATTAGGGTACAAAATGGTATCTTCAAAAATAAAGAAAATA
AAATTGAATTAATACTTTCGGGATGA
Found at i:298968 original size:62 final size:61
Alignment explanation
Indices: 298843--299047 Score: 320
Period size: 62 Copynumber: 3.3 Consensus size: 61
298833 CCTTTTCAGC
* * * *
298843 CCTTTTAGTCCTTAAAGAGTAAGACGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCA
*
298905 CCATTCTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CC-TTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
*
298967 CCTTTTAGTCCTCAAAGAGTAGGATGACTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCA
*
299029 CCTTTTAGTCGTCAAAGAG
1 CCTTTTAGTCCTCAAAGAG
299048 CAGGCACTTT
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
61 30 0.23
62 72 0.54
63 31 0.23
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:299114 original size:45 final size:45
Alignment explanation
Indices: 299065--299257 Score: 142
Period size: 45 Copynumber: 4.5 Consensus size: 45
299055 TTTCCTTATT
*
299065 TTCTTTTTTCCTTTGTCCTCAAAAAGTAGGATC-CATTTTATTTCC
1 TTCTTTTTTCCTTTGTCCTCAAAAAGTAGGA-CGCACTTTATTTCC
*
299110 TTC-TTTTCCCTTTTGTCCTCAAAGAA-TAGGACGCACTTTATTTCC
1 TTCTTTTTTCC-TTTGTCCTCAAA-AAGTAGGACGCACTTTATTTCC
* * * * *
299155 -T-TTTATT--TTTGTCTTCAAAAAGTAGGGCGCACCTCATTTCC
1 TTCTTTTTTCCTTTGTCCTCAAAAAGTAGGACGCACTTTATTTCC
* * * *
299196 TTC-TTTTCCCTTTTGTCTTCAAAGAA-CAGGACGTACTTTA-TT--
1 TTCTTTTTTCC-TTTGTCCTCAAA-AAGTAGGACGCACTTTATTTCC
*
299238 TTC-TTTTTCCTTTATCCTCA
1 TTCTTTTTTCCTTTGTCCTCA
299258 CGAGCAAGGT
Statistics
Matches: 119, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
40 2 0.02
41 35 0.29
42 13 0.11
44 13 0.11
45 52 0.44
46 4 0.03
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (45 bp):
TTCTTTTTTCCTTTGTCCTCAAAAAGTAGGACGCACTTTATTTCC
Found at i:299174 original size:86 final size:86
Alignment explanation
Indices: 299076--299328 Score: 262
Period size: 86 Copynumber: 3.0 Consensus size: 86
299066 TCTTTTTTCC
* ** * *
299076 TTTGTCCTCAAAAAGTAGGATC-CATTTTATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAATAGG
1 TTTGTCCTCAAAAAGTAGG-GCGCACCTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAACAGG
299140 ACGCACTTTATTTCCTTTTATT
65 ACGCACTTTATTTCCTTTTATT
* *
299162 TTTGTCTTCAAAAAGTAGGGCGCACCTCATTTCCTTCTTTTCCCTTTTGTCTTCAAAGAACAGGA
1 TTTGTCCTCAAAAAGTAGGGCGCACCTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAACAGGA
* * *
299227 CGTACTTTATTTTCTTTT-TCC
66 CGCACTTTATTTCCTTTTAT-T
* ** * * ** * *
299248 TTTATCCTC-ACGAGCAAGGTACACCTCATTTCCTTCTTTTCCC-TTTCTCCTCAAAGAGCAGGA
1 TTTGTCCTCAAAAAGTAGGGCGCACCTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAACAGGA
* * *
299311 CGTACTTCATTTCTTTTT
66 CGCACTTTATTTCCTTTT
299329 TTCCTATGTC
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 32 0.23
85 30 0.21
86 79 0.56
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (86 bp):
TTTGTCCTCAAAAAGTAGGGCGCACCTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAACAGGA
CGCACTTTATTTCCTTTTATT
Found at i:299557 original size:27 final size:28
Alignment explanation
Indices: 299495--299560 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
299485 TCTAAAGTCT
*
299495 ACACAAGTTGGCGACACCCAAAAAGCCC
1 ACACAAGTTGACGACACCCAAAAAGCCC
*
299523 GCACAAGTTGACGACACCCAAAAAGCCC
1 ACACAAGTTGACGACACCCAAAAAGCCC
299551 ACA-AAGTTGA
1 ACACAAGTTGA
299561 TGGCAAACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 7 0.20
28 28 0.80
ACGTcount: A:0.41, C:0.32, G:0.18, T:0.09
Consensus pattern (28 bp):
ACACAAGTTGACGACACCCAAAAAGCCC
Found at i:300051 original size:13 final size:13
Alignment explanation
Indices: 300033--300060 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
300023 ACAAACAACA
300033 AATGTATCGATAC
1 AATGTATCGATAC
300046 AATGTATCGATAC
1 AATGTATCGATAC
300059 AA
1 AA
300061 GCCTAAAATG
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:300053 original size:34 final size:34
Alignment explanation
Indices: 300014--300078 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
300004 TTTTACAATT
300014 TGTATCGATACAA-ACAACAAATGTATCGATACAA
1 TGTATCGATACAAGACAA-AAATGTATCGATACAA
* *
300048 TGTATCGATACAAGCCTAAAATGTATCGATA
1 TGTATCGATACAAGACAAAAATGTATCGATA
300079 TAAAAAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (34 bp):
TGTATCGATACAAGACAAAAATGTATCGATACAA
Found at i:302668 original size:78 final size:78
Alignment explanation
Indices: 302518--303056 Score: 466
Period size: 79 Copynumber: 6.9 Consensus size: 78
302508 CTTCACCATT
* * *
302518 GGGGATACTCCAACCCTGGTTTTATTTCCAAAATATCAATTTTCCACCATCGAGGATACTCAAAC
1 GGGGATACTCCAAACCTGGTTTTATTTCTAAAACA-CAATTTTCCACCATCGAGGATACTCAAAC
***
302583 TTTGTTATTTTCGA
65 CCCGTTATTTTCGA
** * * * *
302597 AAGGATACTCTAAACTTGGTTTTATTTCTAAAACACGGATTTT-CACCATCGAGGATACTAAAAC
1 GGGGATACTCCAAACCTGGTTTTATTTCTAAAACAC-AATTTTCCACCATCGAGGATACTCAAAC
** *
302661 TTCGTTATTTCCGA
65 CCCGTTATTTTCGA
* * * * *
302675 GGGGATACTCC-AACCTAGTTTTATTTCCAAAATACTAATTTTCCACCATCGGGGATACTCCAAC
1 GGGGATACTCCAAACCTGGTTTTATTTCTAAAACAC-AATTTTCCACCATCGAGGATACTCAAAC
* * *
302739 CTCATTATTTTTGA
65 CCCGTTATTTTCGA
* * *
302753 GGGGATACT-CAAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCG-GGAATACTCCA
1 GGGGATACTCCAAA-CCTGGTTTTATTTCTAAAACA-CAATTTTCCACCATCGAGG-ATACTCAA
*
302816 ACCCTGTTATTTTCGA
63 ACCCCGTTATTTTCGA
* * * * **
302832 GGGGATACTCC-AGCCTCGGTTTTATTTCTGAAACACCACTTTTCCATCATC-AGGATACTCTGA
1 GGGGATACTCCAAACCT-GGTTTTATTTCTAAAACA-CAATTTTCCACCATCGAGGATACTCAAA
*
302895 CCCCGTTATTTTTGA
64 CCCCGTTATTTTCGA
* * * * * * *
302910 GGGGATACTCCAATCCTAGTTTTATTTCTAAAAGACTGATTTTCCACCATTGGGGATACTCTAAC
1 GGGGATACTCCAAACCTGGTTTTATTTCTAAAACAC-AATTTTCCACCATCGAGGATACTCAAAC
* *
302975 CCCGTTATTTCCAA
65 CCCGTTATTTTCGA
** * * * *
302989 GTTGATACT-CTAACCTCGATTTTATTTCTAAAACACCAATTTTTCACCATCG-GGA-ATCTCCA
1 GGGGATACTCCAAACCT-GGTTTTATTTCTAAAACA-CAATTTTCCACCATCGAGGATA-CTCAA
303051 ACCCCG
63 ACCCCG
303057 ATTTTATTTC
Statistics
Matches: 377, Mismatches: 68, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
77 28 0.07
78 159 0.42
79 187 0.50
80 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAAACCTGGTTTTATTTCTAAAACACAATTTTCCACCATCGAGGATACTCAAACC
CCGTTATTTTCGA
Found at i:303055 original size:157 final size:155
Alignment explanation
Indices: 302518--303056 Score: 560
Period size: 157 Copynumber: 3.4 Consensus size: 155
302508 CTTCACCATT
* * * * *
302518 GGGGATACTCCAACCCTGGTTTTATTTCCAAAATATCAATTTTCCACCATCGAGGATACTCAAAC
1 GGGGATACTCCAA-CCTCGTTTTATTTCTAAAACACCAATTTTCCACCATCG-GGATACTCCAAC
*** * ** * * *
302583 TTTGTTATTTTCGAAAGGATACTCTAAA-CTTGGTTTTATTTCTAAAACACGGATTTTCACCATC
64 CCCGTTATTTTTGAGGGGATACTC-AAACCCTAGTTTTATTTCTAAAACACCGATTTTCACCATC
* * **
302647 GAGGATACTAAAACTTCGTTATTTCCGA
128 GGGGATACTCAAACCCCGTTATTTCCGA
* * * *
302675 GGGGATACTCCAACCTAGTTTTATTTCCAAAATACTAATTTTCCACCATCGGGGATACTCCAACC
1 GGGGATACTCCAACCTCGTTTTATTTCTAAAACACCAATTTTCCACCATC-GGGATACTCCAACC
* * *
302740 TCATTATTTTTGAGGGGATACTCAAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCG
65 CCGTTATTTTTGAGGGGATACTCAAACCCTAGTTTTATTTCTAAAACACCGA-TTTTCACCATCG
* * * *
302805 GGAATACTCCAACCCTGTTATTTTCGA
129 GGGATACTCAAACCCCGTTATTTCCGA
* * * * * **
302832 GGGGATACTCCAGCCTCGGTTTTATTTCTGAAACACCACTTTTCCATCATCAGGATACTCTGACC
1 GGGGATACTCCAACCTC-GTTTTATTTCTAAAACACCAATTTTCCACCATCGGGATACTCCAACC
* * * * *
302897 CCGTTATTTTTGAGGGGATACTCCAATCCTAGTTTTATTTCTAAAAGACTGATTTTCCACCATTG
65 CCGTTATTTTTGAGGGGATACTCAAACCCTAGTTTTATTTCTAAAACACCGATTTT-CACCATCG
* *
302962 GGGATACTCTAACCCCGTTATTTCCAA
129 GGGATACTCAAACCCCGTTATTTCCGA
** * *
302989 GTTGATACTCTAACCTCGATTTTATTTCTAAAACACCAATTTTTCACCATCGGGA-ATCTCCAAC
1 GGGGATACTCCAACCTCG-TTTTATTTCTAAAACACCAATTTTCCACCATCGGGATA-CTCCAAC
303053 CCCG
64 CCCG
303057 ATTTTATTTC
Statistics
Matches: 318, Mismatches: 57, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
155 3 0.01
156 90 0.28
157 198 0.62
158 27 0.08
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (155 bp):
GGGGATACTCCAACCTCGTTTTATTTCTAAAACACCAATTTTCCACCATCGGGATACTCCAACCC
CGTTATTTTTGAGGGGATACTCAAACCCTAGTTTTATTTCTAAAACACCGATTTTCACCATCGGG
GATACTCAAACCCCGTTATTTCCGA
Found at i:303064 original size:50 final size:51
Alignment explanation
Indices: 302992--303106 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 51
302982 TTTCCAAGTT
* *
302992 GATACTCTAACCTCGATTTTATTTCTAAAACACCAATTTTTCACCATC-GG
1 GATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACCATCAGG
* **
303042 GA-ATCTCCAACCCCGATTTTATTTCTAAAACTCTGATTTTTCACCATCAGG
1 GATA-CTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACCATCAGG
303093 GATACTCCAACCCC
1 GATACTCCAACCCC
303107 TTTATTTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
49 1 0.02
50 41 0.72
51 14 0.25
52 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACCATCAGG
Found at i:304641 original size:61 final size:60
Alignment explanation
Indices: 304475--304656 Score: 231
Period size: 61 Copynumber: 3.0 Consensus size: 60
304465 AAGATGATAT
* * * * * * *
304475 AAGAATGA-GAAGAGTGCCAATATGCTAATTCAAGGTCAGCGACATTAGACTTAAGGATGTG
1 AAGAATGATAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA-GATGAG
* * *
304536 AAGAATGATAAAGGTGCCAATATGCTGATTCACGGCCAGTGATATCGGGCTTGAAGATGAG
1 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AAGATGAG
304597 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGA
1 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AAGATGA
304657 CAAAGGTGCT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
61 100 0.95
62 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (60 bp):
AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAGATGAG
Found at i:304685 original size:52 final size:52
Alignment explanation
Indices: 304597--304909 Score: 281
Period size: 52 Copynumber: 6.0 Consensus size: 52
304587 TGAAGATGAG
* *
304597 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 AAGAATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * ** *
304649 AA-AGATGACAAAGGTGCTAATGTGTTGATTTGAGGCCAGCAATATTGGACTT
1 AAGA-ATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
304701 AAGAAAGAAAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTAGACTT
1 AAGAATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
304753 AAGAAAGAAAAATGTGCTAGTATGCTGATTCAAGGGCAGCGATATTGGACTT
1 AAGAATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* ***** *
304805 AA-AGATGACAAAGACATTAACATGCTGATTCAAGGCCAGCGATA-TGGACTT
1 AAGA-ATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * * ** *
304856 AAGAAAGAAAAAAGTGCCAATGTGCTGATTTAAGGCTAATGACATTGGACTT
1 AAGAATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
304908 AA
1 AA
304910 AAAGAAATAG
Statistics
Matches: 205, Mismatches: 51, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
51 36 0.18
52 168 0.82
53 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (52 bp):
AAGAATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:304906 original size:103 final size:104
Alignment explanation
Indices: 304723--304910 Score: 254
Period size: 103 Copynumber: 1.8 Consensus size: 104
304713 GGTGCCAATG
* * *
304723 TGCTAATTCAAGGCCAGCGACATTAGACTTAAGAAAGAAAAATGTGCTAGTATGCTGATTCAAGG
1 TGCTAATTCAAGGCCAGCGACATTAGACTTAAGAAAGAAAAAAGTGCCAATATGCTGATTCAAGG
* *
304788 GCAGCGATATTGGACTTAAAGATGACAAAGACATTAACA
66 GCAACGACATTGGACTTAAAGATGACAAAGACATTAACA
* * * * *
304827 TGCTGATTCAAGGCCAGCGATA-TGGACTTAAGAAAGAAAAAAGTGCCAATGTGCTGATTTAA-G
1 TGCTAATTCAAGGCCAGCGACATTAGACTTAAGAAAGAAAAAAGTGCCAATATGCTGATTCAAGG
*
304890 GCTAATGACATTGGACTTAAA
66 GC-AACGACATTGGACTTAAA
304911 AAGAAATAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
102 3 0.04
103 49 0.68
104 20 0.28
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (104 bp):
TGCTAATTCAAGGCCAGCGACATTAGACTTAAGAAAGAAAAAAGTGCCAATATGCTGATTCAAGG
GCAACGACATTGGACTTAAAGATGACAAAGACATTAACA
Found at i:305013 original size:33 final size:33
Alignment explanation
Indices: 304976--305458 Score: 389
Period size: 32 Copynumber: 14.8 Consensus size: 33
304966 TAGAAGCAAA
* **
304976 TGCCACCGACTTGTATGGGCTTTTGAGAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* *
305009 TGCCACTGACTTGTGTGGGCTTTTGAG-AGGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* * ** **
305041 TGCCACCGACTTTATTTGGGCTTTAAAGAGGGGT
1 TGCCACCGAC-TTGTGTGGGCTTTTGAGAAAGGT
* * *
305075 TGCCA-CGACTTATGTAGGCTTTAGA-AAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* *
305106 TGCCACCAACTTGTGTGGGC-TTTAAGAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* *
305138 TGCCATCGACTTGTGTGGG-TTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTT-GAGAAAGGT
* * *
305171 TGCCATCGACTTGTATGGGCTTTTGA-AGAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
** * * * *
305203 TGCCTTCGATTTATGTGGACTTTAGAGAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* * *
305236 TGCCCCCGACTTCTATGGGCTTTT-A-AAGAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAA-AGGT
* *
305268 TACCACCGACTTGTGTGAGCTTTT-A-AAGAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAA-AGGT
* *
305300 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* * * *
305333 TACCACCAAATTGTGTGGGCTTTAGAG-AAGAGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAG-GT
* * *
305366 TGCCACCGACTTGTATGGGC-TTTGAAAAAGTT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
* ** *
305398 TGACACTAACTTGTGTAGGCTTTT-AGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAGAAA-GGT
* * *
305431 TGTCACCGACTTATGTGGGCTTTAGAGA
1 TGCCACCGACTTGTGTGGGCTTTTGAGA
305459 TGGTGCCACG
Statistics
Matches: 361, Mismatches: 73, Indels: 31
0.78 0.16 0.07
Matches are distributed among these distances:
31 14 0.04
32 166 0.46
33 163 0.45
34 18 0.05
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTTGAGAAAGGT
Found at i:305095 original size:65 final size:62
Alignment explanation
Indices: 304976--305468 Score: 352
Period size: 65 Copynumber: 7.6 Consensus size: 62
304966 TAGAAGCAAA
**
304976 TGCCACCGACTTGTATGGGCTTTTGAGAGGGGTTGCCACTGACTTGTGTGGGCTTTTGAGAGGGT
1 TGCCACCGACTTGTATGGGCTTTAAAGA-GGGTTGCCAC-GACTTGTGT-GGCTTTTGAGAGGGT
* * * *
305041 TGCCACCGACTT-TATTTGGGCTTTAAAGAGGGGTTGCCACGACTTATGTAGGCTTTAGAAAAGG
1 TGCCACCGACTTGTA--TGGGCTTTAAAGA-GGGTTGCCACGACTTGTGT-GGCTTTTGAGAGGG
305105 T
62 T
* * * *
305106 TGCCACCAACTTGTGTGGGCTTT-AAGAAAGGTTGCCATCGACTTGTGTGGGTTTTAGAGAAGGG
1 TGCCACCGACTTGTATGGGCTTTAAAG-AGGGTTGCCA-CGACTTGTGTGGCTTTT-GAG-AGGG
305170 T
62 T
* * * * * * *
305171 TGCCATCGACTTGTATGGGCTTTTGAAGA-GGTTGCCTTCGATTTATGTGGACTTTAGAGAAAGG
1 TGCCACCGACTTGTATGGGC-TTTAAAGAGGGTTGCC-ACGACTTGTGTGG-CTTTTGAG-AGGG
305235 T
62 T
* * * *
305236 TGCCCCCGACTTCTATGGGCTTTTAAAGA-GGTTACCACCGACTTGTGTGAGCTTTT-AAAGAGG
1 TGCCACCGACTTGTATGGGC-TTTAAAGAGGGTTGCCA-CGACTTGTGTG-GCTTTTGAGAG-GG
305299 T
62 T
* * * * * * *
305300 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTACCACCAAATTGTGTGGGCTTTAGAGAAGAG
1 TGCCACCGACTTGTATGGGCTTTAAAG-AGGGTTGCCA-CGACTTGTGT-GGCTTTTGAG-AGGG
305365 T
62 T
* * * * *
305366 TGCCACCGACTTGTATGGGCTTTGAAA-AAGTTTGACACTAACTTGTGTAGGCTTTTAGAAAGGG
1 TGCCACCGACTTGTATGGGCTTT-AAAGAGGGTTGCCAC-GACTTGTGT-GGCTTTT-GAGAGGG
305430 T
62 T
* * * * *
305431 TGTCACCGACTTATGTGGGCTTTAGAGATGG-TGCCACG
1 TGCCACCGACTTGTATGGGCTTTAAAGAGGGTTGCCACG
305469 GAGTTGTGGA
Statistics
Matches: 342, Mismatches: 63, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
63 23 0.07
64 52 0.15
65 201 0.59
66 59 0.17
67 7 0.02
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (62 bp):
TGCCACCGACTTGTATGGGCTTTAAAGAGGGTTGCCACGACTTGTGTGGCTTTTGAGAGGGT
Found at i:305128 original size:97 final size:98
Alignment explanation
Indices: 304976--305454 Score: 434
Period size: 97 Copynumber: 4.9 Consensus size: 98
304966 TAGAAGCAAA
* ** *
304976 TGCCACCGACTTGTATGGGCTTTTGAGAGGGGTTGCCACTGACTTGTGTGGGCTTTTGAG-AGGG
1 TGCCACCGACTTGTATGGGCTTTAGA-AAAGGTTGCCACCGACTTGTGTGGGCTTTTGAGAAGGG
* *
305040 TTGCCACCGACTTTATTTGGGCTTTAAAGAGGGGT
65 TTGCCACCGAC-TTATGTGGGCTTTAAAGAAGGGT
* * * * * *
305075 TGCCA-CGACTTATGTAGGCTTTAGAAAAGGTTGCCACCAACTTGTGTGGGC-TTTAAGAAAGGT
1 TGCCACCGACTTGTATGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTTGAGAAGGGT
* * * *
305138 TGCCATCGACTTGTGTGGGTTTTAGAGAAGGGT
66 TGCCACCGACTTATGTGGGCTTTAAAGAAGGGT
* * * ** * * * * *
305171 TGCCATCGACTTGTATGGGCTTTTGAAGAGGTTGCCTTCGATTTATGTGGACTTTAGAGAAAGGT
1 TGCCACCGACTTGTATGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTTGAGAAGGGT
* * *
305236 TGCCCCCGACTTCTATGGGCTTTTAAAG-A-GGT
66 TGCCACCGACTTATGTGGGC-TTTAAAGAAGGGT
* * * * *
305268 TACCACCGACTTGTGTGAGCTTTTA-AAGAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
1 TGCCACCGACTTGTATGGGC-TTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTTGAGAAGGG
* * * * * *
305332 TTACCACCAAATTGTGTGGGCTTTAGAGAAGAGT
65 TTGCCACCGACTTATGTGGGCTTTAAAGAAGGGT
* * ** *
305366 TGCCACCGACTTGTATGGGCTTT-GAAAAAGTTTGACACTAACTTGTGTAGGCTTTT-AGAAAGG
1 TGCCACCGACTTGTATGGGCTTTAG-AAAAGGTTGCCACCGACTTGTGTGGGCTTTTGAG-AAGG
*
305429 GTTGTCACCGACTTATGTGGGCTTTA
64 GTTGCCACCGACTTATGTGGGCTTTA
305455 GAGATGGTGC
Statistics
Matches: 301, Mismatches: 69, Indels: 21
0.77 0.18 0.05
Matches are distributed among these distances:
96 34 0.11
97 143 0.48
98 113 0.38
99 11 0.04
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.32
Consensus pattern (98 bp):
TGCCACCGACTTGTATGGGCTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTTGAGAAGGGT
TGCCACCGACTTATGTGGGCTTTAAAGAAGGGT
Found at i:305421 original size:162 final size:160
Alignment explanation
Indices: 304976--305453 Score: 477
Period size: 162 Copynumber: 2.9 Consensus size: 160
304966 TAGAAGCAAA
* * * * *
304976 TGCCACCGACTTGTATGGGCTTTTGAGAGGGGTTGCCACTGACTTGTGTGGGCTTTTGAG-AGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGC-TTTGAGAAGAG
*
305040 TTGCCACCGACTTTATTTGGGCTTT-AAAGAGGGGTTGCCACGACTTATGTAGGC-TTTAGAAAA
65 TTGCCACCGACTTTA--TGGGCTTTGAAA-A-AGGTTGCCACGACTTATGTAGGCTTTTAG-AAA
*
305103 GGTTGCCACCAACTTGTGTGGGC-TTTAAGAAAGGT
125 GGTTGCCACCGACTTGTGTGGGCTTTTAAGAAAGGT
* * * * *
305138 TGCCATCGACTTGTGTGGGTTTTAGAGAAGGGTTGCCATCGACTTGTATGGGCTTT-TGAAGAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGA-G
** * * * * *
305202 TTGCCTTCGA-TTTATGTGGACTTTAGAGAAAGGTTGCCCCCGACTTCTATGGGCTTTTA-AAGA
65 TTGCCACCGACTTTATG-GG-CTTT-GAAAAAGGTTG-CCACGACTTATGTAGGCTTTTAGAA-A
* * *
305265 GGTTACCACCGACTTGTGTGAGCTTTTAA-AGAGGT
125 GGTTGCCACCGACTTGTGTGGGCTTTTAAGAAAGGT
* * *
305300 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTACCACCAAATTGTGTGGGCTTTAGAGAAGAG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGAG
* * * *
305365 TTGCCACCGACTTGTATGGGCTTTGAAAAAGTTTGACACTAACTTGTGTAGGCTTTTAGAAAGGG
65 TTGCCACCGACTT-TATGGGCTTTGAAAAAGGTTGCCAC-GACTTATGTAGGCTTTTAGAAA-GG
* *
305430 TTGTCACCGACTTATGTGGGCTTT
127 TTGCCACCGACTTGTGTGGGCTTT
305454 AGAGATGGTG
Statistics
Matches: 255, Mismatches: 44, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
159 2 0.01
160 3 0.01
161 22 0.09
162 167 0.65
163 48 0.19
164 9 0.04
165 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.32
Consensus pattern (160 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGAGT
TGCCACCGACTTTATGGGCTTTGAAAAAGGTTGCCACGACTTATGTAGGCTTTTAGAAAGGTTGC
CACCGACTTGTGTGGGCTTTTAAGAAAGGT
Found at i:305520 original size:30 final size:31
Alignment explanation
Indices: 305460--305521 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
305450 CTTTAGAGAT
*
305460 GGTGCCACGGAGTTGTGGACTTACAAAAGGAA
1 GGTGCCACGGAGTTATGGACTTA-AAAAGGAA
305492 GGTGCCACGGAGTTATGGACTT-AAAAGGAA
1 GGTGCCACGGAGTTATGGACTTAAAAAGGAA
305522 AATGTGTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 8 0.28
32 21 0.72
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (31 bp):
GGTGCCACGGAGTTATGGACTTAAAAAGGAA
Found at i:306153 original size:19 final size:19
Alignment explanation
Indices: 306129--306196 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
306119 AATTCAAGAA
306129 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
306148 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
306163 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
306180 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
306197 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:306167 original size:32 final size:32
Alignment explanation
Indices: 306131--306193 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
306121 TTCAAGAATT
*
306131 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
306163 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
306194 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:306168 original size:13 final size:13
Alignment explanation
Indices: 306150--306174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
306140 ACATAAGTTT
306150 TGTATCGATACAA
1 TGTATCGATACAA
306163 TGTATCGATACA
1 TGTATCGATACA
306175 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:306234 original size:13 final size:13
Alignment explanation
Indices: 306216--306241 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306206 GCCAAGGAAA
306216 TGTATCGATACAT
1 TGTATCGATACAT
306229 TGTATCGATACAT
1 TGTATCGATACAT
306242 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:308724 original size:54 final size:50
Alignment explanation
Indices: 308596--308725 Score: 143
Period size: 54 Copynumber: 2.5 Consensus size: 50
308586 TTGAGTTTCT
* * **
308596 CAATTCTCCACAATCGGGGATATTCAACTCCGATTTTATTTTTAAAACAC
1 CAATTCTTCACAATCGGGGATACTCAACTCCGATTTTATTTAAAAAACAC
* * * *
308646 TAATTTTTCTATAATCAGGGATACTCTAACTCCGAGTTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTC-AACTCCGA-TTTTATTT--AAAAAACAC
308701 CAATTCTTCACAATCGGGGATACTC
1 CAATTCTTCACAATCGGGGATACTC
308726 CAACCCGTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
50 6 0.10
51 13 0.21
52 8 0.13
53 8 0.13
54 14 0.22
55 14 0.22
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (50 bp):
CAATTCTTCACAATCGGGGATACTCAACTCCGATTTTATTTAAAAAACAC
Found at i:308742 original size:26 final size:27
Alignment explanation
Indices: 308713--308785 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
308703 ATTCTTCACA
308713 ATCGGGGATACTCCAACCCGTTA-ATC
1 ATCGGGGATACTCCAACCCGTTATATC
* *
308739 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAA-CCCGTTATATC
*
308767 -TGAGGGGATACTCCAACCC
1 AT-CGGGGATACTCCAACCC
308786 CGGTTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.38
27 11 0.28
28 14 0.35
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCGTTATATC
Found at i:308783 original size:28 final size:29
Alignment explanation
Indices: 308716--308787 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
308706 CTTCACAATC
308716 GGGGATACTCCAA-CCCGTTAATCATCGA
1 GGGGATACTCCAACCCCGTTAATCATCGA
*
308744 --GGATACTCCAACCCCGTT-AT-TTCTGA
1 GGGGATACTCCAACCCCGTTAATCATC-GA
308770 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
308788 GTTTTATTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
25 2 0.05
26 15 0.38
27 6 0.15
28 16 0.41
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGTTAATCATCGA
Found at i:308837 original size:52 final size:50
Alignment explanation
Indices: 308770--308989 Score: 189
Period size: 52 Copynumber: 4.3 Consensus size: 50
308760 TTATTTCTGA
*
308770 GGGGATACTCCAACCCCGGTTTTATTGCT-AAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATT-CTCAAAACACCAATTTTTT--CAATC
* * * *
308822 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTCTCAAAACACCAATTTT--TTCAATC
* * **
308874 GGGGATACT-CAACCCTGGTTTTATTTTCAAAACGGCAATTTCCTTT-AATC
1 GGGGATACTCCAACCCCGGTTTTATTCTCAAAACACCAATTT--TTTCAATC
* * * *
308924 -GGGATACTCCAACTCCGATTTTATT-TCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTCT-C-AAAACACCAATTTTT-TCAATC
*
308975 GAGGATACTCCAACC
1 GGGGATACTCCAACC
308990 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
49 11 0.08
50 18 0.13
51 48 0.34
52 62 0.44
53 1 0.01
54 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTCTCAAAACACCAATTTTTTCAATC
Found at i:308946 original size:50 final size:52
Alignment explanation
Indices: 308770--308955 Score: 215
Period size: 52 Copynumber: 3.6 Consensus size: 52
308760 TTATTTCTGA
* * * * *
308770 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTT--TTCACAATC
1 GGGGATACTCCAACCCTGGTTTTATTTTC-AAAACGCCAATTTTCCTT--TAATC
308822 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
*
308874 GGGGATACT-CAACCCTGGTTTTATTTTCAAAACGGCAA-TTTCCTTTAATC
1 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
* *
308924 -GGGATACTCCAACTCC-GATTTTATTTCCAAAA
1 GGGGATACTCCAAC-CCTGGTTTTATTTTCAAAA
308956 ATACCAATTT
Statistics
Matches: 121, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
49 8 0.07
50 30 0.25
51 30 0.25
52 48 0.40
53 3 0.02
54 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
Found at i:309008 original size:28 final size:28
Alignment explanation
Indices: 308972--309048 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
308962 ATTTTTCACA
* * *
308972 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
309000 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
309028 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
309049 ACTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:309152 original size:78 final size:77
Alignment explanation
Indices: 309002--309219 Score: 210
Period size: 78 Copynumber: 2.8 Consensus size: 77
308992 GTTATTTCAT
* * *
309002 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAA-CCCGATTTTATTCCCAAAATAT
* * *
309067 TGATTCTCATAAT
65 CGATTCTCACAAC
* * * ** *
309080 TGGGGAGACTCCAACCCCGTTA-TTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAA-CCCGATTTTATTCCCAAAAT-A
309143 TCGATTTCTCACAAC
64 TCGA-TTCTCACAAC
* * *
309158 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCGATTATTA-TCTCCAAAA
1 CGGGGATACTCCAACCCCGTTACTTTCGAAGGG-ATACTCCAACCCGATT-TTATTC-CCAAAA
309220 CATTAAATTT
Statistics
Matches: 112, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
76 3 0.03
77 32 0.29
78 60 0.54
79 15 0.13
80 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAACCCGATTTTATTCCCAAAATATC
GATTCTCACAAC
Found at i:315384 original size:36 final size:36
Alignment explanation
Indices: 315343--315445 Score: 93
Period size: 36 Copynumber: 3.2 Consensus size: 36
315333 CCTTTTTCTT
315343 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
* * *
315379 TCAAAG---A-GC-AG--GAT-GCTTTTTCT--T-C
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
*
315404 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
315440 TCAAAG
1 TCAAAG
315446 AGCAGGACAC
Statistics
Matches: 49, Mismatches: 7, Indels: 22
0.63 0.09 0.28
Matches are distributed among these distances:
25 7 0.14
26 1 0.02
28 9 0.18
29 3 0.06
30 2 0.04
31 2 0.04
32 3 0.06
33 8 0.16
35 1 0.02
36 13 0.27
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (36 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
Found at i:315486 original size:55 final size:55
Alignment explanation
Indices: 315343--316464 Score: 1386
Period size: 55 Copynumber: 19.9 Consensus size: 55
315333 CCTTTTTCTT
* * *
315343 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTC
315404 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
315459 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
315514 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * * *
315569 TTAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCCCAAAGAGTAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACACCTC
* *
315624 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGCCCTCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
315679 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
315734 TTAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCCCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
315789 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
315844 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
315899 TCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGCCTTC
1 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACC-TC
* *
315954 TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCCTTC
1 T-C----AAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACACC-TC
** *
316015 TCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTT
1 T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
316075 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
316130 TCAAAGCCCACACAAGTTGGTGGCACCTTTT---GTCCCCAAAGAGTAGGACGCCTTC
1 TCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACACC-TC
* *
316185 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCACCT
1 T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------CACCT
*
316250 T
55 C
*
316251 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
316306 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTC
1 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * * * *
316361 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGCCTT
1 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTC
** * ** * *
316416 TCAAAGCCCACACGTGTTTGTGGCATTTTTTATTCCTCAATGAGCAGGA
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
316465 TACACTTTAT
Statistics
Matches: 961, Mismatches: 62, Indels: 82
0.87 0.06 0.07
Matches are distributed among these distances:
53 8 0.01
54 41 0.04
55 646 0.67
56 8 0.01
57 12 0.01
58 4 0.00
59 3 0.00
60 48 0.05
61 181 0.19
62 4 0.00
65 1 0.00
66 2 0.00
67 3 0.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (55 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
Found at i:315658 original size:27 final size:27
Alignment explanation
Indices: 315628--315711 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
315618 CACCTTTCAA
315628 AGCCCACACAAGTTGGTGGCATTTTCC
1 AGCCCACACAAGTTGGTGGCATTTTCC
* * ** * *
315655 AGCCCTCA-AAG-AGCAGGACACCTTTCAA
1 AGCCCACACAAGTTGGTGG-CA-TTTTC-C
315683 AGCCCACACAAGTTGGTGGCATTTTCC
1 AGCCCACACAAGTTGGTGGCATTTTCC
315710 AG
1 AG
315712 TCCTCAAAGA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 13 0.32
28 11 0.28
29 5 0.12
30 3 0.08
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (27 bp):
AGCCCACACAAGTTGGTGGCATTTTCC
Found at i:315708 original size:28 final size:28
Alignment explanation
Indices: 315622--315708 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
315612 GTAGGACACC
315622 TTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAAAGCCCACACAAGTTGGTGGCAT
* * * ** *
315650 TTTC-CAGCCCTCA-AAG-AGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
315677 TTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAAAGCCCACACAAGTTGGTGGCAT
315705 TTTC
1 TTTC
315709 CAGTCCTCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
25 3 0.07
26 5 0.12
27 11 0.26
28 15 0.36
29 5 0.12
30 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACACAAGTTGGTGGCAT
Found at i:315845 original size:27 final size:27
Alignment explanation
Indices: 315815--315897 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
315805 TTGGTGGCAT
315815 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
315842 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
315870 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
315897 T
1 T
315898 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:316096 original size:231 final size:229
Alignment explanation
Indices: 315306--316428 Score: 1516
Period size: 231 Copynumber: 4.9 Consensus size: 229
315296 CTCTTTTAGC
* * *
315306 CCTTCCCAGTCCTCAAAAAGCAAGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCC-TTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* **
315371 TCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
65 TCCAGTCCTCAAAGAGCAGGA--C---ACCTT-TCAAAGCCCACACAAGTTGGTGGCATTTTCCA
*
315436 GTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAA
124 GTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAA
* *
315500 GAGCAGGACACCTT-TC--AAAGCCCACACAAGTTGGTGGCA
188 GAGTAGGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCA
* * *
315539 -TTTTCCAGTCCTCAAAGAGCAGGAC-AC--CTC-TT-AAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCA--TT
* * *
315598 TT--AGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGCCCT
64 TTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* *
315661 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTA
129 CAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTA
*
315725 GGAC-AC--CTCTTAAAGCCCACACAAGTTGGTGGCA
193 GGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCA
** * *
315759 CCTT-TTAGTCCCCAAAGAGCAGGA---C-AC-CTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
315818 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
66 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* *
315883 AAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC-GTCCCCAAAGAGCAGGA
131 AAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGA
315947 CGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
196 CGCCTTCT-C--TTAAAGCCCACACAAGTTGGTGGCA
* * **
315984 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCC
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT-CTTTCAAAGCCCACACAAGTTGGTGGCATTT
316048 TCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
65 TCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * *
316113 AAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-TGTCCCCAAAGAGTAGG
130 AAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGG
316177 ACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
195 ACGCCTTCT-C--TTAAAGCCCACACAAGTTGGTGGCA
*
316215 -CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTC-TCTTTCAAAGCCCACACAAGTTGGTGGCATTT
* *
316279 TCCAATCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC
65 TCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCC
* *
316342 TCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTA
128 TCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTA
316407 GGACGCCTT-TC--AAAGCCCACAC
193 GGACGCCTTCTCTTAAAGCCCACAC
316429 GTGTTTGTGG
Statistics
Matches: 814, Mismatches: 46, Indels: 67
0.88 0.05 0.07
Matches are distributed among these distances:
218 8 0.01
219 20 0.02
220 267 0.33
221 8 0.01
222 2 0.00
223 1 0.00
224 4 0.00
225 43 0.05
226 50 0.06
227 2 0.00
228 7 0.01
229 1 0.00
230 1 0.00
231 352 0.43
232 48 0.06
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (229 bp):
CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGA
CGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCA
Found at i:317325 original size:19 final size:19
Alignment explanation
Indices: 317301--317368 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
317291 AATTCAACAA
317301 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
317320 TTTGTATCAATAC--AA--
1 TTTGTATCGATACATAAGT
317335 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
317352 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
317369 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:317344 original size:32 final size:32
Alignment explanation
Indices: 317303--317365 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
317293 TTCAACAATT
*
317303 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTATTGTATCAATACAA
*
317335 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCAATACA
317366 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCAATACAA
Found at i:317426 original size:13 final size:13
Alignment explanation
Indices: 317408--317433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
317398 CATTTTTCTG
317408 TGTATCGATACAT
1 TGTATCGATACAT
317421 TGTATCGATACAT
1 TGTATCGATACAT
317434 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:317432 original size:33 final size:33
Alignment explanation
Indices: 317388--317454 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
317378 GCCAAGGAAA
***
317388 TGTATCAATACATTTTTCTGTGTATCGATACAT
1 TGTATCAATACATGGATCTGTGTATCGATACAT
* *
317421 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCAATACATGGATCTGTGTATCGATACAT
317454 T
1 T
317455 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCAATACATGGATCTGTGTATCGATACAT
Found at i:319971 original size:79 final size:79
Alignment explanation
Indices: 319822--320024 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
319812 CGTTAATCAT
* * **
319822 CGGGGATACTCCAACCCCGTTTTTTTCGAGAGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCCAAAATAT
* * *
319887 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
319901 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCAATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCCAAAAT-A
319965 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
319980 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
320025 TGTTATTATC
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 3 0.03
79 100 0.97
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:325543 original size:55 final size:54
Alignment explanation
Indices: 325452--327247 Score: 1637
Period size: 55 Copynumber: 31.3 Consensus size: 54
325442 AGCTCTTCCT
*
325452 AGTCCTTAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
325507 AATCCCCAAAGAGCAGGACACCTTGCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
325562 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
325617 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
*
325672 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
325726 TAATCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 -AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT-TC
* * *
325782 AGTCCTCAAAGAGTAGGACGCCATCTTCTTTCAAAGCCCACACAAGTTGGTGTCATTTTCC
1 AGTCCTCAAAGAGCAGGA---CA-C--CTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* ** * * * *
325843 AATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGATGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
325897 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACAAAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
325958 AGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTC
* *
326017 AGTCCTCAAAGAGCAGGATGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA---C-AC--CTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
326078 AGTCGTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACTTT-C
*
326133 AGTCCTCAAAGAGCGGGATGC-CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--CAC----CTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* ** * *
326193 CGTCCTCAAAGAGTGGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACACC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTTC
* * *
326253 TAGTCCTCAAAGAGCAGGACGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 -AGTCCTCAAAGAGCAGGACAC--CTT-TC--AAAGCCCACACAAGTTGGTGGCACTTTC
* * *** * *
326313 AGTCCTTAAAGAGCGGGACGTTTTTTCTCTTAAAGCCCACATAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGAC--ACCTT-TC--AAAGCCCACACAAGTTGGTGGCACTTTC
* * *** * *
326372 AGTCCTCAAAGAGCGGGGCGTTTTTTCTCTTAAAACCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGAC--ACCTT-TC--AAAGCCCACACAAGTTGGTGGCACTTTC
*
326431 AGTCCTCAAAGAGCAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC--TT-TC--AAAGCCCACACAAGTTGGTGGCACTTTC
* * *
326490 AGTCCTCAAAGAGCGGGACGCCTTCTCCGTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 AGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTTC
** * *
326550 TAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
*
326606 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
326660 TAATCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 -AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT-TC
* * *
326716 AGTCCTCAAAGAACAGGACGCCATTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGA---CA---CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* ** * *
326777 AATCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
326831 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* ** * *
326892 AGTCCCCAAAGAGCAGGATTCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTC
* * *
326951 AGTCCTCAAAGAGCAGGATGCCTTCTTCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA---C-AC--CTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
327012 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
327067 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
327122 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * * *
327177 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTCGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTC
327232 AGTCCTCAAAGAGCAG
1 AGTCCTCAAAGAGCAG
327248 AATACACTTT
Statistics
Matches: 1494, Mismatches: 144, Indels: 206
0.81 0.08 0.11
Matches are distributed among these distances:
54 61 0.04
55 662 0.44
56 37 0.02
57 9 0.01
58 6 0.00
59 221 0.15
60 248 0.17
61 230 0.15
62 6 0.00
63 4 0.00
64 8 0.01
65 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Done.