Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold74
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: 4633657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 18 of 24
Found at i:3553216 original size:14 final size:14
Alignment explanation
Indices: 3553186--3553237 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
3553176 AGATTTAAGA
*
3553186 TTTAGAA-TTAAGG
1 TTTAGAATTTAAAG
* *
3553199 TTTAGATTTTAAAT
1 TTTAGAATTTAAAG
*
3553213 TTTAAAATTTAAAG
1 TTTAGAATTTAAAG
3553227 TTTAGAATTTA
1 TTTAGAATTTA
3553238 GAGTAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 6 0.19
14 25 0.81
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (14 bp):
TTTAGAATTTAAAG
Found at i:3553671 original size:11 final size:11
Alignment explanation
Indices: 3553655--3553685 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3553645 ATTAAATAGG
3553655 ATAATATAAAT
1 ATAATATAAAT
3553666 ATAATATAAAT
1 ATAATATAAAT
3553677 ATAAT-TAAA
1 ATAATATAAA
3553686 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:3553679 original size:17 final size:17
Alignment explanation
Indices: 3553657--3553695 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3553647 TAAATAGGAT
* *
3553657 AATATAAATATAATATA
1 AATATAAATAAAAAATA
*
3553674 AATATAATTAAAAAATA
1 AATATAAATAAAAAATA
3553691 AATAT
1 AATAT
3553696 TTTAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAAATAAAAAATA
Found at i:3553756 original size:20 final size:19
Alignment explanation
Indices: 3553713--3553758 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
3553703 TTTTTAGAAT
*
3553713 ATAATTTATTAATATATCA
1 ATAATTTATTAATATATAA
3553732 A-AATTTATATAA-ATATAAA
1 ATAATTTAT-TAATATAT-AA
3553751 ATAATTTA
1 ATAATTTA
3553759 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 11 0.48
19 6 0.26
20 6 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATTTATTAATATATAA
Found at i:3554390 original size:16 final size:17
Alignment explanation
Indices: 3554358--3554392 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3554348 GTGAATGTTA
3554358 AATATGAATATATATTT
1 AATATGAATATATATTT
3554375 AATATGAATA-ATATTT
1 AATATGAATATATATTT
3554391 AA
1 AA
3554393 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AATATGAATATATATTT
Found at i:3555618 original size:2 final size:2
Alignment explanation
Indices: 3555611--3555635 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3555601 GAAACTTCCC
3555611 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3555636 TGAAAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3559445 original size:18 final size:20
Alignment explanation
Indices: 3559414--3559450 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
3559404 ATAATTTTTT
*
3559414 AAAAATTATCTAAATAAATA
1 AAAAATTATCTAAAAAAATA
3559434 AAAAATT-T-TAAAAAAAT
1 AAAAATTATCTAAAAAAAT
3559451 TTAAATATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATTATCTAAAAAAATA
Found at i:3560072 original size:17 final size:17
Alignment explanation
Indices: 3560047--3560079 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3560037 TCTTTATTAC
3560047 CCCAAATTCATATCCGT
1 CCCAAATTCATATCCGT
*
3560064 CCCATATTCATATCCG
1 CCCAAATTCATATCCG
3560080 AAGCATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.36, G:0.06, T:0.30
Consensus pattern (17 bp):
CCCAAATTCATATCCGT
Found at i:3562841 original size:23 final size:23
Alignment explanation
Indices: 3562811--3562859 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
3562801 AAATTATAAT
3562811 TTTATTATCAA-TAAATTAAGTTA
1 TTTATTAT-AATTAAATTAAGTTA
**
3562834 TTTATTATAATTTTATTAAGTTA
1 TTTATTATAATTAAATTAAGTTA
3562857 TTT
1 TTT
3562860 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTATTATAATTAAATTAAGTTA
Found at i:3564279 original size:14 final size:14
Alignment explanation
Indices: 3564224--3564287 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
3564214 AAACATTTAG
* *
3564224 AATATAAAATTTGT
1 AATATAAAATATAT
* * *
3564238 AATTTCAAATATAA
1 AATATAAAATATAT
*
3564252 AATAATTAAA-ATAT
1 AAT-ATAAAATATAT
3564266 AATATAAAATATAT
1 AATATAAAATATAT
3564280 AATATAAA
1 AATATAAA
3564288 TTTAAAAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 5 0.13
14 30 0.77
15 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
AATATAAAATATAT
Found at i:3564298 original size:19 final size:19
Alignment explanation
Indices: 3564245--3564286 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
3564235 TGTAATTTCA
*
3564245 AATATAAAATAATTAAAATAT
1 AATATAAAAT-A-TATAATAT
3564266 AATATAAAATATATAATAT
1 AATATAAAATATATAATAT
3564285 AA
1 AA
3564287 ATTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAAAATATATAATAT
Found at i:3571067 original size:17 final size:18
Alignment explanation
Indices: 3571027--3571068 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
3571017 AAATTACTAA
3571027 TATTTTTAATTTATTATT
1 TATTTTTAATTTATTATT
3571045 TA-TTTTAATTT-TT-TT
1 TATTTTTAATTTATTATT
3571060 CTATTTTTA
1 -TATTTTTA
3571069 TAAATATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 4 0.18
17 14 0.64
18 2 0.09
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTAATTTATTATT
Found at i:3573826 original size:221 final size:221
Alignment explanation
Indices: 3573443--3573882 Score: 880
Period size: 221 Copynumber: 2.0 Consensus size: 221
3573433 AGTTTTAGAG
3573443 AATCATAATGTGTTACCACCTGGTTGGTTCAACTTACGTTAAATCTAACTTTGTTTTGAATGGAA
1 AATCATAATGTGTTACCACCTGGTTGGTTCAACTTACGTTAAATCTAACTTTGTTTTGAATGGAA
3573508 TGGTGTTTATTATTGAATTATTGAGAGAATTAGCCTGATTGTCAACTTGATTTATAGTTCTAGTA
66 TGGTGTTTATTATTGAATTATTGAGAGAATTAGCCTGATTGTCAACTTGATTTATAGTTCTAGTA
3573573 ATAGAATTGAACTTGAACCACCCGTGTTGCATATTTATTTATGAATTAGTTGTAAGCAGCATCAG
131 ATAGAATTGAACTTGAACCACCCGTGTTGCATATTTATTTATGAATTAGTTGTAAGCAGCATCAG
3573638 GTTATATGTTATGATATTGCAGTTGT
196 GTTATATGTTATGATATTGCAGTTGT
3573664 AATCATAATGTGTTACCACCTGGTTGGTTCAACTTACGTTAAATCTAACTTTGTTTTGAATGGAA
1 AATCATAATGTGTTACCACCTGGTTGGTTCAACTTACGTTAAATCTAACTTTGTTTTGAATGGAA
3573729 TGGTGTTTATTATTGAATTATTGAGAGAATTAGCCTGATTGTCAACTTGATTTATAGTTCTAGTA
66 TGGTGTTTATTATTGAATTATTGAGAGAATTAGCCTGATTGTCAACTTGATTTATAGTTCTAGTA
3573794 ATAGAATTGAACTTGAACCACCCGTGTTGCATATTTATTTATGAATTAGTTGTAAGCAGCATCAG
131 ATAGAATTGAACTTGAACCACCCGTGTTGCATATTTATTTATGAATTAGTTGTAAGCAGCATCAG
3573859 GTTATATGTTATGATATTGCAGTT
196 GTTATATGTTATGATATTGCAGTT
3573883 TTAAGAACAT
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 219 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (221 bp):
AATCATAATGTGTTACCACCTGGTTGGTTCAACTTACGTTAAATCTAACTTTGTTTTGAATGGAA
TGGTGTTTATTATTGAATTATTGAGAGAATTAGCCTGATTGTCAACTTGATTTATAGTTCTAGTA
ATAGAATTGAACTTGAACCACCCGTGTTGCATATTTATTTATGAATTAGTTGTAAGCAGCATCAG
GTTATATGTTATGATATTGCAGTTGT
Found at i:3574998 original size:94 final size:94
Alignment explanation
Indices: 3574828--3575002 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 94
3574818 AAAGAAGTAG
* * *
3574828 TAAGCAGGTTAAACTATCTAGACTTAACTAGTTTTGTTTCCAATTCATATTGAAATTGGTTTTTT
1 TAAGCAGGTTAAACTATCTAGACTTAACAAGCTTTATTTCCAATTCATATTGAAATTGGTTTTTT
3574893 CATACGATACTATTTTTTTCAAACCCTAA
66 CATACGATACTATTTTTTTCAAACCCTAA
* *
3574922 TAAGCAGGTTAAACTATCTAGACTTAACAAGCTTTATTTCCAATTCTTGTTGAAATTGGTTTTTT
1 TAAGCAGGTTAAACTATCTAGACTTAACAAGCTTTATTTCCAATTCATATTGAAATTGGTTTTTT
* * *
3574987 CTTATGGTACTATTTT
66 CATACGATACTATTTT
3575003 ATGTGAACCC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (94 bp):
TAAGCAGGTTAAACTATCTAGACTTAACAAGCTTTATTTCCAATTCATATTGAAATTGGTTTTTT
CATACGATACTATTTTTTTCAAACCCTAA
Found at i:3581485 original size:129 final size:122
Alignment explanation
Indices: 3581250--3581502 Score: 341
Period size: 129 Copynumber: 2.0 Consensus size: 122
3581240 GTGAAGGTGT
* * * *
3581250 AAGTTGTTAGTTTTCATGCTTTGTTTGGTTAGGTTGTTGGTAAATTGCATCGGATGTCGAGATGT
1 AAGTTATTAGTTTTCATGCTTTGTTTGGTTAGGTTATTGGTAAATTGCATCAGATGTCGAGATCT
*
3581315 ATGACTTAATTTTCTATATACAAACAAAATTAATATTAGAAG-GTTATGAGCCCGACA
66 ATGACTTAATTTACTATATACAAACAAAATTAATATTAGAAGAG-TATGAGCCCGACA
3581372 AAGTTATTAGCTTTT-ATGC-TTGCTTTGGTTAGGTTATTGGTAAATTGCATCAGATGTGGAGAA
1 AAGTTATTAG-TTTTCATGCTTTG-TTTGGTTAGGTTATTGGTAAATTGCATCAGATGT------
*
3581435 CGGAGATCTATGACTTAGTTTACTATATACAAACAAAATTAATATTAGAAGAGTATGAGCCCGAC
58 C-GAGATCTATGACTTAATTTACTATATACAAACAAAATTAATATTAGAAGAGTATGAGCCCGAC
3581500 A
122 A
3581501 AA
1 AA
3581503 TTTTCCAGAA
Statistics
Matches: 115, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
121 3 0.03
122 45 0.39
123 4 0.03
128 1 0.01
129 61 0.53
130 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (122 bp):
AAGTTATTAGTTTTCATGCTTTGTTTGGTTAGGTTATTGGTAAATTGCATCAGATGTCGAGATCT
ATGACTTAATTTACTATATACAAACAAAATTAATATTAGAAGAGTATGAGCCCGACA
Found at i:3587155 original size:2 final size:2
Alignment explanation
Indices: 3587148--3587177 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3587138 TCTTTAGTGT
3587148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3587178 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3587182 original size:2 final size:2
Alignment explanation
Indices: 3587177--3587227 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3587167 ATATATATAT
3587177 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3587219 AG AG AG AG A
1 AG AG AG AG A
3587228 CCTGACTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3595395 original size:2 final size:2
Alignment explanation
Indices: 3595388--3595416 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3595378 AATATGATTT
3595388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3595417 TAATGGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3596181 original size:25 final size:27
Alignment explanation
Indices: 3596140--3596197 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 27
3596130 CAAGCTTTTA
3596140 ATAATTTTAGATAT-AAAATAAT-T-AT
1 ATAA-TTTAGATATAAAAATAATATGAT
3596165 ATAATTTAGATATTAAAAATAATATGAT
1 ATAATTTAGATA-TAAAAATAATATGAT
3596193 ATAAT
1 ATAAT
3596198 ATGAAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.28
25 5 0.17
26 8 0.28
27 1 0.03
28 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (27 bp):
ATAATTTAGATATAAAAATAATATGAT
Found at i:3596244 original size:28 final size:27
Alignment explanation
Indices: 3596204--3596281 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 27
3596194 TAATATGAAG
* * *
3596204 TAAATAATATAAAAATTATGT-ACATATA
1 TAAATATTTTAAAAATTATATAAC-T-TA
* *
3596232 TAAATATTTTAAAATTTATATAACTTT
1 TAAATATTTTAAAAATTATATAACTTA
3596259 TAAATAATTTTAAAAA-TATATAA
1 TAAAT-ATTTTAAAAATTATATAA
3596282 ATTCAAAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
27 13 0.31
28 27 0.64
29 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (27 bp):
TAAATATTTTAAAAATTATATAACTTA
Found at i:3598155 original size:10 final size:10
Alignment explanation
Indices: 3598140--3598169 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3598130 AAAGTGAGTA
3598140 AGAAAGAGAG
1 AGAAAGAGAG
3598150 AGAAAGAGAG
1 AGAAAGAGAG
*
3598160 AGAGAGAGAG
1 AGAAAGAGAG
3598170 GTCTTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (10 bp):
AGAAAGAGAG
Found at i:3602007 original size:2 final size:2
Alignment explanation
Indices: 3602002--3602028 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3601992 TAAACATATA
3602002 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
3602029 ATAAATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3607390 original size:22 final size:22
Alignment explanation
Indices: 3607365--3607439 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
3607355 ATAAATTACG
3607365 ATAATTTTATTTCATTAAAAAT
1 ATAATTTTATTTCATTAAAAAT
**
3607387 ATAATCATATATT-ATTAATAAAT
1 ATAATTTTAT-TTCATTAA-AAAT
*
3607410 CACGTGATTTTATTTCATTAAAAAT
1 -A--TAATTTTATTTCATTAAAAAT
3607435 ATAAT
1 ATAAT
3607440 CATATATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
22 16 0.39
23 6 0.15
24 2 0.05
25 6 0.15
26 11 0.27
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (22 bp):
ATAATTTTATTTCATTAAAAAT
Found at i:3607399 original size:24 final size:24
Alignment explanation
Indices: 3607372--3607448 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
3607362 ACGATAATTT
3607372 TATTTCATTAAAAATATAATCATA
1 TATTTCATTAAAAATATAATCATA
* *
3607396 TA-TT-ATTAATAAATCACGTGAT--TT
1 TATTTCATTAA-AAAT-A--TAATCATA
3607420 TATTTCATTAAAAATATAATCATA
1 TATTTCATTAAAAATATAATCATA
3607444 TATTT
1 TATTT
3607449 TTAATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
22 8 0.20
23 6 0.15
24 13 0.32
25 6 0.15
26 8 0.20
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (24 bp):
TATTTCATTAAAAATATAATCATA
Found at i:3607432 original size:48 final size:49
Alignment explanation
Indices: 3607344--3607456 Score: 192
Period size: 48 Copynumber: 2.3 Consensus size: 49
3607334 ATTTATATAT
*
3607344 ATATATTATTAATAAATTACGATAATTTTATTTCATTAAAAATATAATC
1 ATATATTATTAATAAATCACGATAATTTTATTTCATTAAAAATATAATC
*
3607393 ATATATTATTAATAAATCACG-TGATTTTATTTCATTAAAAATATAATC
1 ATATATTATTAATAAATCACGATAATTTTATTTCATTAAAAATATAATC
*
3607441 ATATATTTTTAATAAA
1 ATATATTATTAATAAA
3607457 ATAATATTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
48 41 0.67
49 20 0.33
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (49 bp):
ATATATTATTAATAAATCACGATAATTTTATTTCATTAAAAATATAATC
Found at i:3607452 original size:22 final size:22
Alignment explanation
Indices: 3607427--3607468 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3607417 TTTTATTTCA
3607427 TTAA-AAATATAATCATATATTT
1 TTAATAAATATAAT-ATATATTT
3607449 TTAATAAA-ATAATAT-TATTT
1 TTAATAAATATAATATATATTT
3607469 AATTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 9 0.47
23 3 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATAAATATAATATATATTT
Found at i:3607478 original size:48 final size:49
Alignment explanation
Indices: 3607344--3607488 Score: 170
Period size: 48 Copynumber: 3.0 Consensus size: 49
3607334 ATTTATATAT
*
3607344 ATATATTATTAAT-AAATTACGATAATTTTATTTCATTAAAAATATAATC
1 ATATATTATTAATAAAATAAC-ATAATTTTATTTCATTAAAAATATAATC
* * *
3607393 ATATATTATTAAT-AAATCACGTGATTTTATTTCATTAAAAATATAATC
1 ATATATTATTAATAAAATAACATAATTTTATTTCATTAAAAATATAATC
* * * *
3607441 ATATATTTTTAATAAAATAATATTATTTAATTT-ATTAATAAAATATAA
1 ATATATTATTAATAAAATAACATAATTTTATTTCATT-A-AAAATATAA
3607489 AAATATATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
48 41 0.49
49 34 0.40
50 9 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (49 bp):
ATATATTATTAATAAAATAACATAATTTTATTTCATTAAAAATATAATC
Found at i:3607724 original size:2 final size:2
Alignment explanation
Indices: 3607711--3607762 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
3607701 CGTAGCTTCA
* * *
3607711 AT AT AC AT AT AT AT TT AT AT AT AT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3607753 AT AT AT AT AT
1 AT AT AT AT AT
3607763 CATTCACATG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3610725 original size:18 final size:18
Alignment explanation
Indices: 3610704--3610738 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3610694 TATTAAATAA
*
3610704 TTAAATATAATAAAATTT
1 TTAAATATAAAAAAATTT
3610722 TTAAATATAAAAAAATT
1 TTAAATATAAAAAAATT
3610739 ATAATTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATATAAAAAAATTT
Found at i:3610842 original size:17 final size:16
Alignment explanation
Indices: 3610772--3610842 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
3610762 ATTTTAGCTC
*
3610772 ATAAATTAATATGATAT
1 ATAATTTAATATGA-AT
*
3610789 ATTTATTTAATATGTAAT
1 A-TAATTTAATATG-AAT
* *
3610807 ATGATTTAATACG-AT
1 ATAATTTAATATGAAT
3610822 ATAATTTATATATGAAT
1 ATAATTTA-ATATGAAT
3610839 ATAA
1 ATAA
3610843 ATATATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 9 0.20
16 4 0.09
17 17 0.39
18 13 0.30
19 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (16 bp):
ATAATTTAATATGAAT
Found at i:3611411 original size:23 final size:21
Alignment explanation
Indices: 3611385--3611437 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
3611375 GTTTATGAAT
*
3611385 ATTATAAATTTATGAAAAATTAA
1 ATTATAAATTT-T-AAAAAATAA
*
3611408 ATTATGTAATTTTAAAAAATAA
1 ATTAT-AAATTTTAAAAAATAA
*
3611430 AATATAAA
1 ATTATAAA
3611438 ATATAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 6 0.24
24 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
ATTATAAATTTTAAAAAATAA
Found at i:3612025 original size:24 final size:26
Alignment explanation
Indices: 3611998--3612049 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
3611988 TTGATAATTT
3611998 ATTATATAAATA-TAA-T-ATAAAAAA
1 ATTATA-AAATATTAATTAATAAAAAA
3612022 A-T-TAAAATATTAATTAATAAAAAA
1 ATTATAAAATATTAATTAATAAAAAA
3612046 ATTA
1 ATTA
3612050 GTTTTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 2 0.09
24 10 0.43
25 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTATAAAATATTAATTAATAAAAAA
Found at i:3612112 original size:24 final size:26
Alignment explanation
Indices: 3612012--3612112 Score: 74
Period size: 24 Copynumber: 4.2 Consensus size: 26
3612002 TATAAATATA
3612012 ATATAAAAAAATTAAAATA-TTAATT
1 ATATAAAAAAATTAAAATATTTAATT
* *
3612037 A-ATAAAAAAATT--AGT-TTTGATT
1 ATATAAAAAAATTAAAATATTTAATT
* * * *
3612059 ATAT-TAATAGTAAAAATATTTAATT
1 ATATAAAAAAATTAAAATATTTAATT
* *
3612084 TTATAAATAAATTAAAAT-TTT-ATT
1 ATATAAAAAAATTAAAATATTTAATT
3612108 ATATA
1 ATATA
3612113 TTTTATTTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 13
0.66 0.18 0.16
Matches are distributed among these distances:
22 12 0.22
23 2 0.04
24 20 0.36
25 13 0.24
26 8 0.15
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
ATATAAAAAAATTAAAATATTTAATT
Found at i:3612252 original size:23 final size:24
Alignment explanation
Indices: 3612222--3612275 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
3612212 TAAACAAATT
3612222 ATAAATTTTACTA-TTTTATT-TAA
1 ATAAATTTTA-TATTTTTATTATAA
3612245 ATAAATTTTTATATTTTTATTATAA
1 ATAAA-TTTTATATTTTTATTATAA
*
3612270 TTAAAT
1 ATAAAT
3612276 AATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.26
24 13 0.48
25 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATAAATTTTATATTTTTATTATAA
Found at i:3612320 original size:29 final size:29
Alignment explanation
Indices: 3612234--3612404 Score: 136
Period size: 29 Copynumber: 5.9 Consensus size: 29
3612224 AAATTTTACT
*
3612234 ATTT-TATTTAAATAAATTTTTATATTT-
1 ATTTATATTTAAATAAATTTTAATATTTA
* * * *
3612261 TTATTATAATTAAATAATTTTTTAAT-TTTT
1 AT-TTATATTTAAATAA-ATTTTAATATTTA
3612291 ATTTATATTTAAATAAAATTTTAATATTTA
1 ATTTATATTTAAAT-AAATTTTAATATTTA
* * * *
3612321 ATTCATATTAAAATTAATTTTAACATTTA
1 ATTTATATTTAAATAAATTTTAATATTTA
* * * *
3612350 ATTTATACTCAAATTAACTTTAACT-TTTA
1 ATTTATATTTAAATAAATTTTAA-TATTTA
*
3612379 ATTT-TATTAAAATAAATTTTTAATAT
1 ATTTATATTTAAATAAA-TTTTAATAT
3612405 AAATCAAAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.01
28 12 0.11
29 77 0.68
30 24 0.21
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTTATATTTAAATAAATTTTAATATTTA
Found at i:3612417 original size:18 final size:16
Alignment explanation
Indices: 3612378--3612426 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3612368 TTTAACTTTT
*
3612378 AATTTTATTAAAATAA
1 AATTTTAATAAAATAA
*
3612394 ATTTTTAATATAAATCAA
1 AATTTTAATA-AAAT-AA
3612412 AATTTT-ATAAAATAA
1 AATTTTAATAAAATAA
3612427 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 2 0.07
16 12 0.43
17 7 0.25
18 7 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTTTAATAAAATAA
Found at i:3612453 original size:20 final size:20
Alignment explanation
Indices: 3612392--3612452 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
3612382 TTATTAAAAT
*
3612392 AAATTTT-T-AATATAAATCA
1 AAATTTTATAAATAT-AATAA
3612411 AAATTTTATAAA-ATAATAA
1 AAATTTTATAAATATAATAA
*
3612430 AAATTTATTTAAATATAATAA
1 AAATTT-TATAAATATAATAA
3612451 AA
1 AA
3612453 TATAAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 17 0.47
20 8 0.22
21 11 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTTTATAAATATAATAA
Found at i:3612478 original size:27 final size:29
Alignment explanation
Indices: 3612418--3612480 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
3612408 TCAAAATTTT
* *
3612418 ATAAAATAATAAAAATTTATTTAAATATA
1 ATAAAATAATAAAAATTTAATTAAATAAA
3612447 ATAAAAT-AT-AAAATTTAATTAAA-AAA
1 ATAAAATAATAAAAATTTAATTAAATAAA
*
3612473 ATTAAATA
1 ATAAAATA
3612481 TTTTAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 8 0.27
27 13 0.43
28 2 0.07
29 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
ATAAAATAATAAAAATTTAATTAAATAAA
Found at i:3613311 original size:2 final size:2
Alignment explanation
Indices: 3613304--3613333 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3613294 TTAGACACCA
3613304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3613334 GTGGAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3613528 original size:27 final size:28
Alignment explanation
Indices: 3613481--3613540 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
3613471 TGATTCATAT
*
3613481 TTAATATTATTTTATTTTAAA-TAAAAA
1 TTAATATTATTTTATTATAAATTAAAAA
* *
3613508 TTAATTTTA-TTTATGTATAAATTTAAAA
1 TTAATATTATTTTAT-TATAAATTAAAAA
3613536 TTAAT
1 TTAAT
3613541 GATATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.18
27 13 0.46
28 10 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TTAATATTATTTTATTATAAATTAAAAA
Found at i:3614031 original size:15 final size:16
Alignment explanation
Indices: 3614000--3614037 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3613990 TCAATTAATT
3614000 TATAAAAATAATAACA
1 TATAAAAATAATAACA
3614016 TATAAAAATAAT-ACA
1 TATAAAAATAATAACA
3614031 TAATAAA
1 T-ATAAA
3614038 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
TATAAAAATAATAACA
Found at i:3614302 original size:2 final size:2
Alignment explanation
Indices: 3614295--3614321 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3614285 CCAAAATCAA
3614295 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3614322 ATCTATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3615232 original size:20 final size:19
Alignment explanation
Indices: 3615204--3615290 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
3615194 AATTATCATA
*
3615204 AAATTAATTTTTATTAATTT
1 AAATTAATTTTTATCAA-TT
*
3615224 AATTTAATTTTTATCAATT
1 AAATTAATTTTTATCAATT
*
3615243 AAATTAATTTTTTATCAAAT
1 AAATTAA-TTTTTATCAATT
3615263 AAACTT--TTATTT-TCAATT
1 AAA-TTAATT-TTTATCAATT
*
3615281 AAGTTAATTT
1 AAATTAATTT
3615291 GATCCTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.04
18 10 0.18
19 13 0.23
20 29 0.52
21 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (19 bp):
AAATTAATTTTTATCAATT
Found at i:3617606 original size:167 final size:170
Alignment explanation
Indices: 3617428--3617764 Score: 617
Period size: 167 Copynumber: 2.0 Consensus size: 170
3617418 ATTTTTGCCT
3617428 TCATATAATATAGTTCTTCCTTAAATTTCAACTTCTCTGACAACTTATTATGGTATTATAGTAAT
1 TCATATAATATAGTTCTTCCTTAAATTTCAACTTCTCTGACAACTTATTATGGTATTATAGTAAT
* *
3617493 CTCG-AAAAAAATATTTTTTTTGTATCAAAGAAGTATATAC-T-TATATATATATCTATAATACA
66 CTCGAAAAAAAATATTTTATTTGTATCAAAGAAGTATATACTTATATATATATATATATAATACA
3617555 CTTAAAAATGACTTAATTATTTGCTCATGAATTAAGCTTA
131 CTTAAAAATGACTTAATTATTTGCTCATGAATTAAGCTTA
* *
3617595 TCATATAATATAGTTCTTCGTTAAATTTCAACTTCTTTGACAACTTATTATGGTATTATAGTAAT
1 TCATATAATATAGTTCTTCCTTAAATTTCAACTTCTCTGACAACTTATTATGGTATTATAGTAAT
3617660 CTCGAAAAAAAATATTTTATTTGTATCAAAGAAGTATATACTTATATATATATATATATAATACA
66 CTCGAAAAAAAATATTTTATTTGTATCAAAGAAGTATATACTTATATATATATATATATAATACA
3617725 CTTAAAAATGACTTAATTATTTGCTCATGAATTAAGCTTA
131 CTTAAAAATGACTTAATTATTTGCTCATGAATTAAGCTTA
3617765 AAAACACAAT
Statistics
Matches: 163, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
167 67 0.41
168 35 0.21
169 1 0.01
170 60 0.37
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.42
Consensus pattern (170 bp):
TCATATAATATAGTTCTTCCTTAAATTTCAACTTCTCTGACAACTTATTATGGTATTATAGTAAT
CTCGAAAAAAAATATTTTATTTGTATCAAAGAAGTATATACTTATATATATATATATATAATACA
CTTAAAAATGACTTAATTATTTGCTCATGAATTAAGCTTA
Found at i:3618367 original size:15 final size:15
Alignment explanation
Indices: 3618347--3618380 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
3618337 AATGAAAAAG
3618347 ATATATATTATATAT
1 ATATATATTATATAT
*
3618362 ATATATATTATATGT
1 ATATATATTATATAT
3618377 ATAT
1 ATAT
3618381 TATAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATATATTATATAT
Found at i:3619821 original size:3 final size:3
Alignment explanation
Indices: 3619813--3619853 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3619803 ATTGGTCAAG
3619813 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3619854 TACCCCTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3625286 original size:3 final size:3
Alignment explanation
Indices: 3625278--3625306 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3625268 GCACCATCAA
3625278 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3625307 AGGAAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3626336 original size:26 final size:29
Alignment explanation
Indices: 3626265--3626337 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 29
3626255 ACGTTTATAT
3626265 TATTTATATATTATTATTTATAATTAATAAA
1 TATTTATATATT-TTATTTATAATT-ATAAA
* *
3626296 TAATTT-TAAAATTTATTT-TAATT-T-AA
1 T-ATTTATATATTTTATTTATAATTATAAA
3626322 TATTTATATATTTTAT
1 TATTTATATATTTTAT
3626338 AATTAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
25 4 0.11
26 11 0.31
27 1 0.03
29 5 0.14
30 6 0.17
31 5 0.14
32 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATTTATATATTTTATTTATAATTATAAA
Found at i:3626347 original size:21 final size:21
Alignment explanation
Indices: 3626309--3626348 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3626299 TTTTAAAATT
*
3626309 TATTTTAATTTAATATTTATA
1 TATTTTAAATTAATATTTATA
3626330 TATTTTATAATTAA-ATTTA
1 TATTTTA-AATTAATATTTA
3626349 AAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTAAATTAATATTTATA
Found at i:3626411 original size:49 final size:42
Alignment explanation
Indices: 3626316--3626411 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 42
3626306 ATTTATTTTA
*
3626316 ATTTAATATTTATATATTTTATAATTAAATTTAAAAAATATT
1 ATTTAATATTTAAATATTTTATAATTAAATTTAAAAAATATT
3626358 -TTTAATATTTAAATATTAATTATAATCTAAATTAATAAAAAACTTATT
1 ATTTAATATTTAAATATT--TTATAAT-TAAATT--TAAAAAA--TATT
3626406 ATTTAA
1 ATTTAA
3626412 GACTCGACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
41 16 0.36
43 7 0.16
44 6 0.13
46 7 0.16
48 4 0.09
49 5 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (42 bp):
ATTTAATATTTAAATATTTTATAATTAAATTTAAAAAATATT
Found at i:3626682 original size:15 final size:16
Alignment explanation
Indices: 3626664--3626697 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3626654 TTAATGTGAT
*
3626664 ATATTTTATAAAA-TA
1 ATATTTTAAAAAATTA
3626679 ATATTTTAAAAAATTA
1 ATATTTTAAAAAATTA
3626695 ATA
1 ATA
3626698 AAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATTTTAAAAAATTA
Found at i:3627122 original size:23 final size:23
Alignment explanation
Indices: 3627096--3627155 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
3627086 TAAAAATATG
*
3627096 ATAATAAT-TAATTTAAAATAAAA
1 ATAATAATATAA-ATAAAATAAAA
* *
3627119 ATAATCATATAAATAAAATATAA
1 ATAATAATATAAATAAAATAAAA
*
3627142 ATAAT-TTATAAATA
1 ATAATAATATAAATA
3627156 CACTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 8 0.25
23 21 0.66
24 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATAATATAAATAAAATAAAA
Found at i:3627495 original size:2 final size:2
Alignment explanation
Indices: 3627488--3627525 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3627478 CTACGTCAGA
3627488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3627526 TTGAATTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3632930 original size:2 final size:2
Alignment explanation
Indices: 3632923--3632952 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3632913 TTTGTGGGCA
3632923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3632953 CAATTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3633493 original size:19 final size:18
Alignment explanation
Indices: 3633439--3633494 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
3633429 TATATATTTT
3633439 TTATATTTTATTAAATTAA
1 TTATATTTTATTAAATT-A
* *
3633458 TTAT-TTTATTTTTAATTA
1 TTATATTT-TATTAAATTA
3633476 TTGATATTTTATTAAATTA
1 TT-ATATTTTATTAAATTA
3633495 AAAATATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.20
19 21 0.70
20 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTTTATTAAATTA
Found at i:3633673 original size:11 final size:11
Alignment explanation
Indices: 3633632--3633680 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
3633622 TTAAATTTAT
3633632 TATTAAAAATAA
1 TATTAAAAA-AA
* * *
3633644 TAATAATAAGA
1 TATTAAAAAAA
*
3633655 TTTTAAAAAAA
1 TATTAAAAAAA
3633666 TATTAAAAAAA
1 TATTAAAAAAA
3633677 TATT
1 TATT
3633681 TGTGAGGTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
11 22 0.76
12 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
TATTAAAAAAA
Found at i:3636370 original size:21 final size:22
Alignment explanation
Indices: 3636344--3636397 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3636334 TGACAAAATA
*
3636344 AAATTTTAAATATTTAATTA-T
1 AAATTTTAAATATTTAAATATT
* *
3636365 AAATTTTAATTTTTTAAATATT
1 AAATTTTAAATATTTAAATATT
3636387 AAATTTATAAA
1 AAATTT-TAAA
3636398 AATTATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 17 0.63
22 7 0.26
23 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTTTAAATATTTAAATATT
Found at i:3637470 original size:15 final size:14
Alignment explanation
Indices: 3637444--3637485 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
3637434 ATTATAATAA
3637444 TAAA-TTTTAAATT
1 TAAATTTTTAAATT
*
3637457 TAAATTTATTAAATA
1 TAAATTT-TTAAATT
*
3637472 TCAATTTTTAAATT
1 TAAATTTTTAAATT
3637486 AATTATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 8 0.33
15 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATTTTTAAATT
Found at i:3637493 original size:21 final size:22
Alignment explanation
Indices: 3637455--3637505 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
3637445 AAATTTTAAA
* *
3637455 TTTAAATTTATTAAATATCAATT
1 TTTAAATTAATT-AATATAAATT
3637478 TTTAAATTAATT-ATATAAATT
1 TTTAAATTAATTAATATAAATT
*
3637499 ATTAAAT
1 TTTAAAT
3637506 CATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.56
23 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAAATTAATTAATATAAATT
Found at i:3637800 original size:16 final size:17
Alignment explanation
Indices: 3637781--3637814 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3637771 TGTTTATACA
3637781 TTATTTT-ATTTAATTT
1 TTATTTTCATTTAATTT
*
3637797 TTATTTTCTTTTAATTT
1 TTATTTTCATTTAATTT
3637814 T
1 T
3637815 GACAGTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTCATTTAATTT
Found at i:3638731 original size:6 final size:7
Alignment explanation
Indices: 3638714--3638790 Score: 51
Period size: 6 Copynumber: 11.6 Consensus size: 7
3638704 TTATATTTTT
3638714 TTATATA
1 TTATATA
3638721 TTATA-A
1 TTATATA
3638727 TTATATA
1 TTATATA
* *
3638734 TAAAATA
1 TTATATA
3638741 -TATAT-
1 TTATATA
3638746 TTATATAA
1 TTATAT-A
*
3638754 TTTTAAATA
1 --TTATATA
3638763 TTAT-T-
1 TTATATA
3638768 TTATATA
1 TTATATA
3638775 TT-TATA
1 TTATATA
3638781 TTATAT-
1 TTATATA
3638787 TTAT
1 TTAT
3638791 TTTATTTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 19
0.69 0.08 0.24
Matches are distributed among these distances:
5 4 0.07
6 26 0.47
7 19 0.35
9 1 0.02
10 5 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTATATA
Found at i:3638731 original size:11 final size:12
Alignment explanation
Indices: 3638717--3638803 Score: 51
Period size: 12 Copynumber: 7.5 Consensus size: 12
3638707 TATTTTTTTA
3638717 TATATTATA-AT
1 TATATTATATAT
*
3638728 TATA-TATAAAAT
1 TATATTAT-ATAT
3638740 ATATATT-TATAT
1 -TATATTATATAT
* * *
3638752 AATTTTAAATAT
1 TATATTATATAT
*
3638764 TATTTTATATATT
1 TATATTATATA-T
3638777 TATATTATAT-T
1 TATATTATATAT
*
3638788 TAT-TT-TATTT
1 TATATTATATAT
3638798 TATATT
1 TATATT
3638804 TGTATTATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
9 3 0.05
10 9 0.15
11 15 0.25
12 18 0.30
13 15 0.25
14 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATATAT
Found at i:3638768 original size:12 final size:12
Alignment explanation
Indices: 3638747--3638795 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
3638737 AATATATATT
*
3638747 TATATAATTTTA
1 TATATTATTTTA
*
3638759 AATATTATTTTA
1 TATATTATTTTA
*
3638771 TATATTTATATTA
1 TATA-TTATTTTA
3638784 TAT-TTATTTTA
1 TATATTATTTTA
3638795 T
1 T
3638796 TTTATATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 8 0.26
12 13 0.42
13 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTATTTTA
Found at i:3638773 original size:30 final size:29
Alignment explanation
Indices: 3638739--3638802 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
3638729 ATATATAAAA
3638739 TATATATTTATATAAT-TTTAAATATTATTT
1 TATATATTTATATAATATTT--ATATTATTT
* *
3638769 TATATATTTATATTATATTTATTTTATTT
1 TATATATTTATATAATATTTATATTATTT
3638798 TATAT
1 TATAT
3638803 TTGTATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 13 0.42
30 15 0.48
31 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TATATATTTATATAATATTTATATTATTT
Found at i:3639267 original size:16 final size:17
Alignment explanation
Indices: 3639247--3639286 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3639237 TAAAATTATT
3639247 TTTAAGTTAAATTCTAA
1 TTTAAGTTAAATTCTAA
* *
3639264 -TTAAGTTATATTTTAA
1 TTTAAGTTAAATTCTAA
3639280 TTTAAGT
1 TTTAAGT
3639287 GTATGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (17 bp):
TTTAAGTTAAATTCTAA
Found at i:3640387 original size:19 final size:20
Alignment explanation
Indices: 3640363--3640419 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
3640353 TATAATATAA
3640363 AAAATAATATAAATATT-TT
1 AAAATAATATAAATATTATT
*
3640382 AAAATAAATTATTAAT-TTATT
1 AAAAT-AA-TATAAATATTATT
*
3640403 AAAATTTATATAAATAT
1 AAAA-TAATATAAATAT
3640420 AAAATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 5 0.17
20 10 0.33
21 14 0.47
22 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATAATATAAATATTATT
Found at i:3640430 original size:17 final size:18
Alignment explanation
Indices: 3640350--3640431 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 18
3640340 AATGCTGTTG
*
3640350 AAATAT-AATA-TAAAAA
1 AAATATAAATATTAAAAT
3640366 ATAATATAAATATTTTAAAAT
1 A-AATATAAATA--TTAAAAT
*
3640387 AAATTATTAATTTATTAAAAT
1 AAA-TA-TAA-ATATTAAAAT
**
3640408 TTATATAAATA-TAAAAT
1 AAATATAAATATTAAAAT
3640425 AAATATA
1 AAATATA
3640432 TAAATTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
16 1 0.02
17 16 0.31
18 6 0.12
19 3 0.06
20 4 0.08
21 16 0.31
22 3 0.06
23 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAAATATTAAAAT
Found at i:3643605 original size:14 final size:15
Alignment explanation
Indices: 3643586--3643618 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3643576 AACTTAATGA
*
3643586 TTTTATCTTTAAT-T
1 TTTTATATTTAATCT
3643600 TTTTATATTTAATCT
1 TTTTATATTTAATCT
3643615 TTTT
1 TTTT
3643619 TTATAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATATTTAATCT
Found at i:3643803 original size:4 final size:4
Alignment explanation
Indices: 3643794--3643828 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
3643784 TTTCATGACA
* *
3643794 TAAT TAAT TAAT TAAT TATT TCAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
3643829 ATAAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (4 bp):
TAAT
Found at i:3649676 original size:28 final size:26
Alignment explanation
Indices: 3649634--3649739 Score: 101
Period size: 27 Copynumber: 4.0 Consensus size: 26
3649624 TTAAATTTGA
* *
3649634 ATTAAATTAATTTAAAATTTTTTATT
1 ATTAAATAAATTTAAAATATTTTATT
*
3649660 ATTTAAATAATATTT-AAATATATT-TT
1 A-TTAAATAA-ATTTAAAATATTTTATT
*
3649686 A-TAATTAAATTTAAAATATTTTATT
1 ATTAAATAAATTTAAAATATTTTATT
*
3649711 ATTAAATAATAATTTAAATTTATTTTATT
1 ATTAAAT-A-AATTTAAA-ATATTTTATT
3649740 TTATTTAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
23 4 0.06
24 14 0.22
25 3 0.05
26 8 0.12
27 15 0.23
28 12 0.18
29 9 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTAAATAAATTTAAAATATTTTATT
Found at i:3649686 original size:22 final size:22
Alignment explanation
Indices: 3649661--3649737 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 22
3649651 TTTTTTATTA
3649661 TTTAAATAATATTTAAATATAT
1 TTTAAATAATATTTAAATATAT
3649683 TTTATAATTAA-ATTTAAAATATTTTAT
1 TTTA-AA-TAATATTT-AAATA---TAT
*
3649710 TATTAAATAATAATTTAAATTTAT
1 T-TTAAATAAT-ATTTAAATATAT
3649734 TTTA
1 TTTA
3649738 TTTTATTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
22 4 0.09
23 9 0.20
24 12 0.27
26 3 0.07
27 10 0.22
28 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAAATAATATTTAAATATAT
Found at i:3649698 original size:23 final size:22
Alignment explanation
Indices: 3649671--3649717 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3649661 TTTAAATAAT
3649671 ATTTAAATATATTTTATAATTAA
1 ATTTAAA-ATATTTTATAATTAA
*
3649694 ATTTAAAATATTTTATTATTAA
1 ATTTAAAATATTTTATAATTAA
3649716 AT
1 AT
3649718 AATAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTAAAATATTTTATAATTAA
Found at i:3649720 original size:50 final size:51
Alignment explanation
Indices: 3649638--3649750 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
3649628 ATTTGAATTA
*
3649638 AATTAATTTAAAATTTTTTATTATTTAAATAAT-ATTTAAATATATTTTAT
1 AATTAATTTAAAATATTTTATTATTTAAATAATAATTTAAATATATTTTAT
*
3649688 AATTAAATTTAAAATATTTTATTA-TTAAATAATAATTTAAATTTATTTTAT
1 AATT-AATTTAAAATATTTTATTATTTAAATAATAATTTAAATATATTTTAT
*
3649739 --TTTATTTAAAAT
1 AATTAATTTAAAAT
3649751 TCGACTTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
48 9 0.16
49 2 0.03
50 13 0.22
51 34 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (51 bp):
AATTAATTTAAAATATTTTATTATTTAAATAATAATTTAAATATATTTTAT
Found at i:3650753 original size:29 final size:27
Alignment explanation
Indices: 3650717--3650778 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
3650707 TATTTTTATT
3650717 TAAA-TTTAT-TTATAAAATTTATAAATA
1 TAAATTTTATATTATAAAA-TTATAAA-A
* *
3650744 TAATATTTTATATTTTTAAATTATAAAA
1 TAA-ATTTTATATTATAAAATTATAAAA
3650772 TAAATTT
1 TAAATTT
3650779 GACAAGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 7 0.23
28 5 0.17
29 12 0.40
30 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TAAATTTTATATTATAAAATTATAAAA
Found at i:3651052 original size:2 final size:2
Alignment explanation
Indices: 3651045--3651069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3651035 GGAGAACTTG
3651045 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3651070 CTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3658279 original size:32 final size:31
Alignment explanation
Indices: 3658229--3658290 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
3658219 TATTTAAAAA
3658229 ATAATATATTTATATAAATTTTAATATATTT
1 ATAATATATTTATATAAATTTTAATATATTT
*
3658260 ATAATCTATATTATATAAATTTTAATATATT
1 ATAATATAT-TTATATAAATTTTAATATATT
3658291 CATTAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
ATAATATATTTATATAAATTTTAATATATTT
Found at i:3666926 original size:19 final size:19
Alignment explanation
Indices: 3666904--3666960 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
3666894 AAATAATATT
*
3666904 TTATTTAAATATATTAAAA
1 TTATTAAAATATATTAAAA
*
3666923 TTA-TAAGAATTTATTAAAA
1 TTATTAA-AATATATTAAAA
*
3666942 TT-TTAAAATA-ATTTAAA
1 TTATTAAAATATATTAAAA
3666959 TT
1 TT
3666961 TTTTTAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTATTAAAATATATTAAAA
Found at i:3667914 original size:20 final size:19
Alignment explanation
Indices: 3667888--3667936 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
3667878 TAAAAATATT
3667888 AAAATTAATATAAATTTAA
1 AAAATTAATATAAATTTAA
* **
3667907 AAATATTATATTTTTATTTAA
1 AAA-ATTA-ATATAAATTTAA
3667928 AAAATTAAT
1 AAAATTAAT
3667937 TATTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 5 0.20
20 8 0.32
21 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTAATATAAATTTAA
Found at i:3667940 original size:22 final size:22
Alignment explanation
Indices: 3667901--3667948 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
3667891 ATTAATATAA
3667901 ATTTAAAAATATTATATT-TTT
1 ATTTAAAAATATTATATTATTT
3667922 ATTTAAAAA-ATTAATTATTATTT
1 ATTTAAAAATATT-A-TATTATTT
3667945 ATTT
1 ATTT
3667949 TTATTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.12
21 10 0.42
22 4 0.17
23 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTAAAAATATTATATTATTT
Found at i:3667944 original size:19 final size:19
Alignment explanation
Indices: 3667888--3667945 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
3667878 TAAAAATATT
*
3667888 AAAATTAA-TATAAATTTAA
1 AAAATTAATTAT-TATTTAA
*
3667907 AAATATTATATTTTTATTTAA
1 AAA-ATTA-ATTATTATTTAA
3667928 AAAATTAATTATTATTTA
1 AAAATTAATTATTATTTA
3667946 TTTTTATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 13 0.39
20 8 0.24
21 10 0.30
22 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTAATTATTATTTAA
Found at i:3667948 original size:23 final size:21
Alignment explanation
Indices: 3667901--3667945 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
3667891 ATTAATATAA
3667901 ATTTAAAAATATTATATTTTT
1 ATTTAAAAATATTATATTTTT
*
3667922 ATTTAAAAA-ATTA-ATTATT
1 ATTTAAAAATATTATATTTTT
3667941 ATTTA
1 ATTTA
3667946 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.43
20 4 0.17
21 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAAAATATTATATTTTT
Found at i:3670050 original size:66 final size:67
Alignment explanation
Indices: 3669978--3670111 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
3669968 TCTCATCAAT
* *
3669978 TTGAACT-CTAATAGGATGAAAATTGAAGATAATTTTTAATCAATTTTCATCCAATTAAAATTTT
1 TTGAACTCCTAATAGGATGAAAATTGAAGATAATTTTTAATCAATTTTCATCCAATCAAAAGTTT
3670042 AA
66 AA
* * *
3670044 TTGAACTCCTAATAGGATGAAAGTTGAAGATGATTTTTAATTAATTTTCATCCAATCAAAAGTTT
1 TTGAACTCCTAATAGGATGAAAATTGAAGATAATTTTTAATCAATTTTCATCCAATCAAAAGTTT
3670109 AA
66 AA
3670111 T
1 T
3670112 CAAAAGGGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 7 0.11
67 55 0.89
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (67 bp):
TTGAACTCCTAATAGGATGAAAATTGAAGATAATTTTTAATCAATTTTCATCCAATCAAAAGTTT
AA
Found at i:3670816 original size:31 final size:31
Alignment explanation
Indices: 3670758--3670817 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 31
3670748 AATTTGTCAA
*
3670758 ATAAATATTTATATTATTATTCAGTTAAACAC
1 ATAAATATTTATATTAATATT-AGTTAAACAC
3670790 ATAAATATTATATATTAATATT-GTTAAA
1 ATAAATATT-TATATTAATATTAGTTAAA
3670818 TATATATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.23
32 9 0.35
33 11 0.42
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (31 bp):
ATAAATATTTATATTAATATTAGTTAAACAC
Found at i:3672821 original size:23 final size:24
Alignment explanation
Indices: 3672795--3672840 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
3672785 AAATACACTA
3672795 AGAAAGAAA-GAAAAAAAAAAGAG
1 AGAAAGAAAGGAAAAAAAAAAGAG
*
3672818 AGAAAGAAAGGAGAAAAAAAAGA
1 AGAAAGAAAGGAAAAAAAAAAGA
3672841 AAAAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (24 bp):
AGAAAGAAAGGAAAAAAAAAAGAG
Found at i:3672846 original size:23 final size:23
Alignment explanation
Indices: 3672797--3672854 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
3672787 ATACACTAAG
*
3672797 AAAGAAAGAAAAAAAAAAGAGAG
1 AAAGAAAGAAAAAAAAAAGAGAA
*
3672820 AAAGAAAGGAGAAAAAAAAGA-AA
1 AAAGAAA-GAAAAAAAAAAGAGAA
*
3672843 AAAGGAA-AAAAA
1 AAAGAAAGAAAAA
3672855 TTATGAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 4 0.13
23 14 0.47
24 12 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAAAAAAAAAGAGAA
Found at i:3673372 original size:10 final size:10
Alignment explanation
Indices: 3673357--3673391 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
3673347 ATCATATTCA
3673357 TATTATTTTT
1 TATTATTTTT
3673367 TATTATGTTTT
1 TATTAT-TTTT
*
3673378 AATTATTTTT
1 TATTATTTTT
3673388 TATT
1 TATT
3673392 TATGTTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (10 bp):
TATTATTTTT
Found at i:3674051 original size:17 final size:18
Alignment explanation
Indices: 3674019--3674066 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3674009 TATGTCTGTG
3674019 TTATATTTTA-ATT-TATT
1 TTATATTTTATATTATA-T
3674036 TTATATTTTATATTATAT
1 TTATATTTTATATTATAT
* *
3674054 ATATTTTTTATAT
1 TTATATTTTATAT
3674067 GATTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 10 0.37
18 15 0.56
19 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATATTTTATATTATAT
Found at i:3674156 original size:16 final size:15
Alignment explanation
Indices: 3674111--3674156 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
3674101 ATTTTTAAAT
3674111 AAATTTTATTAATTA
1 AAATTTTATTAATTA
*
3674126 TAATTTTATTTAATTAA
1 AAATTTTA-TTAATT-A
*
3674143 AAATTTTATAAATT
1 AAATTTTATTAATT
3674157 TTAAAACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
17 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AAATTTTATTAATTA
Found at i:3674348 original size:21 final size:21
Alignment explanation
Indices: 3674283--3674350 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 21
3674273 AACGTGGTGG
3674283 AAAAAA-AAAGAAATCAAGACAA
1 AAAAAAGAAAGAAAT-AAGA-AA
3674305 AAAGAAAGAAAGAAATAAGAAA
1 AAA-AAAGAAAGAAATAAGAAA
* *
3674327 AAAAAAGAAA-AAATTATAAA
1 AAAAAAGAAAGAAATAAGAAA
3674347 AAAA
1 AAAA
3674351 TTTATATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.29
21 7 0.17
22 8 0.19
23 7 0.17
24 8 0.19
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.07
Consensus pattern (21 bp):
AAAAAAGAAAGAAATAAGAAA
Found at i:3674376 original size:22 final size:22
Alignment explanation
Indices: 3674366--3674445 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 22
3674356 ATGTTTGTAT
3674366 TTATATTTTTATATTTTAAATA
1 TTATATTTTTATATTTTAAATA
3674388 TTATATTTTTGTATATTTTTAACATA
1 TTATA-TTTT-TATA-TTTTAA-ATA
** *
3674414 TTA-ATAATT-TATTTT-ATTA
1 TTATATTTTTATATTTTAAATA
3674433 TATATATTTTTAT
1 T-TATATTTTTAT
3674446 GTATTTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 8 0.17
22 8 0.17
23 5 0.11
24 6 0.13
25 7 0.15
26 6 0.13
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (22 bp):
TTATATTTTTATATTTTAAATA
Found at i:3674435 original size:32 final size:31
Alignment explanation
Indices: 3674365--3674435 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 31
3674355 TATGTTTGTA
* *
3674365 TTTATATTTTTATATTTTAAATATTATATTT
1 TTTATATTTTTACATATTAAATATTATATTT
3674396 TTGTATATTTTTAACATATT-AATAATT-TATTT
1 TT-TATATTTTT-ACATATTAAAT-ATTATATTT
3674428 TATTATAT
1 T-TTATAT
3674436 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 2 0.06
32 23 0.68
33 9 0.26
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
TTTATATTTTTACATATTAAATATTATATTT
Found at i:3674547 original size:19 final size:19
Alignment explanation
Indices: 3674510--3674568 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
3674500 ATTTAAAATA
** *
3674510 TTATAAATTTACGTAATAT
1 TTATAAATTTATTTTATAT
3674529 TTATAAATATT-TTTTATAT
1 TTATAAAT-TTATTTTATAT
*
3674548 TTATATATTTATTTTATAT
1 TTATAAATTTATTTTATAT
3674567 TT
1 TT
3674569 TTTATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.06
19 30 0.88
20 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATAAATTTATTTTATAT
Found at i:3674549 original size:9 final size:9
Alignment explanation
Indices: 3674535--3674576 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
3674525 ATATTTATAA
3674535 ATATTTTTT
1 ATATTTTTT
*
3674544 ATA-TTTAT
1 ATATTTTTT
3674552 ATATTTATTTT
1 ATA-TT-TTTT
3674563 ATATTTTTT
1 ATATTTTTT
3674572 ATATT
1 ATATT
3674577 ATGTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 7 0.25
9 12 0.43
10 3 0.11
11 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATATTTTTT
Found at i:3674560 original size:21 final size:19
Alignment explanation
Indices: 3674536--3674584 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
3674526 TATTTATAAA
3674536 TATTTTTTATATTTATATATT
1 TATTTTTTAT-TTTATATA-T
* *
3674557 TATTTTATATTTTTTATAT
1 TATTTTTTATTTTATATAT
*
3674576 TATGTTTTA
1 TATTTTTTA
3674585 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 7 0.29
21 9 0.38
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTTTTATTTTATATAT
Found at i:3674578 original size:19 final size:18
Alignment explanation
Indices: 3674525--3674578 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
3674515 AATTTACGTA
3674525 ATATTTATAAATATT-TTTT
1 ATATTTAT--ATATTATTTT
3674544 ATATTTATATATTTATTTT
1 ATATTTATATA-TTATTTT
*
3674563 ATATTTTTTATATTAT
1 ATA-TTTATATATTAT
3674579 GTTTTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 2 0.06
19 19 0.61
20 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATTTATATATTATTTT
Found at i:3675900 original size:17 final size:15
Alignment explanation
Indices: 3675880--3675928 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
3675870 TTAAGTAAAA
3675880 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
3675897 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
3675911 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
3675923 AAGAAA
1 AAGAAA
3675929 AAAATATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 9 0.30
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:3675925 original size:9 final size:9
Alignment explanation
Indices: 3675903--3675932 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
3675893 GATGAAGAAG
3675903 AAAGAAAGAA
1 AAAGAAA-AA
3675913 AAAGAAAAA
1 AAAGAAAAA
3675922 AAAGAAAAA
1 AAAGAAAAA
3675931 AA
1 AA
3675933 TATGAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:3676307 original size:2 final size:2
Alignment explanation
Indices: 3676294--3676328 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3676284 TTATTTTATT
* *
3676294 TA TA TG TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3676329 TTTAAAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3676315 original size:16 final size:16
Alignment explanation
Indices: 3676294--3676328 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3676284 TTATTTTATT
3676294 TATATGTATATATATA
1 TATATGTATATATATA
3676310 TATATGTATATATATA
1 TATATGTATATATATA
3676326 TAT
1 TAT
3676329 TTTAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATATGTATATATATA
Found at i:3679825 original size:14 final size:14
Alignment explanation
Indices: 3679808--3679879 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 14
3679798 TTATTAAATC
3679808 AAATTTAATTAATA
1 AAATTTAATTAATA
*
3679822 AAATTT-ATTAAAA
1 AAATTTAATTAATA
*
3679835 AATATTTAATAAAT-
1 AA-ATTTAATTAATA
*
3679849 AAATTTAA--AATTT
1 AAATTTAATTAA-TA
3679862 AAATTTAATTATATA
1 AAATTTAATTA-ATA
3679877 AAA
1 AAA
3679880 AATTATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
11 2 0.04
12 1 0.02
13 22 0.47
14 12 0.26
15 9 0.19
16 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTTAATTAATA
Found at i:3679833 original size:28 final size:28
Alignment explanation
Indices: 3679797--3679879 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
3679787 TATAAAATTT
*
3679797 TTTATTAAATCAAATTTAATTAATAAAA
1 TTTATTAAATAAAATTTAATTAATAAAA
*
3679825 TTTATTAAA-AAATATTTAATAAAT-AAA
1 TTTATTAAATAAA-ATTTAATTAATAAAA
*
3679852 TTTA--AAATTTAAATTTAATTATATAAAA
1 TTTATTAAA-TAAAATTTAATTA-ATAAAA
3679880 AATTATATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
25 3 0.07
26 8 0.17
27 13 0.28
28 22 0.48
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTATTAAATAAAATTTAATTAATAAAA
Found at i:3679856 original size:13 final size:13
Alignment explanation
Indices: 3679797--3679870 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
3679787 TATAAAATTT
*
3679797 TTTATTAAATCAAA
1 TTTAATAAAT-AAA
*
3679811 TTTAATTAATAAAA
1 TTTAATAAAT-AAA
* *
3679825 TTTATTAAAAAATA
1 TTTAATAAATAA-A
3679839 TTTAATAAATAAA
1 TTTAATAAATAAA
*
3679852 TTTAA-AATTTAAA
1 TTTAATAA-ATAAA
3679865 TTTAAT
1 TTTAAT
3679871 TATATAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 2 0.04
13 17 0.35
14 29 0.60
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAATAAATAAA
Found at i:3679911 original size:24 final size:24
Alignment explanation
Indices: 3679884--3679963 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
3679874 ATAAAAAATT
*
3679884 ATATAAAAT-ATAAAATAAGTTAAA
1 ATATAAAATAAAAAAATAA-TTAAA
*
3679908 ATATAATATAAAAAAATAATTAAA
1 ATATAAAATAAAAAAATAATTAAA
*
3679932 ATATAATATGATACAAAAATAA-TATAA
1 ATATAA-A--ATAAAAAAATAATTA-AA
3679959 ATATA
1 ATATA
3679964 CCCGTAATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 19 0.40
25 8 0.17
26 2 0.04
27 18 0.38
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (24 bp):
ATATAAAATAAAAAAATAATTAAA
Found at i:3679960 original size:27 final size:24
Alignment explanation
Indices: 3679895--3679963 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 24
3679885 TATAAAATAT
3679895 AAAATAAGTTAAAATATAATATAAA
1 AAAATAA-TTAAAATATAATATAAA
3679920 AAAATAATTAAAATATAATATGATACA
1 AAAATAATTAAAATATAATAT-A-A-A
3679947 AAAATAA-TATAAATATA
1 AAAATAATTA-AAATATA
3679964 CCCGTAATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 14 0.35
25 8 0.20
26 3 0.08
27 15 0.38
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (24 bp):
AAAATAATTAAAATATAATATAAA
Found at i:3680876 original size:17 final size:17
Alignment explanation
Indices: 3680845--3680907 Score: 74
Period size: 17 Copynumber: 3.5 Consensus size: 17
3680835 TACGATATAA
3680845 AAAATTATAATATAATAT
1 AAAA-TATAATATAATAT
*
3680863 AAAATATGATATAATAT
1 AAAATATAATATAATAT
3680880 GAAAA-ATAATATAAATAT
1 -AAAATATAATAT-AATAT
3680898 AAATATATAA
1 AAA-ATATAA
3680908 ACATATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 21 0.54
18 14 0.36
19 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATATAATATAATAT
Found at i:3680926 original size:34 final size:35
Alignment explanation
Indices: 3680846--3680928 Score: 84
Period size: 34 Copynumber: 2.4 Consensus size: 35
3680836 ACGATATAAA
*
3680846 AAATTATA-ATATAATATAAAATATGATATAATATG
1 AAATTATATATA-AATATAAAATATGATAAAATATG
* *
3680881 AAA-AATAATATAAATAT-AAATAT-ATAAACATATT
1 AAATTAT-ATATAAATATAAAATATGATAAA-ATATG
3680915 AAATTATATATAAA
1 AAATTATATATAAA
3680929 ATAGATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
33 4 0.10
34 22 0.55
35 11 0.28
36 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (35 bp):
AAATTATATATAAATATAAAATATGATAAAATATG
Found at i:3681265 original size:21 final size:22
Alignment explanation
Indices: 3681228--3681275 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
3681218 CTTATAATAA
*
3681228 ATAAATAAATAAAT-AAATTTT
1 ATAAATAAATAAATAAAATTAT
*
3681249 ATAAAT-AATAATTTAAAATTAT
1 ATAAATAAATAA-ATAAAATTAT
3681271 ATAAA
1 ATAAA
3681276 AATTAACTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAATAAATAAATAAAATTAT
Found at i:3685630 original size:6 final size:6
Alignment explanation
Indices: 3685619--3685658 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
3685609 ACACACACAT
3685619 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
3685659 GCATGCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:3689847 original size:22 final size:21
Alignment explanation
Indices: 3689819--3689860 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3689809 TATTAAAAAA
3689819 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
3689839 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
3689860 A
1 A
3689861 AATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:3692571 original size:52 final size:51
Alignment explanation
Indices: 3692437--3692574 Score: 163
Period size: 52 Copynumber: 2.6 Consensus size: 51
3692427 ATTAAAAATA
* * * *
3692437 TATTTAAAAATAATAAACTATTTAAAATATAATTTATATAAATCTTGAATTAC
1 TATTTAAAAATAATAAA-AATTTAAAA-ATATTTTACATAAATCTTCAATTAC
* *
3692490 TAATT-AAAATAATATCAAATTTAAAAATATTTTACATTAAATC-TCAAGTTAC
1 TATTTAAAAATAATA-AAAATTTAAAAATATTTTACA-TAAATCTTCAA-TTAC
3692542 TATTTAAAAATAATAAAAATTTAAAAATATTTT
1 TATTTAAAAATAATAAAAATTTAAAAATATTTT
3692575 TATGTTAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
51 11 0.15
52 48 0.66
53 14 0.19
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (51 bp):
TATTTAAAAATAATAAAAATTTAAAAATATTTTACATAAATCTTCAATTAC
Found at i:3692593 original size:53 final size:51
Alignment explanation
Indices: 3692437--3692611 Score: 153
Period size: 52 Copynumber: 3.4 Consensus size: 51
3692427 ATTAAAAATA
* * * *
3692437 TATTTAAAAATAATAAACTATTT-AAAATATAATTTATATAAATCTTGAATTAC
1 TATTTAAAAATAATAAA-AATTTAAAAATAT-TTTTATTTAAATC-TGAGTTAC
* * * *
3692490 TAATT-AAAATAATATCAAATTTAAAAATA-TTTTACATTAAATCTCAAGTTAC
1 TATTTAAAAATAATA-AAAATTTAAAAATATTTTTA-TTTAAATCT-GAGTTAC
3692542 TATTTAAAAATAATAAAAATTTAAAAATATTTTTATGTTAAAATCTGAGTTA-
1 TATTTAAAAATAATAAAAATTTAAAAATATTTTTAT-TT-AAATCTGAGTTAC
*
3692594 TTTTTAAAAAATAA-AAAA
1 TATTT-AAAAATAATAAAA
3692612 TATTATATAT
Statistics
Matches: 100, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
51 5 0.05
52 49 0.49
53 40 0.40
54 6 0.06
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (51 bp):
TATTTAAAAATAATAAAAATTTAAAAATATTTTTATTTAAATCTGAGTTAC
Found at i:3692625 original size:42 final size:44
Alignment explanation
Indices: 3692555--3692646 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
3692545 TTAAAAATAA
* * * * * *
3692555 TAAAAATTTAAAAATATTTTTATGTTAAAATCTGAGTTATT-TT
1 TAAAAAATAAAAAATATTTATATATTAAAATCAGAATTATTATT
*
3692598 TAAAAAATAAAAAATA-TTATATATTAAATTCAGAATTATTATT
1 TAAAAAATAAAAAATATTTATATATTAAAATCAGAATTATTATT
3692641 TAAAAA
1 TAAAAA
3692647 TATTTTATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 19 0.46
43 22 0.54
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (44 bp):
TAAAAAATAAAAAATATTTATATATTAAAATCAGAATTATTATT
Found at i:3692647 original size:42 final size:42
Alignment explanation
Indices: 3692555--3692648 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
3692545 TTAAAAATAA
* * * * *
3692555 TAAAAATTTAAAAATATTTTTATGTTAAAATCTGAGTTATTTT
1 TAAAAA-TAAAAAATATTTATATATTAAAATCAGAATTATTTT
*
3692598 TAAAAAATAAAAAATA-TTATATATTAAATTCAGAATTATTATT
1 T-AAAAATAAAAAATATTTATATATTAAAATCAGAATTATT-TT
3692641 TAAAAATA
1 TAAAAATA
3692649 TTTTATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 26 0.60
43 12 0.28
44 5 0.12
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (42 bp):
TAAAAATAAAAAATATTTATATATTAAAATCAGAATTATTTT
Found at i:3693276 original size:22 final size:22
Alignment explanation
Indices: 3693251--3693304 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
3693241 AATTAAAGTC
3693251 ATATATACATGCT-GTTATAGTT
1 ATATATACAT-CTAGTTATAGTT
* * *
3693273 ATATGTATATTTAGTTATAGTT
1 ATATATACATCTAGTTATAGTT
*
3693295 GTATATACAT
1 ATATATACAT
3693305 ACACAATCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (22 bp):
ATATATACATCTAGTTATAGTT
Found at i:3693630 original size:22 final size:22
Alignment explanation
Indices: 3693605--3693661 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
3693595 GTATACACTG
*
3693605 TTATAATCATATATAAATTTAA
1 TTATAATCATATATAAATTCAA
* *
3693627 TTATAATCAAATATACATTCAA
1 TTATAATCATATATAAATTCAA
*
3693649 TTATAATTATATA
1 TTATAATCATATA
3693662 CATACATAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATAATCATATATAAATTCAA
Found at i:3695695 original size:2 final size:2
Alignment explanation
Indices: 3695682--3695715 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3695672 TTTAGTTCTT
* *
3695682 TC TC TT TC TC TC TC CC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3695716 CCTATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3695723 original size:2 final size:2
Alignment explanation
Indices: 3695718--3695742 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3695708 TCTCTCTCCC
3695718 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3695743 CATTGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3696020 original size:9 final size:9
Alignment explanation
Indices: 3696006--3696038 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
3695996 ATAAGGCTCA
3696006 AGCAGAGAC
1 AGCAGAGAC
3696015 AGCAGAGAC
1 AGCAGAGAC
*
3696024 AGCAGAGAT
1 AGCAGAGAC
3696033 AGCAGA
1 AGCAGA
3696039 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:3698086 original size:22 final size:23
Alignment explanation
Indices: 3698052--3698096 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
3698042 GGATCGAAAA
3698052 AAAAAAAAAAAAG-GGGCTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
** *
3698074 AAAAAAACCAAAGTGGGTTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
3698097 GATTGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAAAAGTGGGCTTTCC
Found at i:3698886 original size:2 final size:2
Alignment explanation
Indices: 3698873--3698903 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3698863 TTATTTTATT
*
3698873 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3698904 TTTGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Done.