Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 29 of 228
Found at i:9169026 original size:4 final size:4
Alignment explanation
Indices: 9169019--9169061 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
9169009 TATAAATAAA
9169019 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
9169062 AAAACAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:9169517 original size:14 final size:14
Alignment explanation
Indices: 9169478--9169519 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9169468 AACCCCCAAC
9169478 CTTGAACTC-AAAT
1 CTTGAACTCTAAAT
*
9169491 CCTGAAC-CTTAAAT
1 CTTGAACTC-TAAAT
9169505 CTTGAACTCTAAAT
1 CTTGAACTCTAAAT
9169519 C
1 C
9169520 CCGAGGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 6 0.25
14 16 0.67
15 1 0.04
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (14 bp):
CTTGAACTCTAAAT
Found at i:9182848 original size:19 final size:22
Alignment explanation
Indices: 9182814--9182854 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9182804 ATTTTTAAAA
9182814 TTAAAGAATCAAAA-TTATTTT
1 TTAAAGAATCAAAATTTATTTT
9182835 TTAAA-AAT-AAAATTTATTTT
1 TTAAAGAATCAAAATTTATTTT
9182855 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAGAATCAAAATTTATTTT
Found at i:9182855 original size:5 final size:5
Alignment explanation
Indices: 9182847--9182872 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9182837 AAAAATAAAA
9182847 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
9182873 AGTAACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:9183156 original size:218 final size:210
Alignment explanation
Indices: 9182634--9183285 Score: 877
Period size: 204 Copynumber: 3.0 Consensus size: 210
9182624 ATTAGATAAC
** **
9182634 TTATGTTTATTTTATTTATTTTTACCATATTAGTAACATTTTTATTTATGTAAAATCATA-TTTT
1 TTAT-TTTA-TTTATTTATTTTTATTATATTAGTAACATTTTTATTTATAAAAAATCATATTTTT
* *
9182698 AATTTAACTATATTTAGTAATTATGTTACATGTTTTTATTGTGAAAAAATAAGTATCGTATGCAT
64 AATTT-A-TATATTTAGTAATTATCTTACATGTTTTTATTGTG-AAAAATAAGTATCATATGCAT
* *
9182763 TTTCATATTTTCATTTTCATTTAACAAACATGATTTTTTCAATTTTTAAAATTAAAGAATCAAAA
126 TTTGATATTTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAA
9182828 TTATTTTTTAAAAATAAAAT
191 TTATTTTTTAAAAATAAAAT
* **
9182848 TTATTTTA--T-TTTA-TTTTATTTTATTAGTAACATTTTTATTTATCGAAAATCA-ATTTTTAA
1 TTATTTTATTTATTTATTTTTATTATATTAGTAACATTTTTATTTATAAAAAATCATATTTTTAA
* *
9182908 TTTA-ATATTTAGTAGTTAACTTACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGA
66 TTTATATATTTAGTAATTATCTTACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGA
9182972 TATTTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTATT
131 TATTTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTA-T
*
9183037 TTTTTAAAAACAAAAT
195 TTTTTAAAAATAAAAT
*
9183053 TAAATAATTTTATTTAATTTATTTTTATTATATTAGTAACATTTTCATTTATAAAAAATCATATT
1 T---T-ATTTTATTT-ATTTATTTTTATTATATTAGTAACATTTTTATTTATAAAAAATCATATT
* *
9183118 TTTAATTTGATTATATTTAGTAATTATTTTATATGTTTTTATTGTGAAAAATAAGTATCATATGC
61 TTTAATTT-A-TATATTTAGTAATTATCTTACATGTTTTTATTGTGAAAAATAAGTATCATATGC
*
9183183 ATTTTGATATTTTCATTTTCATTTTCATTAAACAAACATAATTTTTTCTAATTTTTAAAATTAAA
124 ATTTTGATATTTTCATTTTCA---T--TT-AACAAACATGATTTTTT-TAATTTTTAAAATTAAA
* *
9183248 GAATAAAAAATATTTTTTAAAAATAAAAAT
182 GAATCAAAATTATTTTTTAAAAAT-AAAAT
9183278 ATTATTTT
1 -TTATTTT
9183286 TAAAAGACAA
Statistics
Matches: 390, Mismatches: 24, Indels: 40
0.86 0.05 0.09
Matches are distributed among these distances:
204 86 0.22
205 48 0.12
207 2 0.01
208 44 0.11
209 10 0.03
210 1 0.00
211 1 0.00
213 8 0.02
214 39 0.10
215 11 0.03
216 1 0.00
218 70 0.18
221 1 0.00
222 5 0.01
223 3 0.01
224 27 0.07
225 32 0.08
226 1 0.00
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (210 bp):
TTATTTTATTTATTTATTTTTATTATATTAGTAACATTTTTATTTATAAAAAATCATATTTTTAA
TTTATATATTTAGTAATTATCTTACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGA
TATTTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTATT
TTTTAAAAATAAAAT
Found at i:9183274 original size:20 final size:21
Alignment explanation
Indices: 9183243--9183290 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
9183233 ATTTTTAAAA
9183243 TTAAAGAATAAAAA-A-TATTTT
1 TTAAA-AATAAAAATATTA-TTT
9183264 TTAAAAATAAAAATATTATTT
1 TTAAAAATAAAAATATTATTT
9183285 TTAAAA
1 TTAAAA
9183291 GACAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAATAAAAATATTATTT
Found at i:9183297 original size:20 final size:19
Alignment explanation
Indices: 9183253--9183298 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9183243 TTAAAGAATA
*
9183253 AAAAATATTTTTTAAAAAT
1 AAAAATATTTTTTAAAAAG
*
9183272 AAAAATATTATTTTTAAAAG
1 AAAAATATT-TTTTAAAAAG
*
9183292 ACAAATA
1 AAAAATA
9183299 GATTGTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATATTTTTTAAAAAG
Found at i:9196811 original size:21 final size:21
Alignment explanation
Indices: 9196785--9196825 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9196775 AGACGAGCAA
* *
9196785 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9196806 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9196826 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9211081 original size:27 final size:27
Alignment explanation
Indices: 9211029--9211081 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
9211019 CAAGAAAAAT
* * *
9211029 CGCAATCCTAATTTTCTAGGGGTTAAC
1 CGCAACCCTAATTTTCTAGAGATTAAC
9211056 CGCAACCCTAATTTTCTAGAGATTAA
1 CGCAACCCTAATTTTCTAGAGATTAA
9211082 TCAATAATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
CGCAACCCTAATTTTCTAGAGATTAAC
Found at i:9211330 original size:17 final size:17
Alignment explanation
Indices: 9211293--9211330 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9211283 TCATTTAACT
**
9211293 TTTTATAAAATAATTTG
1 TTTTATAAAATAATTCA
9211310 TTTTATAAAATAATTCA
1 TTTTATAAAATAATTCA
9211327 TTTT
1 TTTT
9211331 CAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTATAAAATAATTCA
Found at i:9211418 original size:23 final size:23
Alignment explanation
Indices: 9211370--9211418 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9211360 ATTTGTGAAG
* *
9211370 TCAATTTTTTTGTGGGATCATTT
1 TCAAATTTTTTGTGGGATCATAT
9211393 TCAAATTTTTTGTAGGGATCA-AT
1 TCAAATTTTTTGT-GGGATCATAT
9211416 TCA
1 TCA
9211419 TCAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (23 bp):
TCAAATTTTTTGTGGGATCATAT
Found at i:9215380 original size:20 final size:19
Alignment explanation
Indices: 9215355--9215425 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
9215345 ATTTTAAAAT
9215355 CAAGTCAAAATGATTGCAAA
1 CAAGTCAAAATGATT-CAAA
* **
9215375 CAAGTCAAAATCATTTTAA
1 CAAGTCAAAATGATTCAAA
*
9215394 CTTA-TCAAAATGATTTTCAAA
1 C-AAGTCAAAATGA--TTCAAA
9215415 CAAGTCAAAAT
1 CAAGTCAAAAT
9215426 TACTCTAGGC
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 11 0.28
20 16 0.41
21 12 0.31
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.28
Consensus pattern (19 bp):
CAAGTCAAAATGATTCAAA
Found at i:9217671 original size:27 final size:27
Alignment explanation
Indices: 9217607--9217662 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
9217597 GTTCGTTTGT
*
9217607 AAATGTAATCTTTATTTGATTGTTTTC
1 AAATGTATTCTTTATTTGATTGTTTTC
*
9217634 AAATGTATTCTTTATTTGGTTGTTTTC
1 AAATGTATTCTTTATTTGATTGTTTTC
9217661 AA
1 AA
9217663 GTTAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (27 bp):
AAATGTATTCTTTATTTGATTGTTTTC
Found at i:9219757 original size:18 final size:18
Alignment explanation
Indices: 9219734--9219771 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
9219724 AGGTTGTGAC
9219734 ATGTATAT-AGTTGTCTTG
1 ATGTATATAAG-TGTCTTG
9219752 ATGTATATAAGTGTCTTG
1 ATGTATATAAGTGTCTTG
9219770 AT
1 AT
9219772 ACATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
ATGTATATAAGTGTCTTG
Found at i:9222276 original size:25 final size:25
Alignment explanation
Indices: 9222242--9222294 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
9222232 TCTTTAAAAC
9222242 TTTGAGATGTATGATTTGGATGAAA
1 TTTGAGATGTATGATTTGGATGAAA
9222267 TTTGAGATGTATGATTTGGATGAAA
1 TTTGAGATGTATGATTTGGATGAAA
9222292 TTT
1 TTT
9222295 TTGAAGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (25 bp):
TTTGAGATGTATGATTTGGATGAAA
Found at i:9224620 original size:32 final size:31
Alignment explanation
Indices: 9224575--9224670 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
9224565 CTTAGATAAT
9224575 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
9224606 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
9224638 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
9224669 TT
1 TT
9224671 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:9230298 original size:32 final size:31
Alignment explanation
Indices: 9230253--9230348 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
9230243 CTTAGATAAT
9230253 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
9230284 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
9230316 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
9230347 TT
1 TT
9230349 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:9231394 original size:28 final size:26
Alignment explanation
Indices: 9231355--9231407 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
9231345 ATTTTTTTAA
*
9231355 TTATAATTATTTGATATTTTT-AGATT
1 TTATAATTATTT-AAATTTTTCAGATT
9231381 TTATATATATATTTAAATTTTTCAGAT
1 TTATA-AT-TATTTAAATTTTTCAGAT
9231408 GATGATGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 9 0.39
28 9 0.39
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (26 bp):
TTATAATTATTTAAATTTTTCAGATT
Found at i:9233483 original size:20 final size:20
Alignment explanation
Indices: 9233458--9233497 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9233448 CGTAAAATGA
*
9233458 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
9233478 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9233498 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9233487 original size:34 final size:35
Alignment explanation
Indices: 9233443--9233509 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9233433 CAGTAAAATA
*
9233443 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
9233477 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
9233510 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:9233513 original size:14 final size:15
Alignment explanation
Indices: 9233437--9233513 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
9233427 GATTGCCAGT
* *
9233437 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
9233451 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
9233465 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
9233485 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
9233500 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
9233514 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:9233625 original size:28 final size:28
Alignment explanation
Indices: 9233587--9233649 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
9233577 GGAAAAGTTG
* *
9233587 TTTTTACATATATTAATATGTATTAATAAA
1 TTTTTATATATA-TAAT-TGCATTAATAAA
* *
9233617 TTTTTATATTTATAATTGCATTAATAAT
1 TTTTTATATATATAATTGCATTAATAAA
9233645 TTTTT
1 TTTTT
9233650 GAGAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 15 0.52
29 4 0.14
30 10 0.34
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTTATATATATAATTGCATTAATAAA
Found at i:9233862 original size:26 final size:26
Alignment explanation
Indices: 9233831--9233881 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9233821 CAAAATTTAT
9233831 AGAGACCAATTTAAAATCTAGATTAG
1 AGAGACCAATTTAAAATCTAGATTAG
*
9233857 AGAGACCAATTTAATATCTAGATTA
1 AGAGACCAATTTAAAATCTAGATTA
9233882 TAGTTTGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
AGAGACCAATTTAAAATCTAGATTAG
Found at i:9241311 original size:18 final size:18
Alignment explanation
Indices: 9241290--9241327 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
9241280 TAGCGAATAA
9241290 AAATATATA-AATATAAAT
1 AAATATATATAATA-AAAT
9241308 AAATATATATAATAAAAT
1 AAATATATATAATAAAAT
9241326 AA
1 AA
9241328 TTTCAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATATATAATAAAAT
Found at i:9242783 original size:11 final size:11
Alignment explanation
Indices: 9242713--9242783 Score: 67
Period size: 11 Copynumber: 6.3 Consensus size: 11
9242703 TTCATAAGCT
9242713 AATTCTCTCTCA
1 AATT-TCTCTCA
9242725 AATTTCTTCTC-
1 AATTTC-TCTCA
9242736 AATTTGCTCTC-
1 AATTT-CTCTCA
9242747 AATTTGCTCTCA
1 AATTT-CTCTCA
*
9242759 AATTCCT-TCAA
1 AATTTCTCTC-A
9242770 AATTTCTCTCA
1 AATTTCTCTCA
9242781 AAT
1 AAT
9242784 CCATATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.04
11 35 0.67
12 15 0.29
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.44
Consensus pattern (11 bp):
AATTTCTCTCA
Found at i:9243591 original size:30 final size:30
Alignment explanation
Indices: 9243536--9243596 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
9243526 AGGGGAAAAG
9243536 GGCCCATTCCGGTAAATAAAAAAAT-ATTA
1 GGCCCATTCCGGTAAATAAAAAAATAATTA
* **
9243565 GGCCCATTTCGGTAAATTTTAAAAATAATTA
1 GGCCCATTCCGGTAAA-TAAAAAAATAATTA
9243596 G
1 G
9243597 CTTTTTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 15 0.56
30 7 0.26
31 5 0.19
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (30 bp):
GGCCCATTCCGGTAAATAAAAAAATAATTA
Found at i:9244965 original size:5 final size:5
Alignment explanation
Indices: 9244955--9245002 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
9244945 TAATTGCATT
9244955 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CAT
1 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CAT
9245003 TTTCATGCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
CATAA
Found at i:9253814 original size:24 final size:24
Alignment explanation
Indices: 9253786--9253833 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9253776 TGTTATAATT
9253786 TTTTTTTATTTACCAAAAAATATA
1 TTTTTTTATTTACCAAAAAATATA
* *
9253810 TTTTTTTATTTATCAAAATATATA
1 TTTTTTTATTTACCAAAAAATATA
9253834 AAAAACAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTTTTATTTACCAAAAAATATA
Found at i:9253969 original size:4 final size:4
Alignment explanation
Indices: 9253960--9254098 Score: 83
Period size: 4 Copynumber: 34.0 Consensus size: 4
9253950 GAAGGAGAGG
* *
9253960 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
* * * *
9254008 GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA TAAA G-AA G-AA
1 GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA
* *
9254056 GAAAA GGAAA GGAGAA GAAA -AAG GAAA GAAA GAAG GAAA GAAA
1 G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
9254099 AGGAAAGGAG
Statistics
Matches: 108, Mismatches: 14, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
3 14 0.13
4 63 0.58
5 27 0.25
6 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:9253999 original size:18 final size:17
Alignment explanation
Indices: 9253949--9254019 Score: 72
Period size: 18 Copynumber: 4.1 Consensus size: 17
9253939 TGGGGTGGGC
9253949 AGAAGGAGAGGGAAAGAA
1 AGAAGGAGA-GGAAAGAA
* *
9253967 AGAAAGA-AAGAAAGAA
1 AGAAGGAGAGGAAAGAA
9253983 AGGAAGGAGAGGAAAGAA
1 A-GAAGGAGAGGAAAGAA
**
9254001 AGAAAAAGAAGGAAAGAA
1 AGAAGGAG-AGGAAAGAA
9254019 A
1 A
9254020 AGGAAAGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
16 8 0.18
17 11 0.25
18 25 0.57
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
AGAAGGAGAGGAAAGAA
Found at i:9254002 original size:34 final size:36
Alignment explanation
Indices: 9253951--9254109 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 36
9253941 GGGTGGGCAG
9253951 AAGGAGAGGGAAAGAAAGAAAGAAAGAAAG-AAAGG-
1 AAGGAGA-GGAAAGAAAGAAAGAAAGAAAGAAAAGGA
*
9253986 AAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAGGAAAGAAAG--AAAGAAAGAAAGAAAAGGA
* *
9254024 AAGGAGAAGAGAAAAAAAGAAATAAAGAAGAAGAAAAGGA
1 AAGGAG-AG-GAAAGAAAGAAAGAAAG-A-AAGAAAAGGA
* *
9254064 AAGGAGAAGAAAAAGGAAAGAAAGAAGGAAAGAAAAGGA
1 AAGGAG-AG-GAAA-GAAAGAAAGAAAGAAAGAAAAGGA
9254103 AAGGAGA
1 AAGGAGA
9254110 AGAGAAAAAA
Statistics
Matches: 107, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
34 10 0.09
35 7 0.07
36 11 0.10
37 5 0.05
38 13 0.12
39 19 0.18
40 32 0.30
41 10 0.09
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (36 bp):
AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAAGGA
Found at i:9254016 original size:40 final size:40
Alignment explanation
Indices: 9253965--9254157 Score: 150
Period size: 40 Copynumber: 5.1 Consensus size: 40
9253955 AGAGGGAAAG
*
9253965 AAAGAAAGAAAG-AAA-GAAAGGAAGGAGAGGAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGGAAGGAGA-GAAA-AAAGAA
*
9254005 AAAGAAGGAAAGAAAAGGAAAGG-AGAAGAGAAAAAAAGAAA
1 AAAGAAGGAAAGAAAAGGAAAGGAAGGAGAG-AAAAAAG-AA
*
9254046 TAAAGAA-G-AAGAAAAGGAAAGG-A-GA-AGAAAAAGGAAA
1 -AAAGAAGGAAAGAAAAGGAAAGGAAGGAGAGAAAAAAG-AA
* *
9254083 GAAAGAAGGAAAGAAAAGGAAAGG-AGAAGAGAAAAAA-TA
1 -AAAGAAGGAAAGAAAAGGAAAGGAAGGAGAGAAAAAAGAA
*
9254122 AAAGAA-G-AAG---AGGGAAGGAAGGA-A-AAAAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGGAAGGAGAGAAAAAAGAA
9254155 AAA
1 AAA
9254158 AAATGTAATT
Statistics
Matches: 131, Mismatches: 11, Indels: 29
0.77 0.06 0.17
Matches are distributed among these distances:
32 6 0.05
33 12 0.09
34 3 0.02
36 3 0.02
37 16 0.12
38 9 0.07
39 17 0.13
40 32 0.24
41 21 0.16
42 12 0.09
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (40 bp):
AAAGAAGGAAAGAAAAGGAAAGGAAGGAGAGAAAAAAGAA
Found at i:9254098 original size:79 final size:78
Alignment explanation
Indices: 9253961--9254160 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 78
9253951 AAGGAGAGGG
*
9253961 AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
1 AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
9254026 GGAGAAGAGAAAA
66 GGAGAAGAGAAAA
* *
9254039 AAAGAAATAAAG-AAG-AAGAAAAGGAAAGGAGAAGAAA-AAGGAAAGAAAGAAGGAAAGAAAAG
1 AAAGAAAGAAAGAAAGAAAG-AAAGG-AAGGAGAAGAAAGAAAG-AA-AAAGAAGGAAAGAAAAG
9254101 GAAAGGAGAAGAGAAAA
62 GAAAGGAGAAGAGAAAA
* * * *
9254118 AATA-AAAG-AAG-AAG-AGGGAAGGAAGGAAAAAAAAGAAA-AAAAA
1 AA-AGAAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAA
9254161 TGTAATTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
74 3 0.03
75 2 0.02
76 13 0.12
77 17 0.16
78 32 0.30
79 39 0.36
80 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (78 bp):
AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
GGAGAAGAGAAAA
Found at i:9257960 original size:19 final size:21
Alignment explanation
Indices: 9257936--9257974 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9257926 CTAAAACAAA
*
9257936 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
9257955 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
9257975 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:9258360 original size:11 final size:11
Alignment explanation
Indices: 9258338--9258395 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
9258328 CAAAAATCCT
9258338 CTCTCAAATTTC
1 CTCTC-AATTTC
9258350 CTCTCAATTTC
1 CTCTCAATTTC
9258361 CTCTCAATTTC
1 CTCTCAATTTC
* *
9258372 CTCTAAATTTG
1 CTCTCAATTTC
*
9258383 CTCTCAAATTC
1 CTCTCAATTTC
9258394 CT
1 CT
9258396 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:9258372 original size:22 final size:22
Alignment explanation
Indices: 9258338--9258405 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
9258328 CAAAAATCCT
*
9258338 CTCTCAAATTTCCTCTCAATTTC
1 CTCTC-AATTTCCTCTAAATTTC
*
9258361 CTCTCAATTTCCTCTAAATTTG
1 CTCTCAATTTCCTCTAAATTTC
* *
9258383 CTCTCAAATTCCTTCCAAATTTC
1 CTCTCAATTTCC-TCTAAATTTC
9258406 TTTGAAATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 26 0.67
23 13 0.33
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (22 bp):
CTCTCAATTTCCTCTAAATTTC
Found at i:9259631 original size:7 final size:7
Alignment explanation
Indices: 9259619--9259643 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9259609 AGTCGGTTGA
9259619 TATTTAG
1 TATTTAG
9259626 TATTTAG
1 TATTTAG
9259633 TATTTAG
1 TATTTAG
9259640 TATT
1 TATT
9259644 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:9260875 original size:22 final size:22
Alignment explanation
Indices: 9260850--9261028 Score: 94
Period size: 22 Copynumber: 7.5 Consensus size: 22
9260840 AATTTAATTG
*
9260850 AAAAACCCTAAACTCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
9260872 AAAAACCTTAACCCTAACCCTTAACTT
1 AAAAACCCT-A----AACCCTTAACTT
*
9260899 TAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* * *
9260921 TAAAACCCTTAA-CTTTAAAACCTTT
1 AAAAACCCTAAACCCTT--AA-C-TT
* * *
9260946 AACTTTAAAACCCTAAACTCTTAACTT
1 AA----AAACCCT-AAACCCTTAACTT
9260973 AAAAAACCCT-AACCCTTAACTT
1 A-AAAACCCTAAACCCTTAACTT
9260995 AAAAACCACT-AACCCTTAACTT
1 AAAAACC-CTAAACCCTTAACTT
**
9261017 TTAAACCCTAAA
1 AAAAACCCTAAA
9261029 GTAGCAAAAG
Statistics
Matches: 122, Mismatches: 17, Indels: 36
0.70 0.10 0.21
Matches are distributed among these distances:
21 11 0.09
22 64 0.52
23 3 0.02
24 6 0.05
25 3 0.02
26 1 0.01
27 21 0.17
28 2 0.02
29 7 0.06
30 2 0.02
31 2 0.02
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAACCCTAAACCCTTAACTT
Found at i:9260888 original size:28 final size:28
Alignment explanation
Indices: 9260852--9260923 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
9260842 TTTAATTGAA
9260852 AAACCCTAAACTCTTAAC-TTAAAAACCT
1 AAACCCT-AACTCTTAACTTTAAAAACCT
* * *
9260880 TAACCCTAACCCTTAACTTTAAAACCCT
1 AAACCCTAACTCTTAACTTTAAAAACCT
9260908 AAACCCTTAACT-TTAA
1 AAACCC-TAACTCTTAA
9260924 AACCCTTAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.24
28 24 0.65
29 4 0.11
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28
Consensus pattern (28 bp):
AAACCCTAACTCTTAACTTTAAAAACCT
Found at i:9260907 original size:15 final size:15
Alignment explanation
Indices: 9260908--9260969 Score: 97
Period size: 15 Copynumber: 4.1 Consensus size: 15
9260898 TTAAAACCCT
9260908 AAACCCTTAACTTTA
1 AAACCCTTAACTTTA
9260923 AAACCCTTAACTTTA
1 AAACCCTTAACTTTA
*
9260938 AAACCTTTAACTTTA
1 AAACCCTTAACTTTA
*
9260953 AAACCCTAAACTCTTA
1 AAACCCTTAACT-TTA
9260969 A
1 A
9260970 CTTAAAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
15 39 0.91
16 4 0.09
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (15 bp):
AAACCCTTAACTTTA
Found at i:9260960 original size:52 final size:50
Alignment explanation
Indices: 9260851--9261025 Score: 195
Period size: 52 Copynumber: 3.6 Consensus size: 50
9260841 ATTTAATTGA
*
9260851 AAAACCCTAAACTCTTAAC-TTAAAAACCTTAACCCTAACCCTTAACTTT
1 AAAACCCTAAACTCTTAACTTTAAAACCCTTAACCCTAACCCTTAACTTT
* ** *
9260900 AAAACCCTAAACCCTTAACTTTAAAACCCTTAACTTTAAAACCTTTAACTTT
1 AAAACCCTAAACTCTTAACTTTAAAACCCTTAACCCT--AACCCTTAACTTT
*
9260952 AAAACCCTAAACTCTTAAC-TTAAAA-----AACCCTAACCCTTAACTTA
1 AAAACCCTAAACTCTTAACTTTAAAACCCTTAACCCTAACCCTTAACTTT
* *
9260996 AAAACCACT-AACCCTTAACTTTTAAACCCT
1 AAAACC-CTAAACTCTTAACTTTAAAACCCT
9261026 AAAGTAGCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
44 26 0.25
45 7 0.07
46 4 0.04
49 18 0.17
50 14 0.13
51 6 0.06
52 30 0.29
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.29
Consensus pattern (50 bp):
AAAACCCTAAACTCTTAACTTTAAAACCCTTAACCCTAACCCTTAACTTT
Found at i:9261293 original size:126 final size:125
Alignment explanation
Indices: 9261040--9261454 Score: 645
Period size: 126 Copynumber: 3.3 Consensus size: 125
9261030 TAGCAAAAGT
* *
9261040 GCGATTTCACAAATTCTTCTCA-ACTAGCATCCTGCTAGAAGCGTTTTTTTAAAACTATTTGCTC
1 GCGATTTCACAAATTCTTCTCATA-AAGCATCCTGCTTGAAGCG-TTTTTT-AAACTATTTGCTC
9261104 AGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
63 AGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
9261167 GCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAG
1 GCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAG
* *
9261231 AAACGTCAACTCGAAATTATTTCTTCCAAGACCTACTATAGCAAAAGCGCGTCCACGAGGGC
65 AAACGTCAACTCGAAATTATTT-TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
* * *
9261293 GCGATTTCACAATTTCTTCTCATAAAGCATCCTGCTTGAAGCGCTTTTTATACTATTTGCTCAGA
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGA
* * *
9261358 AACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTACACGTGGGC
66 AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
* * * *
9261418 GCGACTTCAGAAATCCTTCTGATAAAGCATCCTGCTT
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
9261455 TGATTTTATC
Statistics
Matches: 268, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
125 103 0.38
126 123 0.46
127 42 0.16
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (125 bp):
GCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGA
AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
Found at i:9265672 original size:18 final size:17
Alignment explanation
Indices: 9265633--9265674 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
9265623 ATAAAAATAA
9265633 TTTTTT-ATTATTTTCT
1 TTTTTTCATTATTTTCT
**
9265649 AATTTTCATATATTTTCT
1 TTTTTTCAT-TATTTTCT
9265667 TTTTTTCA
1 TTTTTTCA
9265675 AAAATCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 4 0.20
17 2 0.10
18 14 0.70
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTCATTATTTTCT
Found at i:9268229 original size:17 final size:16
Alignment explanation
Indices: 9268207--9268239 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
9268197 AGTAAAAATT
9268207 AAAGCATGAAACAACAA
1 AAAGCATGAAA-AACAA
9268224 AAAGCATGAAAAACAA
1 AAAGCATGAAAAACAA
9268240 GAGAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.67, C:0.15, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAGCATGAAAAACAA
Found at i:9272228 original size:78 final size:79
Alignment explanation
Indices: 9272038--9272364 Score: 333
Period size: 78 Copynumber: 4.2 Consensus size: 79
9272028 TAGAATTGAG
* * *
9272038 GAAATCGAACAAATCCTGTTGAAC-GACAGGAATAAAAATCCTGAAATAGGAGTGTTCAA-TAGA
1 GAAATCAAACAAATCCTGTTAAACTGACAGGAA-AAAAATCCTGAAACAGGAGTGTTCAATTA-A
** *
9272101 GATTCTATTTGAAACA
64 TTTTCTGTTTGAAACA
* * * * ** *
9272117 AAAATAAAAAAAAAATCTTGTTAAA-TGACAGGAAAAAAATCCAAAAATAGGAGTGTTCAATTAA
1 GAAAT--CAAACAAATCCTGTTAAACTGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTAA
*
9272181 TTCTT-TGTTTGAAAGA
64 TT-TTCTGTTTGAAACA
* * *** *
9272197 GAAGTCAAACAAATCCTGTTAAACAG-CAGGAATGGAATCCTGAAACAGGAGTGTTCAATTGATT
1 GAAATCAAACAAATCCTGTTAAACTGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTAATT
*
9272261 TTCTGTTTGAAATA
66 TTCTGTTTGAAACA
** * * *
9272275 GAAATCAAACAAATCCTGTTAAACTG-CAGGAGTAAAATCCTGAAACAGGAATGTTTAATTGATT
1 GAAATCAAACAAATCCTGTTAAACTGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTAATT
9272339 TTCTGTTTGAAACA
66 TTCTGTTTGAAACA
9272353 GAAATCAAACAA
1 GAAATCAAACAA
9272365 TCTCTCGTTG
Statistics
Matches: 207, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
77 2 0.01
78 138 0.67
79 5 0.02
80 37 0.18
81 25 0.12
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (79 bp):
GAAATCAAACAAATCCTGTTAAACTGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTAATT
TTCTGTTTGAAACA
Found at i:9272347 original size:156 final size:158
Alignment explanation
Indices: 9272038--9272364 Score: 367
Period size: 156 Copynumber: 2.1 Consensus size: 158
9272028 TAGAATTGAG
* * *
9272038 GAAATCGAACAAATCCTGTTGAACGACAGGAATAAAAATCCTGAAATAGGAGTGTTCAATAGAGA
1 GAAATCAAACAAATCCTGTTAAACGACAGGAATAAAAATCCTGAAACAGGAGTGTTCAATAGAGA
* *
9272103 TTCTATTTGAAACAAAAATAAAAAAAAAATCTTGTTAAATGACAGGAAAAAAATCCAAAAATAGG
66 TTCTATTTGAAACAAAAAT-AAAAAAAAATCCTGTTAAATGACAGGAAAAAAATCCAAAAACAGG
* *
9272168 AGTGTTCAATTAATTCTTTGTTTGAAAGA
130 AATGTTCAATTAATTCTTTGTTTGAAACA
* ** * *
9272197 GAAGTCAAACAAATCCTGTTAAAC-AGCAGGAAT-GGAATCCTGAAACAGGAGTGTTCAATTGAT
1 GAAATCAAACAAATCCTGTTAAACGA-CAGGAATAAAAATCCTGAAACAGGAGTGTTCAATAGAG
* * * * * * ** **
9272260 TTTCTGTTTGAAATAGAAAT-CAAACAAATCCTGTTAAACTG-CAGGAGTAAAATCCTGAAACAG
65 ATTCTATTTGAAACAAAAATAAAAAAAAATCCTGTTAAA-TGACAGGAAAAAAATCCAAAAACAG
* *
9272323 GAATGTTTAATTGATT-TTCTGTTTGAAACA
129 GAATGTTCAATTAATTCTT-TGTTTGAAACA
9272353 GAAATCAAACAA
1 GAAATCAAACAA
9272365 TCTCTCGTTG
Statistics
Matches: 140, Mismatches: 25, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
155 2 0.01
156 66 0.47
157 2 0.01
158 42 0.30
159 28 0.20
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (158 bp):
GAAATCAAACAAATCCTGTTAAACGACAGGAATAAAAATCCTGAAACAGGAGTGTTCAATAGAGA
TTCTATTTGAAACAAAAATAAAAAAAAATCCTGTTAAATGACAGGAAAAAAATCCAAAAACAGGA
ATGTTCAATTAATTCTTTGTTTGAAACA
Found at i:9273716 original size:25 final size:25
Alignment explanation
Indices: 9273684--9273758 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
9273674 TTCTCTCATC
9273684 GCTAGTTCTTTGTTCCTCTGCTGGT
1 GCTAGTTCTTTGTTCCTCTGCTGGT
* * *
9273709 GTTGGTTCTTTGTTCCTCTACTGGT
1 GCTAGTTCTTTGTTCCTCTGCTGGT
9273734 GCTAGTTCTTTGTTCCTCTGCTGGT
1 GCTAGTTCTTTGTTCCTCTGCTGGT
9273759 TATTTGTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.04, C:0.23, G:0.24, T:0.49
Consensus pattern (25 bp):
GCTAGTTCTTTGTTCCTCTGCTGGT
Found at i:9275916 original size:18 final size:18
Alignment explanation
Indices: 9275893--9275958 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
9275883 AAAATATGAG
* *
9275893 AAATGATGTTCCCATTTT
1 AAATGATGTTCACATTTC
9275911 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
9275929 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
9275947 AAATGATGTTCA
1 AAATGATGTTCA
9275959 AATTGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:9278358 original size:19 final size:19
Alignment explanation
Indices: 9278313--9278373 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
9278303 ATCTAATTAC
9278313 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
9278334 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
9278353 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
9278372 AA
1 AA
9278374 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:9286817 original size:27 final size:26
Alignment explanation
Indices: 9286777--9286837 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 26
9286767 ATAAATATTT
*
9286777 TATTTTTTA-TTTTTTAATTTTAAAA
1 TATTTTTAATTTTTTTAATTTTAAAA
9286802 TACTTTTTAATTTTTTTAATTTTAAAA
1 TA-TTTTTAATTTTTTTAATTTTAAAA
9286829 TATTTTTAA
1 TATTTTTAA
9286838 AATAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 2 0.06
26 13 0.39
27 18 0.55
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTTTTAATTTTTTTAATTTTAAAA
Found at i:9286837 original size:11 final size:12
Alignment explanation
Indices: 9286821--9286871 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
9286811 ATTTTTTTAA
9286821 TTTTAAAAT-AT
1 TTTTAAAATAAT
9286832 TTTTAAAATAAT
1 TTTTAAAATAAT
***
9286844 TTTTTTTA-AAT
1 TTTTAAAATAAT
9286855 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
9286868 TTTT
1 TTTT
9286872 GGTATTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 17 0.55
12 7 0.23
13 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:9287523 original size:13 final size:14
Alignment explanation
Indices: 9287500--9287529 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9287490 AAATGTTCAA
9287500 AAAATAAAAACATG
1 AAAATAAAAACATG
9287514 AAAA-AAAAACATG
1 AAAATAAAAACATG
9287527 AAA
1 AAA
9287530 TACATGTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAATAAAAACATG
Found at i:9287664 original size:31 final size:31
Alignment explanation
Indices: 9287603--9287668 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
9287593 TTAAAAAAAT
*
9287603 AATTCAACTCTTTTTGTAAAATTAATAGTCA
1 AATTCAACTCTTTTTGTAAAATTAAGAGTCA
* **
9287634 AATTCAACT-TTTTTTTAAAGATTGGGAGTCA
1 AATTCAACTCTTTTTGTAAA-ATTAAGAGTCA
9287665 AATT
1 AATT
9287669 TAGCTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (31 bp):
AATTCAACTCTTTTTGTAAAATTAAGAGTCA
Found at i:9290207 original size:19 final size:21
Alignment explanation
Indices: 9290174--9290226 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
9290164 GTTCACTAGA
9290174 CACACAGGCTTGTGT-CATC-TT
1 CACACAGGC--GTGTACATCATT
*
9290195 CACACAGGCGTGTACCTCATT
1 CACACAGGCGTGTACATCATT
*
9290216 CACATAGGCGT
1 CACACAGGCGT
9290227 ATAGACCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.14
20 3 0.11
21 21 0.75
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (21 bp):
CACACAGGCGTGTACATCATT
Found at i:9291691 original size:19 final size:19
Alignment explanation
Indices: 9291663--9291701 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9291653 TAATATTTGG
*
9291663 TTTAAATATTAAATGTGTC
1 TTTAAATATTAAATATGTC
* *
9291682 TTTAATTATTTAATATGTC
1 TTTAAATATTAAATATGTC
9291701 T
1 T
9291702 AAGTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTAAATATTAAATATGTC
Found at i:9293220 original size:13 final size:13
Alignment explanation
Indices: 9293202--9293232 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9293192 ATTGATAAAG
*
9293202 AATAATTTCATTT
1 AATAATTTCATTA
9293215 AATAATTTCATTA
1 AATAATTTCATTA
9293228 AATAA
1 AATAA
9293233 GTGAACCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (13 bp):
AATAATTTCATTA
Found at i:9293566 original size:100 final size:100
Alignment explanation
Indices: 9293393--9293595 Score: 406
Period size: 100 Copynumber: 2.0 Consensus size: 100
9293383 TCAAATGTGC
9293393 TTTTGTTGAAATGTTAAAATCAAGGCTTTAGGTTTACATATTTAATATAAAAATACAAAATTACC
1 TTTTGTTGAAATGTTAAAATCAAGGCTTTAGGTTTACATATTTAATATAAAAATACAAAATTACC
9293458 TTTATAATGATATTTATTATTTCTAAAATAATTTT
66 TTTATAATGATATTTATTATTTCTAAAATAATTTT
9293493 TTTTGTTGAAATGTTAAAATCAAGGCTTTAGGTTTACATATTTAATATAAAAATACAAAATTACC
1 TTTTGTTGAAATGTTAAAATCAAGGCTTTAGGTTTACATATTTAATATAAAAATACAAAATTACC
9293558 TTTATAATGATATTTATTATTTCTAAAATAATTTT
66 TTTATAATGATATTTATTATTTCTAAAATAATTTT
9293593 TTT
1 TTT
9293596 ACTTCTCAAC
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (100 bp):
TTTTGTTGAAATGTTAAAATCAAGGCTTTAGGTTTACATATTTAATATAAAAATACAAAATTACC
TTTATAATGATATTTATTATTTCTAAAATAATTTT
Found at i:9295554 original size:19 final size:20
Alignment explanation
Indices: 9295516--9295559 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
9295506 CCTTAATTTG
9295516 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAGATTATTA
*
9295536 TTTTATTTATAA-TTTATTA
1 TTTTATTTATAAGATTATTA
9295555 TTTTA
1 TTTTA
9295560 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATTTATAAGATTATTA
Found at i:9297555 original size:41 final size:41
Alignment explanation
Indices: 9297502--9297579 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
9297492 TTAAAATTTT
9297502 ATACATACATATA-CTTTTCATATTTCTATAATTCTATGTAG
1 ATACATACATATATCTTTT-ATATTTCTATAATTCTATGTAG
* * *
9297543 ATACATATATATATCTTTTATATTTTTATAGTTCTAT
1 ATACATACATATATCTTTTATATTTCTATAATTCTAT
9297580 TCATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (41 bp):
ATACATACATATATCTTTTATATTTCTATAATTCTATGTAG
Found at i:9297971 original size:110 final size:109
Alignment explanation
Indices: 9297774--9298087 Score: 455
Period size: 110 Copynumber: 2.9 Consensus size: 109
9297764 TACGCATACT
* * * *
9297774 AATTTCGAAATAAGGCAATGTTTTGCGTTCAGAAATTCGAGAAAACGTGTCTTAATGTGTTGGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
*
9297839 TTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAA
* * *
9297884 AATTTCAAAATAAGGCAATGTTTTCCGTTCGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
*
9297949 TTCGATTTTTCTCATTCGACC--A-A---AAATATCCTTTTAAA
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
* *
9297987 AATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGAGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
*
9298052 TTCGA--TTTCTCGTTCGACCAAATGGCCAAATATCCT
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCT
9298088 CCTAAATCTT
Statistics
Matches: 182, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
101 13 0.07
103 69 0.38
104 12 0.07
107 10 0.05
108 1 0.01
110 77 0.42
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATTTCAAAATAAGGCAATGTTTTGCGTTCAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
Found at i:9298318 original size:22 final size:22
Alignment explanation
Indices: 9298275--9298319 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9298265 TCGTGGACCA
* *
9298275 AAATTGTTGTTTTAATAAAATC
1 AAATTGTTGTATTAAAAAAATC
9298297 AAATTGTT-TATTAAAAACAATC
1 AAATTGTTGTATTAAAAA-AATC
9298319 A
1 A
9298320 CTTTTCGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTGTTGTATTAAAAAAATC
Found at i:9306479 original size:27 final size:28
Alignment explanation
Indices: 9306448--9306510 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
9306438 GTAGAACAAG
* * *
9306448 TTTTAATATAAATTTTAT-TCTCATATA
1 TTTTAATATAAATATTATATATAATATA
9306475 TTTTAA-ATAAATATTATATATAATATA
1 TTTTAATATAAATATTATATATAATATA
*
9306502 TTATAATAT
1 TTTTAATAT
9306511 GTCGGTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.33
27 18 0.60
28 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTAATATAAATATTATATATAATATA
Found at i:9307228 original size:16 final size:16
Alignment explanation
Indices: 9307207--9307249 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
9307197 TTTTTAAAAT
9307207 TATAAAAAATTAGAAA
1 TATAAAAAATTAGAAA
*
9307223 TATAAAAAAATGAGAAA
1 TAT-AAAAAATTAGAAA
9307240 TA-AAAAAATT
1 TATAAAAAATT
9307250 CAAAAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 3 0.12
17 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (16 bp):
TATAAAAAATTAGAAA
Found at i:9314021 original size:19 final size:20
Alignment explanation
Indices: 9313971--9314022 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
9313961 AAAATGATAA
9313971 AATCAAGTT-AAAATGGTTTC
1 AATCAAGTTAAAAAT-GTTTC
** *
9313991 AATTGAGGTAAAAAT-TTTC
1 AATCAAGTTAAAAATGTTTC
9314010 AATCAAGTTAAAA
1 AATCAAGTTAAAA
9314023 CTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 14 0.56
20 6 0.24
21 5 0.20
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (20 bp):
AATCAAGTTAAAAATGTTTC
Found at i:9314102 original size:19 final size:21
Alignment explanation
Indices: 9314078--9314121 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9314068 GTATCGGTAG
9314078 TTTTC-AAAA-TATCAATACC
1 TTTTCAAAAAGTATCAATACC
*
9314097 TTTTCAAAAAGTATCGATACC
1 TTTTCAAAAAGTATCAATACC
9314118 TTTT
1 TTTT
9314122 ACCAAGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 13 0.59
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (21 bp):
TTTTCAAAAAGTATCAATACC
Found at i:9321443 original size:15 final size:14
Alignment explanation
Indices: 9321408--9321444 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9321398 TAAGAGTATT
9321408 TATTTTATGGAAAA
1 TATTTTATGGAAAA
*
9321422 TAATTTATGGAAAA
1 TATTTTATGGAAAA
9321436 TACTTTTAT
1 TA-TTTTAT
9321445 ATTTCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (14 bp):
TATTTTATGGAAAA
Found at i:9326857 original size:21 final size:21
Alignment explanation
Indices: 9326831--9326870 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9326821 AAAAGATATA
*
9326831 TTTGATTTGATGAGTGCAGTC
1 TTTGATTTGATGAATGCAGTC
*
9326852 TTTGATTTTATGAATGCAG
1 TTTGATTTGATGAATGCAG
9326871 CTAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTGATTTGATGAATGCAGTC
Found at i:9330498 original size:25 final size:25
Alignment explanation
Indices: 9330470--9330527 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
9330460 AATTGCATAG
* *
9330470 TTTGTTTTACATCTCAAATGTATAC
1 TTTGTTTTACATCCCAAATGTACAC
9330495 TTTGTTTTACATCCCAAATGTACAC
1 TTTGTTTTACATCCCAAATGTACAC
*
9330520 TTTTTTTT
1 TTTGTTTT
9330528 TTCAATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (25 bp):
TTTGTTTTACATCCCAAATGTACAC
Found at i:9332746 original size:17 final size:17
Alignment explanation
Indices: 9332717--9332754 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9332707 TAAAAGCATC
*
9332717 TTAT-TTAACAATATTT
1 TTATCTTAAAAATATTT
9332733 TTATCTTAAAAATATTT
1 TTATCTTAAAAATATTT
9332750 TTATC
1 TTATC
9332755 CCAAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATCTTAAAAATATTT
Found at i:9332760 original size:17 final size:17
Alignment explanation
Indices: 9332726--9332763 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9332716 CTTATTTAAC
**
9332726 AATATTTTTATCTTAAA
1 AATATTTTTATCCCAAA
9332743 AATATTTTTATCCCAAA
1 AATATTTTTATCCCAAA
9332760 AATA
1 AATA
9332764 CTTCTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTTTTATCCCAAA
Found at i:9336959 original size:13 final size:13
Alignment explanation
Indices: 9336900--9336960 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
9336890 TTTTAAATTT
*
9336900 ATAATTATTTAGTG
1 ATAA-TATTTAGTA
* *
9336914 ATAACATTTAGTG
1 ATAATATTTAGTA
9336927 ATAATATTTA--A
1 ATAATATTTAGTA
*
9336938 A-ATTATTTAGTA
1 ATAATATTTAGTA
9336950 ATAATATTTAG
1 ATAATATTTAG
9336961 GAAAAATCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 2 0.05
13 25 0.64
14 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.46
Consensus pattern (13 bp):
ATAATATTTAGTA
Found at i:9340783 original size:46 final size:45
Alignment explanation
Indices: 9340714--9341085 Score: 451
Period size: 46 Copynumber: 8.6 Consensus size: 45
9340704 TTTGAGTACT
*
9340714 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCACTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
* * *
9340760 TTTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
*
9340806 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
* *
9340842 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
*
9340888 TCTGATCAAGTGAAAAAGTGATAA---GT-G-CTA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
9340924 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTA
*
9340970 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTA
*
9341016 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGTTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
9341061 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
9341086 ATCATATGTA
Statistics
Matches: 289, Mismatches: 17, Indels: 43
0.83 0.05 0.12
Matches are distributed among these distances:
36 58 0.20
37 2 0.01
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 5 0.02
43 14 0.05
44 6 0.02
45 19 0.07
46 177 0.61
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
Found at i:9340837 original size:36 final size:36
Alignment explanation
Indices: 9340796--9340950 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
9340786 GGTAGCATTA
9340796 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
9340832 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
9340877 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
9340914 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
9340950 G
1 G
9340951 TTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:9340848 original size:82 final size:81
Alignment explanation
Indices: 9340750--9341085 Score: 451
Period size: 82 Copynumber: 4.0 Consensus size: 81
9340740 GGTAGCACTA
* *
9340750 GCTACACTTATTTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
9340815 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
9340832 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
9340897 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
9340914 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
9340979 GTGACAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
* *
9340999 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGTTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
9341064 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
9341085 G
1 G
9341086 ATCATATGTA
Statistics
Matches: 228, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
82 152 0.67
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 19 0.08
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:9341078 original size:128 final size:125
Alignment explanation
Indices: 9340714--9341085 Score: 431
Period size: 128 Copynumber: 2.9 Consensus size: 125
9340704 TTTGAGTACT
* * *
9340714 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCAC-TAGCTACACTTATTTGATCAAGTGAGAAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTTAGCTACACTTATCTGATCAAGTGAAAAAG
* *
9340778 TGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
65 TGATAAGTGGTAGC--TAGTTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTA
* *
9340842 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
9340907 GATAA---GT-GCTA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTA
66 GATAAGTGGTAGCTAGTTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCTA
9340964 CACTTA
120 CACTTA
* *
9340970 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
9341035 GATAAGTGGTAGCCTAGTTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 GATAAGTGGTAG-CTAGTTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
9341086 ATCATATGTA
Statistics
Matches: 210, Mismatches: 13, Indels: 45
0.78 0.05 0.17
Matches are distributed among these distances:
117 1 0.00
118 23 0.11
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.02
125 3 0.01
126 1 0.00
127 1 0.00
128 140 0.67
129 2 0.01
131 2 0.01
132 1 0.00
133 3 0.01
134 1 0.00
135 8 0.04
136 4 0.02
137 12 0.06
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (125 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCTAGTTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTA
Found at i:9343151 original size:24 final size:24
Alignment explanation
Indices: 9343077--9343153 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
9343067 CACCAGCCAC
9343077 ATTTTAGAGGTGTATAGTAAGTAT
1 ATTTTAGAGGTGTATAGTAAGTAT
*
9343101 ATGTTAGAGGTGTATAGTAAGTAT
1 ATTTTAGAGGTGTATAGTAAGTAT
*
9343125 ATTTTAGAGGTGTATAGTAAGTGT
1 ATTTTAGAGGTGTATAGTAAGTAT
9343149 ATTTT
1 ATTTT
9343154 TCGACTATGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (24 bp):
ATTTTAGAGGTGTATAGTAAGTAT
Found at i:9346904 original size:13 final size:13
Alignment explanation
Indices: 9346886--9346918 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
9346876 AATTTAGAAT
9346886 TATTTAGTGATAA
1 TATTTAGTGATAA
9346899 TATTTAGTGATAA
1 TATTTAGTGATAA
9346912 TATTTAG
1 TATTTAG
9346919 AATTATGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:9355883 original size:13 final size:12
Alignment explanation
Indices: 9355867--9355896 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
9355857 TTTCGATAAG
9355867 TTTTTTAGATTTA
1 TTTTTTAGA-TTA
9355880 TTTTTTAGATTA
1 TTTTTTAGATTA
9355892 TTTTT
1 TTTTT
9355897 CTATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTAGATTA
Found at i:9357162 original size:8 final size:8
Alignment explanation
Indices: 9357144--9357173 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
9357134 ACATGGCTTA
9357144 TTTTTTCCC
1 TTTTTT-CC
9357153 TTTTTTCC
1 TTTTTTCC
9357161 TTTTTTCC
1 TTTTTTCC
9357169 TTTTT
1 TTTTT
9357174 GCTTCTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCC
Found at i:9359483 original size:24 final size:25
Alignment explanation
Indices: 9359429--9359614 Score: 119
Period size: 25 Copynumber: 7.6 Consensus size: 25
9359419 TTTAGCTCTT
* * * *
9359429 ATGAGCATCCCGTTACATGGCTCTC
1 ATGAGCTTCCCGATATATGGCTCGC
*
9359454 ACGAGCTTCCCGATAT-TGGCTCGC
1 ATGAGCTTCCCGATATATGGCTCGC
* * **
9359478 ATGAGCTTTCCGAT-TACGGCTCTT
1 ATGAGCTTCCCGATATATGGCTCGC
* *
9359502 ATGAGCTTCCCG-TTTATGGCTCGT
1 ATGAGCTTCCCGATATATGGCTCGC
* * *
9359526 TTGAGCTTCCTGATA-ATTGGCTTGC
1 ATGAGCTTCCCGATATA-TGGCTCGC
* * *
9359551 AAGAGCTTCCCGTTATATGGCTCAC
1 ATGAGCTTCCCGATATATGGCTCGC
* ** * * *
9359576 ATGAGTTTCTAGTTACATGGCTCGA
1 ATGAGCTTCCCGATATATGGCTCGC
*
9359601 AAGAGCTTCCCGAT
1 ATGAGCTTCCCGAT
9359615 TACATGCTCA
Statistics
Matches: 120, Mismatches: 36, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
23 2 0.02
24 54 0.45
25 63 0.52
26 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGATATATGGCTCGC
Found at i:9359522 original size:48 final size:50
Alignment explanation
Indices: 9359447--9359584 Score: 126
Period size: 48 Copynumber: 2.8 Consensus size: 50
9359437 CCCGTTACAT
* * *
9359447 GGCTCTCACGAGCTTCCCG-ATATTGGCTCGCATGAGCTTTCC-GATTA-C
1 GGCTCTCAAGAGCTTCCCGTTTA-TGGCTCGCATGAGCTTTCCTGATAATC
* * ** *
9359495 GGCTCTTATGAGCTTCCCGTTTATGGCTCGTTTGAGC-TTCCTGATAATT
1 GGCTCTCAAGAGCTTCCCGTTTATGGCTCGCATGAGCTTTCCTGATAATC
*
9359544 GGCT-TGCAAGAGCTTCCCGTTATATGGCTCACATGAG-TTTC
1 GGCTCT-CAAGAGCTTCCCGTT-TATGGCTCGCATGAGCTTTC
9359585 TAGTTACATG
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
47 4 0.06
48 34 0.47
49 19 0.26
50 15 0.21
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (50 bp):
GGCTCTCAAGAGCTTCCCGTTTATGGCTCGCATGAGCTTTCCTGATAATC
Found at i:9359545 original size:73 final size:73
Alignment explanation
Indices: 9359423--9359558 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 73
9359413 ACGTTATTTA
*
9359423 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCGCATGAGCTTTC
1 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCGCAAGAGCTTTC
9359488 CGATTACG
66 CGATTACG
* * ** * *
9359496 GCTCTTATGAGCTTCCCGTT-TATGGCTCGT-TTGAGCTTCCTGATAATTGGCTTGCAAGAGCTT
1 GCTCTTATGAGCATCCCGTTACATGGCTC-TCACGAGCTTCCCGAT-ATTGGCTCGCAAGAGCTT
9359559 CCCGTTATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 18 0.33
73 36 0.67
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (73 bp):
GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCGCAAGAGCTTTC
CGATTACG
Found at i:9359571 original size:25 final size:25
Alignment explanation
Indices: 9359429--9359572 Score: 84
Period size: 24 Copynumber: 5.9 Consensus size: 25
9359419 TTTAGCTCTT
* * *
9359429 ATGAGCATCCCGTTACATGGCTCT-C
1 ATGAGCTTCCCGATATATGGCT-TGC
* *
9359454 ACGAGCTTCCCGATAT-TGGCTCGC
1 ATGAGCTTCCCGATATATGGCTTGC
* * *
9359478 ATGAGCTTTCCGAT-TACGGCTCT-T
1 ATGAGCTTCCCGATATATGGCT-TGC
* * *
9359502 ATGAGCTTCCCG-TTTATGGCTCGT
1 ATGAGCTTCCCGATATATGGCTTGC
* *
9359526 TTGAGCTTCCTGATA-ATTGGCTTGC
1 ATGAGCTTCCCGATATA-TGGCTTGC
* *
9359551 AAGAGCTTCCCGTTATATGGCT
1 ATGAGCTTCCCGATATATGGCT
9359573 CACATGAGTT
Statistics
Matches: 89, Mismatches: 22, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
23 2 0.02
24 51 0.57
25 35 0.39
26 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGATATATGGCTTGC
Found at i:9362243 original size:11 final size:11
Alignment explanation
Indices: 9362211--9362243 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9362201 TTTTTTTAAT
*
9362211 AATTAAAGTTT
1 AATTAAAGTTA
9362222 AATTAAA-TTA
1 AATTAAAGTTA
9362232 AATTAAAGTTA
1 AATTAAAGTTA
9362243 A
1 A
9362244 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
AATTAAAGTTA
Found at i:9362254 original size:20 final size:21
Alignment explanation
Indices: 9362211--9362258 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
9362201 TTTTTTTAAT
* **
9362211 AATTAAAGTTTAATTAAATTA
1 AATTAAAGTTTAATAAAAGAA
9362232 AATTAAAG-TTAATAAAAGAA
1 AATTAAAGTTTAATAAAAGAA
9362252 AATTAAA
1 AATTAAA
9362259 AAGGTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTAAAGTTTAATAAAAGAA
Found at i:9363517 original size:24 final size:24
Alignment explanation
Indices: 9363481--9363545 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
9363471 CAAGCACACC
*
9363481 TGAATGATTTTGATTAAATATACA
1 TGAATGATCTTGATTAAATATACA
**
9363505 TGAATGATCTTGATTGGATATACA
1 TGAATGATCTTGATTAAATATACA
** *
9363529 CAAATGATCTTTATTAA
1 TGAATGATCTTGATTAA
9363546 TTCTTGATGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (24 bp):
TGAATGATCTTGATTAAATATACA
Found at i:9367935 original size:6 final size:6
Alignment explanation
Indices: 9367924--9367994 Score: 142
Period size: 6 Copynumber: 11.8 Consensus size: 6
9367914 TGAGGGGTGT
9367924 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
9367972 TACATA TACATA TACATA TACAT
1 TACATA TACATA TACATA TACAT
9367995 TATTTTTTGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:9386743 original size:27 final size:28
Alignment explanation
Indices: 9386713--9386809 Score: 114
Period size: 27 Copynumber: 3.6 Consensus size: 28
9386703 CTTATTGGTG
9386713 AATCATGAAAGAAAAGTCTTTGT-A-GCA
1 AATCATGAAAGAAAAGTCTTTGTGACG-A
*
9386740 AATCATGAAAGGAAAA-CCTTTGTGACGA
1 AATCATGAAA-GAAAAGTCTTTGTGACGA
*
9386768 AA-CATGAAAGGAAAGTCTTTGTGACGA
1 AATCATGAAAGAAAAGTCTTTGTGACGA
*
9386795 AA-CATGAAAGGAAAG
1 AATCATGAAAGAAAAG
9386810 AGGAAAGTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.06
27 49 0.78
28 9 0.14
29 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (28 bp):
AATCATGAAAGAAAAGTCTTTGTGACGA
Found at i:9386838 original size:34 final size:34
Alignment explanation
Indices: 9386776--9386843 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
9386766 GAAACATGAA
* *
9386776 AGGAAAGTCTTTGTGACGAAACATGAAAGGAAAG
1 AGGAAAGTCTTTGTGACGAAACACGAAAGAAAAG
* * *
9386810 AGGAAAGTCTTTTTGGCGAAATACGAAAGAAAAG
1 AGGAAAGTCTTTGTGACGAAACACGAAAGAAAAG
9386844 CCTTTGTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (34 bp):
AGGAAAGTCTTTGTGACGAAACACGAAAGAAAAG
Found at i:9391585 original size:86 final size:86
Alignment explanation
Indices: 9391485--9391719 Score: 353
Period size: 86 Copynumber: 2.7 Consensus size: 86
9391475 ATAATGTTCC
* * * *
9391485 AAATGCTTGTTTGTATATAATATTATACAACTCTTATCCTACAAGATGAGGAACATGCTTTTTGG
1 AAATGCTTATTTGTATATAATATCATACAACTCTTATCCTACAAGATGAGCAACATGCTTTTTAG
9391550 GGTTATTTTCGAAATATGACT
66 GGTTATTTTCGAAATATGACT
* * * * *
9391571 AAATGCTTACTTGTATATAATATCGTACAACTCTTATTCTACAATATGAGTAACATGCTTTTTAG
1 AAATGCTTATTTGTATATAATATCATACAACTCTTATCCTACAAGATGAGCAACATGCTTTTTAG
*
9391636 GGTTATTTTTGAAATATGACT
66 GGTTATTTTCGAAATATGACT
* * *
9391657 AAATGCTTATTTGTATATAATATCATACAGCTCTTATCGTACAAGATGAGCAACATGTTTTTT
1 AAATGCTTATTTGTATATAATATCATACAACTCTTATCCTACAAGATGAGCAACATGCTTTTT
9391720 TTGGGGGCTA
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 132 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (86 bp):
AAATGCTTATTTGTATATAATATCATACAACTCTTATCCTACAAGATGAGCAACATGCTTTTTAG
GGTTATTTTCGAAATATGACT
Found at i:9394318 original size:30 final size:30
Alignment explanation
Indices: 9394284--9394345 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
9394274 GTATCATCTC
* * *
9394284 AAATTCGAATCTTGCTGCATGGATCAATTG
1 AAATTCGAATCCTACTGCATGAATCAATTG
* *
9394314 AAATTTGTATCCTACTGCATGAATCAATTG
1 AAATTCGAATCCTACTGCATGAATCAATTG
9394344 AA
1 AA
9394346 GCAAATTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (30 bp):
AAATTCGAATCCTACTGCATGAATCAATTG
Found at i:9400305 original size:19 final size:19
Alignment explanation
Indices: 9400281--9400336 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
9400271 AATCTTCGAG
9400281 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
9400300 GATATATGCAATCTTAGATAT
1 GATATA--CAATCTTAGATAT
**
9400321 GATATGTAATCTTAGA
1 GATATACAATCTTAGA
9400337 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:9400311 original size:21 final size:21
Alignment explanation
Indices: 9400282--9400325 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9400272 ATCTTCGAGG
9400282 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
9400303 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
9400324 AT
1 AT
9400326 GTAATCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:9400343 original size:22 final size:23
Alignment explanation
Indices: 9400294--9400359 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
9400284 ATACAATCTT
*
9400294 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
9400315 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
9400337 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
9400360 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:9400369 original size:22 final size:23
Alignment explanation
Indices: 9400325--9400369 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9400315 AGATATGATA
*
9400325 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
9400348 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
9400370 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:9405922 original size:44 final size:44
Alignment explanation
Indices: 9405868--9406216 Score: 384
Period size: 44 Copynumber: 7.9 Consensus size: 44
9405858 GTGAAAAAGT
* * *
9405868 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* *
9405912 AGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * * *
9405955 AGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
9406000 AGATCTTGTCTTCATGTATTGG-CGTGAAGTTGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* *
9406044 AGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * * *
9406087 AAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
9406132 ATATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * *
9406176 AGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAT
9406217 GTAGATATTA
Statistics
Matches: 254, Mismatches: 44, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
43 46 0.18
44 165 0.65
45 43 0.17
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (44 bp):
AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
Found at i:9406105 original size:132 final size:132
Alignment explanation
Indices: 9405863--9406217 Score: 656
Period size: 132 Copynumber: 2.7 Consensus size: 132
9405853 GATCAGTGAA
*
9405863 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*
9405928 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAAATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGA
9405993 AG
131 AG
*
9405995 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTTGATCGAAGATAGCAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*
9406060 TATTGGTAGGAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAAATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGA
9406125 AG
131 AG
* *
9406127 AAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
9406192 TATTGGTAGGAAGTGGATCGAAGATG
66 TATTGGTAGGAAGTGGATCGAAGATG
9406218 TAGATATTAT
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 216 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAAATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:9406375 original size:132 final size:132
Alignment explanation
Indices: 9406211--9406764 Score: 846
Period size: 132 Copynumber: 4.2 Consensus size: 132
9406201 GAAGTGGATC
* * * * *
9406211 GAAGA-TGTAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGTAAATATTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTT
* * * * * * *
9406275 TCCAAGATAGTGGGAAGTAGATTTAAGTCACCAAGTCTTGTTTCCCTGAGCAGCAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGG
*
9406340 TC
131 TT
9406342 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-GACAAATCTTATCT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGA-AAATCTTATCT
* *
9406406 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGTCTTGTCT--CTGAGCAACAGTGGAGAAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAG
9406469 GTT
130 GTT
9406472 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTT
* * * *
9406537 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCCTGAGTAGCAGCGGAGAACG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGG
9406602 TT
131 TT
* *
9406604 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTT
* * * *
9406669 TCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGG
9406734 TT
131 TT
9406736 GAAGATTGTAGATCTTATCTCCCTAAGCA
1 GAAGATTGTAGATCTTATCTCCCTAAGCA
9406765 ACAGCGGAGT
Statistics
Matches: 389, Mismatches: 29, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
130 121 0.31
131 8 0.02
132 260 0.67
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (132 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGG
TT
Found at i:9406401 original size:44 final size:44
Alignment explanation
Indices: 9406353--9406535 Score: 121
Period size: 44 Copynumber: 4.2 Consensus size: 44
9406343 AAGATTGTAG
9406353 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
* ** *
9406397 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGACAA
* * ** * * ** * * *
9406440 AGTCTTGTCT--CTGAGCAACAGTGGAGAAGGTTGAAGATTG-TAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA-CGACAA
9406483 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGA-AA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-GACAA
9406527 ATCTTATCT
1 ATCTTATCT
9406536 TTCCAAGATA
Statistics
Matches: 102, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
41 1 0.01
42 22 0.22
43 15 0.15
44 61 0.60
45 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
Found at i:9406652 original size:44 final size:44
Alignment explanation
Indices: 9406602--9407218 Score: 192
Period size: 44 Copynumber: 14.0 Consensus size: 44
9406592 GCGGAGAACG
9406602 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * * * * *
9406646 TCGAAGATGGAAAATCTTATCTTTCC-AAG-A-TAATGGGAAGCAGA
1 TTGAAGATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* **** * * * ** * * *
9406690 TTTAA-ACCACCA-AGCCTTGTCTCCCTGAGCAACAGCGGAGTAGG
1 TTGAAGA-TTGTAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** * * *
9406734 TTGAAGATTGTAGATCTTATCTCCCTAAGCAACAGCGGAGTAGG
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
9406778 TTGCAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** * * **
9406822 TTGAAGACGGCAAATCTTATCTTTCTAAG-A-TAGTGAGAAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG-G-AGCAGA
* *** * * * * * * *
9406866 TTTAAGCCA-CCAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
9406910 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** ** * * *
9406954 TCAAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* *** * * * * * * *
9406998 TTTAAGCCA-CCAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
9407042 TTGAAGATTGTAAATCTTATCTCCCTAAGCAGTAATGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** ** * * *
9407086 TCAAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* *** * * * * * * *
9407130 TTTAAGCCA-CAAAG-CCTTGTCTCCTTGAGCAGTAGCGGAGAAGG
1 TTGAAG--ATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
9407174 TTGAAGATTATAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGA
1 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
9407218 T
1 T
9407219 CAAAAACGAA
Statistics
Matches: 402, Mismatches: 133, Indels: 76
0.66 0.22 0.12
Matches are distributed among these distances:
42 18 0.04
43 27 0.07
44 320 0.80
45 25 0.06
46 12 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:9406685 original size:262 final size:263
Alignment explanation
Indices: 9406211--9406764 Score: 862
Period size: 262 Copynumber: 2.1 Consensus size: 263
9406201 GAAGTGGATC
* * *
9406211 GAAGA-TGTAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGTAAATATTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAATATTATCTT
* * * * ** * *
9406275 TCCAAGATAGTGGGAAGTAGATTTAAGTCACCAAGTCTTGTTTCCCTGAGCAGCAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGAACG
9406340 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATC
131 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATC
* * * *
9406405 TTTCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGTCTTGTCT-CTGAGCAACAGTGGAGAAG
196 TTTCCAAGATAATGGGAAGCAGATTTAAACCACAAAGCCTTGTCTCCTGAGCAACAGCGGAGAAG
9406469 GTT
261 GTT
* *
9406472 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAATATTATCTT
*
9406537 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCCTGAGTAGCAGCGGAGAACG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGAACG
* * *
9406602 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGA-AAATCTTAT
131 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA-CGACAAATCTTAT
* *
9406666 CTTTCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGT
195 CTTTCCAAGATAATGGGAAGCAGATTTAAACCACAAAGCCTTGTCT-CCTGAGCAACAGCGGAGA
9406731 AGGTT
259 AGGTT
9406736 GAAGATTGTAGATCTTATCTCCCTAAGCA
1 GAAGATTGTAGATCTTATCTCCCTAAGCA
9406765 ACAGCGGAGT
Statistics
Matches: 266, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
261 5 0.02
262 210 0.79
263 2 0.01
264 49 0.18
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (263 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAATATTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGAACG
TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATC
TTTCCAAGATAATGGGAAGCAGATTTAAACCACAAAGCCTTGTCTCCTGAGCAACAGCGGAGAAG
GTT
Found at i:9406799 original size:176 final size:176
Alignment explanation
Indices: 9406590--9406940 Score: 603
Period size: 176 Copynumber: 2.0 Consensus size: 176
9406580 CCCTGAGTAG
*
9406590 CAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
1 CAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
*
9406655 GAAAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTCCCTGAGC
66 GAAAATCTTATCTTTCCAAGATAATGAGAAGCAGATTTAAACCACCAAGCCTTGTCTCCCTGAGC
9406720 AACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
131 AACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
* * * *
9406766 CAGCGGAGTAGGTTGCAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
1 CAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * *
9406831 GCAAATCTTATCTTTCTAAGATAGTGAGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGC
66 GAAAATCTTATCTTTCCAAGATAATGAGAAGCAGATTTAAACCACCAAGCCTTGTCTCCCTGAGC
*
9406896 AGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
131 AACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
9406941 GTAGTGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 164 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (176 bp):
CAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
GAAAATCTTATCTTTCCAAGATAATGAGAAGCAGATTTAAACCACCAAGCCTTGTCTCCCTGAGC
AACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAA
Found at i:9406889 original size:88 final size:87
Alignment explanation
Indices: 9406621--9406954 Score: 226
Period size: 88 Copynumber: 3.8 Consensus size: 87
9406611 GTAGATCTTA
* * * * *
9406621 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAAAATCTTATCTTTCCAAGATAATGGGAAG
1 TCTCCCTAAGCAGCAGCGGAGCAGATTGAAGATGGAAAATCTTATCTTTCTAAGATAGT-GGAAG
*
9406686 CAGATTTAAACCACCAAGCCTTG
65 CAGATTTAAGCCACCAAGCCTTG
* * * * * * * ** * *
9406709 TCTCCCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAACAGCGG-A
1 TCTCCCTAAGCAGCAGCGGAGCAGATTGAAGATGGAAAATCTTATCTTTCTAAG--ATAGTGGAA
* * ** *** * *
9406773 GTAGGTTGCAG--ATTGTAGATCTTA
64 GCAGATTTAAGCCA-CCAAG-CCTTG
* * * *
9406797 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTATCTTTCTAAGATAGTGAGAAG
1 TCTCCCTAAGCAGCAGCGGAGCAGATTGAAGATGGAAAATCTTATCTTTCTAAGATAGTG-GAAG
9406862 CAGATTTAAGCCACCAAGCCTTG
65 CAGATTTAAGCCACCAAGCCTTG
* * * * * * **
9406885 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG-A
1 TCTCCCTAAGCAGCAGCGGAGCAGATTGAAGATGGAAAATCTTATCTTTCTAAG-A-TAGTGGAA
9406949 GCAGAT
64 GCAGAT
9406955 CAAAGACGGC
Statistics
Matches: 176, Mismatches: 60, Indels: 20
0.69 0.23 0.08
Matches are distributed among these distances:
86 5 0.03
87 3 0.02
88 154 0.88
89 6 0.03
90 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (87 bp):
TCTCCCTAAGCAGCAGCGGAGCAGATTGAAGATGGAAAATCTTATCTTTCTAAGATAGTGGAAGC
AGATTTAAGCCACCAAGCCTTG
Found at i:9406889 original size:132 final size:132
Alignment explanation
Indices: 9406753--9407289 Score: 885
Period size: 132 Copynumber: 4.1 Consensus size: 132
9406743 GTAGATCTTA
* * *
9406753 TCTCCCTAAGCAACAGCGGAGTAGGTTGCAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
** * *
9406818 CAGATTGAAGACGGCAAATCTTATCTTTCTAAGATAGTGAGAAGCAGATTTAAGCCACCAAGCCT
66 CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
9406883 TG
131 TG
9406885 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
9406950 CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
66 CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
9407015 TG
131 TG
* *
9407017 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTAAGCAGTAATGGAG
1 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
9407082 CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCT
66 CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
9407147 TG
131 TG
* * * * *
9407149 TCTCCTTGAGCAGTAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCCAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
* ** **
9407214 CAGATCAAAAACGAAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAATCT
66 CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
*
9407279 TA
131 TG
9407281 TCTCCCTGA
1 TCTCCCTGA
9407290 AGTTGCAGAG
Statistics
Matches: 380, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 380 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
TCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCT
TG
Found at i:9407011 original size:308 final size:308
Alignment explanation
Indices: 9406453--9407072 Score: 1060
Period size: 308 Copynumber: 2.0 Consensus size: 308
9406443 CTTGTCTCTG
*
9406453 AGCAACAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
1 AGCAACAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
*
9406518 AGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCC
66 AGACGGAAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCC
*
9406583 TGAGTAGCAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
131 TGAGCAGCAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
9406648 GAAGATGGAAAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTC
196 AAAGACGGAAAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTC
*
9406713 CCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
261 CCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTA
* * **
9406761 AGCAACAGCGGAGTAGGTTGCAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGA
1 AGCAACAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
* * * *
9406826 AGACGGCAAATCTTATCTTTCTAAGATAGTGAGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCC
66 AGACGGAAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCC
* *
9406891 TGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
131 TGAGCAGCAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
9406956 AAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTC
196 AAAGACGGAAAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTC
*
9407021 CCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTA
261 CCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTA
9407069 AGCA
1 AGCA
9407073 GTAATGGAGC
Statistics
Matches: 292, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
308 292 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (308 bp):
AGCAACAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
AGACGGAAAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACAAAGCCTTGCCTCCC
TGAGCAGCAGCGGAGAACGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
AAAGACGGAAAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAACCACCAAGCCTTGTCTC
CCTGAGCAACAGCGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTA
Found at i:9407808 original size:19 final size:19
Alignment explanation
Indices: 9407784--9407881 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
9407774 AATCTTCGAG
9407784 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
9407803 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
9407822 GATATATGCAATCTTAGATAT
1 G--ATATGTAATCTTAGATAT
9407843 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
9407865 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
9407882 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
19 30 0.43
20 3 0.04
21 19 0.27
22 8 0.11
23 10 0.14
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:9407830 original size:21 final size:21
Alignment explanation
Indices: 9407785--9407847 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
9407775 ATCTTCGAGG
*
9407785 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
9407804 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
9407825 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
9407846 AT
1 AT
9407848 GTAATCTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 18 0.44
21 23 0.56
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:9407891 original size:22 final size:23
Alignment explanation
Indices: 9407847--9407891 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9407837 AGATATGATA
*
9407847 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
9407870 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
9407892 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:9410597 original size:3 final size:3
Alignment explanation
Indices: 9410591--9410635 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
9410581 AAGTGAAAAT
9410591 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9410636 GAAGAAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9411891 original size:14 final size:14
Alignment explanation
Indices: 9411872--9411905 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9411862 TTGTTTCACT
9411872 GAAAATAATTT-TCG
1 GAAAATAATTTCT-G
9411886 GAAAATAATTTCTG
1 GAAAATAATTTCTG
9411900 GAAAAT
1 GAAAAT
9411906 GACTTACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (14 bp):
GAAAATAATTTCTG
Found at i:9413994 original size:9 final size:9
Alignment explanation
Indices: 9413953--9414001 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
9413943 TTTGGTTAAA
9413953 AATTAACCG
1 AATTAACCG
9413962 AATT-ACCTG
1 AATTAACC-G
**
9413971 AATTGCCCG
1 AATTAACCG
9413980 AATTAACCG
1 AATTAACCG
*
9413989 AATTAACCA
1 AATTAACCG
9413998 AATT
1 AATT
9414002 GAATCACTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 3 0.09
9 29 0.85
10 2 0.06
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:9414628 original size:19 final size:19
Alignment explanation
Indices: 9414606--9414712 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
9414596 TTTAAAAATT
*
9414606 TAAAAATAATAAAATTTAA
1 TAAAAATTATAAAATTTAA
*
9414625 TAAAAA-TATAAAATTTAT
1 TAAAAATTATAAAATTTAA
** *
9414643 TAAAAATTATAATTTTTTA
1 TAAAAATTATAAAATTTAA
* *
9414662 TAAAAATTGTAAAA--AAA
1 TAAAAATTATAAAATTTAA
* *
9414679 TAAAAAATTGTAAAATTTTA
1 T-AAAAATTATAAAATTTAA
*
9414699 TAAAAATCATAAAA
1 TAAAAATTATAAAA
9414713 AATTAACAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.03
18 29 0.42
19 36 0.52
20 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAAATTATAAAATTTAA
Found at i:9414646 original size:37 final size:36
Alignment explanation
Indices: 9414590--9414718 Score: 116
Period size: 37 Copynumber: 3.5 Consensus size: 36
9414580 AATTAGAAAA
* * * * *
9414590 AAAAATTTTAAAAATTTAAAAATAATAAAATTTAAT
1 AAAAATATAAAAAAATTAAAAATTATAAAATTTTAT
** **
9414626 AAAAATATAAAATTTATTAAAAATTATAATTTTTTAT
1 AAAAATATAAAA-AAATTAAAAATTATAAAATTTTAT
* * *
9414663 AAAAATTGTAAAAAAATAAAAAATTGTAAAATTTTAT
1 AAAAA-TATAAAAAAATTAAAAATTATAAAATTTTAT
9414700 AAAAATCAT-AAAAAATTAA
1 AAAAAT-ATAAAAAAATTAA
9414719 CAACCCCTAG
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
36 20 0.28
37 46 0.64
38 6 0.08
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (36 bp):
AAAAATATAAAAAAATTAAAAATTATAAAATTTTAT
Found at i:9414931 original size:10 final size:10
Alignment explanation
Indices: 9414916--9414943 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9414906 TTTTCTTATG
9414916 ATTTTATAAA
1 ATTTTATAAA
9414926 ATTTTATAAA
1 ATTTTATAAA
9414936 ATTTTATA
1 ATTTTATA
9414944 TTTCTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTATAAA
Found at i:9414979 original size:56 final size:57
Alignment explanation
Indices: 9414857--9414985 Score: 156
Period size: 56 Copynumber: 2.2 Consensus size: 57
9414847 GTACGATAAT
* * *
9414857 TTTTATAAAATAAATTTATGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTATGA
1 TTTTATAAAAT---TTTATAAAATTTATATTTCTATACATTTTGTATAATTTTCTCATGA
*
9414917 TTTTATAAAATTTTATAAAATTTTATATTTCTATATA-TTT-TATAATTTT-TCATGA
1 TTTTATAAAATTTTATAAAA-TTTATATTTCTATACATTTTGTATAATTTTCTCATGA
9414972 TTGTTATAAAATTT
1 TT-TTATAAAATTT
9414986 CACAATTTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
55 7 0.11
56 20 0.32
57 11 0.17
58 14 0.22
60 11 0.17
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (57 bp):
TTTTATAAAATTTTATAAAATTTATATTTCTATACATTTTGTATAATTTTCTCATGA
Found at i:9415543 original size:21 final size:21
Alignment explanation
Indices: 9415519--9415561 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9415509 GTCTAATAAA
9415519 ATATTGAAAATATATA-ATTTT
1 ATATT-AAAATATATATATTTT
* *
9415540 ATATTAATATTTATATATTTT
1 ATATTAAAATATATATATTTT
9415561 A
1 A
9415562 ATAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATTAAAATATATATATTTT
Found at i:9422837 original size:324 final size:324
Alignment explanation
Indices: 9422248--9422881 Score: 1241
Period size: 324 Copynumber: 2.0 Consensus size: 324
9422238 GATTTGAATA
9422248 TGAAATGTAATAAATTGATGATTAAATTCATTTATATAGATTCGAAAAGACCAAATAAGAAGTTA
1 TGAAATGTAATAAATTGATGATTAAATTCATTTATATAGATTCGAAAAGACCAAATAAGAAGTTA
9422313 GATCGAGGAAAAGAAAAAGTGTCAGATTAGTAGATTTTCATACACGAGCAAGTGTTGAGGTAAGT
66 GATCGAGGAAAAGAAAAAGTGTCAGATTAGTAGATTTTCATACACGAGCAAGTGTTGAGGTAAGT
*
9422378 TTGTGTAACTAAATTGAGAATTTATGTGTTAATTGAATTGTATGCATGTATTTTTATTATTGACA
131 TTGTGTAACTAAATTGAGAATTTATGTGTTAATTGAATTGTATGCATGTATTTGTATTATTGACA
9422443 TGTATATAAAATTGACTGAATATCCGATAATGTCCAACAAGTATAAAATCTCGTATGAATGAACG
196 TGTATATAAAATTGACTGAATATCCGATAATGTCCAACAAGTATAAAATCTCGTATGAATGAACG
9422508 AAATTCAATAGATACAGAATTTCCCGTATTGGTTATGGTCTTGCATATGTGAGTTGGGTTGATT
261 AAATTCAATAGATACAGAATTTCCCGTATTGGTTATGGTCTTGCATATGTGAGTTGGGTTGATT
*
9422572 TGAAATGTAATAAATTGATGATTAAATTCATTTATATAGATTCGAAAAGACCAAATAAGGAGTTA
1 TGAAATGTAATAAATTGATGATTAAATTCATTTATATAGATTCGAAAAGACCAAATAAGAAGTTA
9422637 GATCGAGGAAAAGAAAAAGTGTCAGATTAGTAGATTTTCATACACGAGCAAGTGTTGAGGTAAGT
66 GATCGAGGAAAAGAAAAAGTGTCAGATTAGTAGATTTTCATACACGAGCAAGTGTTGAGGTAAGT
9422702 TTGTGTAACTAAATTGAGAATTTATGTGTTAATTGAATTGTATGCATGTATTTGTATTATTGACA
131 TTGTGTAACTAAATTGAGAATTTATGTGTTAATTGAATTGTATGCATGTATTTGTATTATTGACA
9422767 TGTATATAAAATTGACTGAATATCCGATAATGTCCAACAAGTATAAAATCTCGTATGAATGAACG
196 TGTATATAAAATTGACTGAATATCCGATAATGTCCAACAAGTATAAAATCTCGTATGAATGAACG
*
9422832 AAATTCAATAGATACAGAATTTCTCGTATTGGTTATGGTCTTGCATATGT
261 AAATTCAATAGATACAGAATTTCCCGTATTGGTTATGGTCTTGCATATGT
9422882 TGCAGAAACA
Statistics
Matches: 307, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
324 307 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.34
Consensus pattern (324 bp):
TGAAATGTAATAAATTGATGATTAAATTCATTTATATAGATTCGAAAAGACCAAATAAGAAGTTA
GATCGAGGAAAAGAAAAAGTGTCAGATTAGTAGATTTTCATACACGAGCAAGTGTTGAGGTAAGT
TTGTGTAACTAAATTGAGAATTTATGTGTTAATTGAATTGTATGCATGTATTTGTATTATTGACA
TGTATATAAAATTGACTGAATATCCGATAATGTCCAACAAGTATAAAATCTCGTATGAATGAACG
AAATTCAATAGATACAGAATTTCCCGTATTGGTTATGGTCTTGCATATGTGAGTTGGGTTGATT
Found at i:9423062 original size:25 final size:26
Alignment explanation
Indices: 9423032--9423091 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
9423022 TTAGCTCTTA
9423032 TGAGCTTCTCGATT-A-TGGCTCTTTG
1 TGAGCTTC-CGATTAATTGGCTCTTTG
*
9423057 TGAGCTTCCTATTAATTGGCTCTTTG
1 TGAGCTTCCGATTAATTGGCTCTTTG
9423083 TGAGCTTCC
1 TGAGCTTCC
9423092 CGATATGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 4 0.12
25 9 0.28
26 19 0.59
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (26 bp):
TGAGCTTCCGATTAATTGGCTCTTTG
Found at i:9423149 original size:24 final size:24
Alignment explanation
Indices: 9423121--9423169 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9423111 TTCCTGATAT
* *
9423121 ATGGCTATCCAGAGCTTCCCGTTA
1 ATGGCCATCCAGAGCTACCCGTTA
* *
9423145 ATGGCCCTTCAGAGCTACCCGTTA
1 ATGGCCATCCAGAGCTACCCGTTA
9423169 A
1 A
9423170 AGGCATGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (24 bp):
ATGGCCATCCAGAGCTACCCGTTA
Found at i:9429575 original size:20 final size:22
Alignment explanation
Indices: 9429537--9429585 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
9429527 AATTAGGTTT
9429537 ATTT-AAAATAAAAACATTA-A
1 ATTTAAAAATAAAAACATTATA
*
9429557 ATTTAAAAATAGAAA-ATTATA
1 ATTTAAAAATAAAAACATTATA
9429578 ATATTAAA
1 AT-TTAAA
9429586 TATCTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTTAAAAATAAAAACATTATA
Done.