Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 20 of 33
Found at i:3048201 original size:62 final size:62
Alignment explanation
Indices: 3048095--3048215 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 62
3048085 CAAACCTCTC
* *
3048095 ACTCTTATTTAGTCCTTGTCTTGTGTATACAAAGTAACTAATGTGTTTGGTTTGCTAATGTT
1 ACTCTTATTTAGTCCTTGTCTTGTGTATACAAAGTAACTAATGTGTTGGGTTTACTAATGTT
* * *
3048157 ACTCTTATTTAGTCTTTGTTTTGTGTATACAAAGTTAA-TTATGTGTTGGGTTTACTAAT
1 ACTCTTATTTAGTCCTTGTCTTGTGTATACAAAG-TAACTAATGTGTTGGGTTTACTAAT
3048216 ATTCATAGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 50 0.94
63 3 0.06
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (62 bp):
ACTCTTATTTAGTCCTTGTCTTGTGTATACAAAGTAACTAATGTGTTGGGTTTACTAATGTT
Found at i:3056231 original size:3 final size:3
Alignment explanation
Indices: 3056225--3056249 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3056215 TGCTTCTTCT
3056225 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
3056250 TCCCCCCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3060320 original size:16 final size:16
Alignment explanation
Indices: 3060299--3060350 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
3060289 TCAATACATT
3060299 TATATTTTAAAATTTA
1 TATATTTTAAAATTTA
*
3060315 TATATTATAAAATATTA
1 TATATTTTAAAAT-TTA
*
3060332 T-TATATTAAAATTTA
1 TATATTTTAAAATTTA
3060347 TATA
1 TATA
3060351 AATATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 4 0.13
16 23 0.74
17 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTTTAAAATTTA
Found at i:3060360 original size:18 final size:16
Alignment explanation
Indices: 3060306--3060359 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
3060296 ATTTATATTT
*
3060306 TAAAATTTATATATTA
1 TAAAATTTATATAATA
3060322 TAAAATATTAT-T-ATA
1 TAAAAT-TTATATAATA
3060337 TTAAAATTTATATAAATA
1 -TAAAATTTATAT-AATA
3060355 TAAAA
1 TAAAA
3060360 AAATAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 6 0.19
16 14 0.44
17 9 0.28
18 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:3063407 original size:15 final size:15
Alignment explanation
Indices: 3063377--3063419 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
3063367 ATTTTTATAT
3063377 AAAAAATATAAAAATA
1 AAAAAAT-TAAAAATA
*
3063393 AAAAAATTAATAATA
1 AAAAAATTAAAAATA
* *
3063408 CAAATATTAAAA
1 AAAAAATTAAAA
3063420 TTTATATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATTAAAAATA
Found at i:3064522 original size:2 final size:2
Alignment explanation
Indices: 3064515--3064539 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3064505 ACAAATTATC
3064515 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 A
3064540 AAATATGAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3065328 original size:2 final size:2
Alignment explanation
Indices: 3065321--3065347 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3065311 CATACATACG
3065321 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 T
3065348 CTGCATACAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3075206 original size:10 final size:10
Alignment explanation
Indices: 3075188--3075224 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
3075178 ACAAATATTT
3075188 TATATATACA
1 TATATATACA
*
3075198 TATACATACA
1 TATATATACA
*
3075208 TATATATATA
1 TATATATACA
3075218 TATATAT
1 TATATAT
3075225 TTATCACGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATATACA
Found at i:3075858 original size:2 final size:2
Alignment explanation
Indices: 3075851--3075877 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3075841 ACATATAAGA
3075851 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
3075878 ACAGATACAT
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:3076742 original size:21 final size:21
Alignment explanation
Indices: 3076718--3076759 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3076708 GTATTAAAAG
3076718 TTAAATTGATTAAATTT-TTAA
1 TTAAATTGATT-AATTTGTTAA
3076739 TTAAATTGATTAATTTGTTAA
1 TTAAATTGATTAATTTGTTAA
3076760 AATAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
TTAAATTGATTAATTTGTTAA
Found at i:3077446 original size:17 final size:17
Alignment explanation
Indices: 3077411--3077443 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3077401 AAATTAATAA
*
3077411 ATTATAAATTAAATATT
1 ATTATAAATAAAATATT
3077428 ATTAT-AATAAAATATT
1 ATTATAAATAAAATATT
3077444 TATAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTATAAATAAAATATT
Found at i:3077489 original size:20 final size:21
Alignment explanation
Indices: 3077466--3077512 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
3077456 TATTTTTATA
*
3077466 TATTTTTTTTAAAAATTA-CT
1 TATTTTTTTTAAAAACTATCT
*
3077486 TA-TTTCTTTAAAAACTATCT
1 TATTTTTTTTAAAAACTATCT
3077506 TATTTTT
1 TATTTTT
3077513 AAAAAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 13 0.59
20 6 0.27
21 3 0.14
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTTTTTAAAAACTATCT
Found at i:3077497 original size:19 final size:20
Alignment explanation
Indices: 3077473--3077520 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3077463 ATATATTTTT
*
3077473 TTTAAAAATTA-CTTATTTC
1 TTTAAAAACTATCTTATTTC
3077492 TTTAAAAACTATCTTATTT-
1 TTTAAAAACTATCTTATTTC
*
3077511 TTAAAAAACT
1 TTTAAAAACT
3077521 TTTCACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAAAACTATCTTATTTC
Found at i:3084098 original size:50 final size:50
Alignment explanation
Indices: 3084041--3084279 Score: 336
Period size: 50 Copynumber: 4.8 Consensus size: 50
3084031 GGTGGAAAAT
* *
3084041 ACCTTTGACAATAGAGAGATGTGGTCATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
3084091 ACCTTTGACAATAGAAAGAGGTGGCCGTAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* ** * *
3084141 ACCTTTGACAATAAAG-GAAGGTAACCATAATTGTCGACGATTCTTTAACCA
1 ACCTTTGACAATAGAGAG-AGGTGGCCATAATTGTTGACGATTC-TTCACCA
*
3084192 ACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* * *
3084242 ACCTTTGACAATAGAGAAAGGTGGTCATAATTATTGAC
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGAC
3084280 TCTAAGTATA
Statistics
Matches: 167, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 121 0.72
51 44 0.26
52 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (50 bp):
ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
Found at i:3084271 original size:101 final size:100
Alignment explanation
Indices: 3084041--3084273 Score: 349
Period size: 101 Copynumber: 2.3 Consensus size: 100
3084031 GGTGGAAAAT
* * * *
3084041 ACCTTTGACAATAGAGAGATGTGGTCATAATTGTTGACGATTCTTCACCAACCTTTGACAATAGA
1 ACCTTTGACAATAGAGAAAGGTGGTCATAATTGTCGACGATTCTTAACCAACCTTTGACAATAGA
* *
3084106 AAGAGGTGGCCGTAATTGTTGACGATTCTTCACCA
66 AAGAGGTGACCATAATTGTTGACGATTCTTCACCA
* * ***
3084141 ACCTTTGACAATAAAGGAAGGTAACCATAATTGTCGACGATTCTTTAACCAACCTTTGACAATAG
1 ACCTTTGACAATAGAGAAAGGTGGTCATAATTGTCGACGATTC-TTAACCAACCTTTGACAATAG
*
3084206 AGAGAGGTGACCATAATTGTTGACGATTCTTCACCA
65 AAAGAGGTGACCATAATTGTTGACGATTCTTCACCA
3084242 ACCTTTGACAATAGAGAAAGGTGGTCATAATT
1 ACCTTTGACAATAGAGAAAGGTGGTCATAATT
3084274 ATTGACTCTA
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 35 0.30
101 80 0.70
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (100 bp):
ACCTTTGACAATAGAGAAAGGTGGTCATAATTGTCGACGATTCTTAACCAACCTTTGACAATAGA
AAGAGGTGACCATAATTGTTGACGATTCTTCACCA
Found at i:3087268 original size:16 final size:16
Alignment explanation
Indices: 3087247--3087301 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
3087237 ATAAATATTT
3087247 TAAAATTTATATAATA
1 TAAAATTTATATAATA
3087263 TAAAATATTA-AT-ATA
1 TAAAAT-TTATATAATA
3087278 TCAAAATTTATATAAATA
1 T-AAAATTTATAT-AATA
3087296 TAAAAT
1 TAAAAT
3087302 AATTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.21
16 15 0.44
17 8 0.24
18 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:3087284 original size:32 final size:33
Alignment explanation
Indices: 3087230--3087302 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
3087220 AAATTTGACT
* *
3087230 TAAATATATAAATATTTTAAAATTTATAT-AATA
1 TAAA-ATATAAATATATCAAAATTTATATAAATA
*
3087263 TAAAATATTAATATATCAAAATTTATATAAATA
1 TAAAATATAAATATATCAAAATTTATATAAATA
3087296 TAAAATA
1 TAAAATA
3087303 ATTTAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
TAAAATATAAATATATCAAAATTTATATAAATA
Found at i:3088699 original size:21 final size:21
Alignment explanation
Indices: 3088675--3088734 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
3088665 TATTAGAAGT
*
3088675 TGCATTTTTTCATCCAAAAAA
1 TGCATTATTTCATCCAAAAAA
**
3088696 TGCATTATTTCATCCAACCAA
1 TGCATTATTTCATCCAAAAAA
* *
3088717 TGCATCATTTCATTCAAA
1 TGCATTATTTCATCCAAA
3088735 GATACATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (21 bp):
TGCATTATTTCATCCAAAAAA
Found at i:3092103 original size:21 final size:21
Alignment explanation
Indices: 3092079--3092118 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3092069 TCATCTAAAA
*
3092079 AATACATTATTTCATTCAACC
1 AATACATCATTTCATTCAACC
3092100 AATACATCATTTCATTCAA
1 AATACATCATTTCATTCAA
3092119 AGATATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (21 bp):
AATACATCATTTCATTCAACC
Found at i:3097224 original size:80 final size:81
Alignment explanation
Indices: 3097125--3097287 Score: 256
Period size: 80 Copynumber: 2.0 Consensus size: 81
3097115 GCTTTAGAGC
** * * *
3097125 AAATATAGAATGTTAAAGTAGAGAAGTAGAAGTAGAATAGTTTGTGAATGACTTTCCTATCTTTT
1 AAATATAGAATGGCAAAGTAGAGAAATAGAAGTAGAATAGTTTGTGAATGACTATCCTATCTATT
3097190 TATACTTGAGTGT-TT
66 TATACTTGAGTGTCTT
* *
3097205 AAATATAGAATGGCAAAGTAGGGAAATAGAAGTAGAATAGTTTGTGAATGACTATCCTGTCTATT
1 AAATATAGAATGGCAAAGTAGAGAAATAGAAGTAGAATAGTTTGTGAATGACTATCCTATCTATT
3097270 TATACTTGAGTGTCTT
66 TATACTTGAGTGTCTT
3097286 AA
1 AA
3097288 GGGGTCTATA
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
80 71 0.95
81 4 0.05
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (81 bp):
AAATATAGAATGGCAAAGTAGAGAAATAGAAGTAGAATAGTTTGTGAATGACTATCCTATCTATT
TATACTTGAGTGTCTT
Found at i:3104573 original size:2 final size:2
Alignment explanation
Indices: 3104562--3104602 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
3104552 AGAGTCATTC
*
3104562 TA TA -A TA TA TA TA GA TA TA TA TA TA TA CTA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T
3104603 CTGTTTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:3105023 original size:17 final size:20
Alignment explanation
Indices: 3104987--3105030 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 20
3104977 AATTAAAAAT
3104987 AACTATAAGTGTATATTTAA
1 AACTATAAGTGTATATTTAA
3105007 AACTATAA-T-TA-ATTTAA
1 AACTATAAGTGTATATTTAA
*
3105024 AATTATA
1 AACTATA
3105031 CGTTAGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 1 0.04
20 8 0.35
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
AACTATAAGTGTATATTTAA
Found at i:3107541 original size:22 final size:21
Alignment explanation
Indices: 3107495--3107541 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
3107485 TATAATTATT
3107495 ATTAAAAAAATAAAATAAATCA
1 ATTAAAAAAATAAAATAAA-CA
3107517 ATTAATAAAAATAAAATCAAA-A
1 ATTAA-AAAAATAAAAT-AAACA
3107539 ATT
1 ATT
3107542 TTAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
ATTAAAAAAATAAAATAAACA
Found at i:3108065 original size:17 final size:18
Alignment explanation
Indices: 3108037--3108070 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3108027 TAAAAATATA
3108037 TTATTAAATATAAACTTT
1 TTATTAAATATAAACTTT
3108055 TTATT-AATATAAACTT
1 TTATTAAATATAAACTT
3108071 ATCAAAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATTAAATATAAACTTT
Found at i:3108583 original size:21 final size:21
Alignment explanation
Indices: 3108559--3108607 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
3108549 ATATTTCATC
*
3108559 TTTTAAAACTTTTAAAGATGA
1 TTTTAAAACTTTTAAAGATAA
** *
3108580 TTTTTTATCTTTTAAAGATAA
1 TTTTAAAACTTTTAAAGATAA
3108601 TTATTAA
1 TT-TTAA
3108608 TCGTCCTCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTAAAACTTTTAAAGATAA
Found at i:3112885 original size:2 final size:2
Alignment explanation
Indices: 3112880--3112906 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3112870 AAAAACCACC
3112880 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 T
3112907 TTCACCCAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3113422 original size:2 final size:2
Alignment explanation
Indices: 3113415--3113439 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3113405 TGATCATTTA
3113415 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 A
3113440 ATGAAGAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3115117 original size:2 final size:2
Alignment explanation
Indices: 3115110--3115149 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
3115100 AATCCCTCAA
* *
3115110 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3115150 TTACTATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:3115150 original size:8 final size:8
Alignment explanation
Indices: 3115111--3115157 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
3115101 ATCCCTCAAA
*
3115111 TATATATA
1 TATATATT
*
3115119 TATATATA
1 TATATATT
3115127 TATATATAT
1 TATATAT-T
3115136 T-TATATT
1 TATATATT
3115143 TATATATT
1 TATATATT
3115151 TACTATA
1 TA-TATA
3115158 ATTAAATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 2 0.06
8 28 0.80
9 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (8 bp):
TATATATT
Found at i:3116285 original size:26 final size:26
Alignment explanation
Indices: 3116241--3116315 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
3116231 TTTTATACTA
*
3116241 TAATAT-TATATATATTTATAAAAAT
1 TAATATATATATATAATTATAAAAAT
* *
3116266 T-ATTTAATATATAAAATTAT-AAAAT
1 TAATAT-ATATATATAATTATAAAAAT
3116291 TAATATATATTATATAATTATAAAA
1 TAATATATA-TATATAATTATAAAA
3116316 TGAATTAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 3 0.08
25 10 0.25
26 24 0.60
27 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATATATATATATAATTATAAAAAT
Found at i:3116288 original size:8 final size:8
Alignment explanation
Indices: 3116256--3116316 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
3116246 TTATATATAT
3116256 TTATAAAAA
1 TTAT-AAAA
**
3116265 TTATTTAA
1 TTATAAAA
3116273 TATATAAAA
1 T-TATAAAA
3116282 TTATAAAA
1 TTATAAAA
*
3116290 TTAATATATA
1 TT-ATA-AAA
*
3116300 TTATATAA
1 TTATAAAA
3116308 TTATAAAA
1 TTATAAAA
3116316 T
1 T
3116317 GAATTAGATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
8 21 0.51
9 16 0.39
10 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
TTATAAAA
Found at i:3116697 original size:10 final size:10
Alignment explanation
Indices: 3116663--3116716 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
3116653 TTATTTTTCA
3116663 AATAAAAATT
1 AATAAAAATT
*
3116673 AA-ATTAAATT
1 AATA-AAAATT
3116683 CAATAAAAATT
1 -AATAAAAATT
*
3116694 AATAAAAACT
1 AATAAAAATT
3116704 AATTAAAAATT
1 AA-TAAAAATT
3116715 AA
1 AA
3116717 GATTTGACCG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 1 0.03
10 18 0.50
11 16 0.44
12 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAAAATT
Found at i:3117042 original size:26 final size:26
Alignment explanation
Indices: 3116992--3117045 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
3116982 ATTTTATTTA
* *
3116992 AAAAATATAAAAATGATCTAATATAT
1 AAAAATATAAAAATAATATAATATAT
* *
3117018 AAAAATATAAAAGTAATATATTATAT
1 AAAAATATAAAAATAATATAATATAT
3117044 AA
1 AA
3117046 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATATAAAAATAATATAATATAT
Found at i:3117063 original size:29 final size:31
Alignment explanation
Indices: 3117024--3117086 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
3117014 ATATAAAAAT
3117024 ATAAAAGT-A-ATATATTATATAATTTTAAA
1 ATAAAAGTAATATATATTATATAATTTTAAA
*
3117053 ATAAAATTAATATATATTATATAATTTTAAA
1 ATAAAAGTAATATATATTATATAATTTTAAA
3117084 ATA
1 ATA
3117087 GGTTAGATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 7 0.23
30 1 0.03
31 23 0.74
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (31 bp):
ATAAAAGTAATATATATTATATAATTTTAAA
Found at i:3117462 original size:21 final size:22
Alignment explanation
Indices: 3117432--3117486 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
3117422 TTATTATCTA
* **
3117432 AATT-AAAATTAAATTAAATTT
1 AATTAAAAATTAAATAAAAACT
*
3117453 AA-TAAAAATTGAATAAAAACT
1 AATTAAAAATTAAATAAAAACT
3117474 AATTAAAAATTAA
1 AATTAAAAATTAA
3117487 GATTTGAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 17 0.63
22 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AATTAAAAATTAAATAAAAACT
Found at i:3117690 original size:10 final size:10
Alignment explanation
Indices: 3117677--3117710 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3117667 AAGTTTATTA
*
3117677 AATTTTAATT
1 AATTTAAATT
3117687 AATTTAAATT
1 AATTTAAATT
*
3117697 AAATTAAATT
1 AATTTAAATT
3117707 AATT
1 AATT
3117711 ATGAAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTTAAATT
Found at i:3119503 original size:19 final size:20
Alignment explanation
Indices: 3119466--3119503 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
3119456 TAATTATATT
3119466 TAAAATATTATATATTTAAA
1 TAAAATATTATATATTTAAA
3119486 TAAAA-ATTA-ATATGTTAA
1 TAAAATATTATATAT-TTAA
3119504 TAATTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TAAAATATTATATATTTAAA
Found at i:3127162 original size:16 final size:16
Alignment explanation
Indices: 3127104--3127159 Score: 94
Period size: 16 Copynumber: 3.4 Consensus size: 16
3127094 AGATATGATC
3127104 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
*
3127120 TTTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
3127136 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
3127152 ATTATTAA
1 ATT-TTAA
3127160 TTTTTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
16 33 0.89
17 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:3127913 original size:2 final size:2
Alignment explanation
Indices: 3127901--3127940 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
3127891 TAAAACTGCC
* *
3127901 TA TA AA TA TA TA TA TA TT 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 TA TA TA TA TA
3127941 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3127945 original size:2 final size:2
Alignment explanation
Indices: 3127940--3127965 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3127930 ATATATATAT
3127940 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
3127966 TCCCACTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3128148 original size:2 final size:2
Alignment explanation
Indices: 3128141--3128171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3128131 TCTGAAGGTA
3128141 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3128172 CATGTCTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3128494 original size:15 final size:16
Alignment explanation
Indices: 3128476--3128505 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3128466 AAAACTCGAC
3128476 TTAAAT-TAAAAAATT
1 TTAAATATAAAAAATT
3128491 TTAAATATAAAAAAT
1 TTAAATATAAAAAAT
3128506 CAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATATAAAAAATT
Found at i:3128544 original size:16 final size:17
Alignment explanation
Indices: 3128483--3128537 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 17
3128473 GACTTAAATT
* *
3128483 AAAAAATTTTAAATATAA
1 AAAAAAATTTAAAT-TCA
3128501 AAAATCAAATTTAAATTCA
1 AAAA--AAATTTAAATTCA
3128520 AAAAAAATTT-AATTCA
1 AAAAAAATTTAAATTCA
3128536 AA
1 AA
3128538 TATAATTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 8 0.24
17 6 0.18
18 4 0.12
19 6 0.18
20 9 0.27
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAAATTTAAATTCA
Found at i:3129344 original size:19 final size:19
Alignment explanation
Indices: 3129316--3129355 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3129306 ATTTTTACAT
3129316 AAAAAAAAT-ATCTTTTTA
1 AAAAAAAATAATCTTTTTA
*
3129334 AAAAAATAATAATTTTTTTA
1 AAAAAA-AATAATCTTTTTA
3129354 AA
1 AA
3129356 TAAGATGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAAAAATAATCTTTTTA
Found at i:3129529 original size:32 final size:32
Alignment explanation
Indices: 3129453--3129530 Score: 77
Period size: 32 Copynumber: 2.3 Consensus size: 32
3129443 AAATAAAATC
* *
3129453 TTTTATTTAAATTTATTTTTTAATAAATTTTATT
1 TTTTATTTAAATTTA--TATTAATAAATTTAATT
* *
3129487 TTTTCCTTTAAATTTA-ATTATTAAATTTAATAT
1 TTTT-ATTTAAATTTATATTAATAAATTTAAT-T
3129520 TTTTATTTAAA
1 TTTTATTTAAA
3129531 AATTTTAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 18 0.49
33 5 0.14
34 4 0.11
35 10 0.27
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTTATTTAAATTTATATTAATAAATTTAATT
Found at i:3129632 original size:18 final size:18
Alignment explanation
Indices: 3129606--3129652 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
3129596 AAATCCATCC
*
3129606 ATATCCATATATATTGAT
1 ATATACATATATATTGAT
*
3129624 ATATACATATATATTTAT
1 ATATACATATATATTGAT
*
3129642 ATATATATATA
1 ATATACATATA
3129653 AAATCTTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATACATATATATTGAT
Found at i:3130663 original size:44 final size:44
Alignment explanation
Indices: 3130600--3130694 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
3130590 GTTGTTATAA
*
3130600 TTTCTTGGACTTGTTAATTAGCCATATTATTGTATATAATTTAT
1 TTTCTTGGACTTGTTAATTAGCCATATTATTATATATAATTTAT
*
3130644 TTTCTTGTACTTGTTAATTAGCCATATTATTATATATAATTTAT
1 TTTCTTGGACTTGTTAATTAGCCATATTATTATATATAATTTAT
3130688 TTTCTTG
1 TTTCTTG
3130695 AAAAAGATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.55
Consensus pattern (44 bp):
TTTCTTGGACTTGTTAATTAGCCATATTATTATATATAATTTAT
Found at i:3139252 original size:2 final size:2
Alignment explanation
Indices: 3139245--3139271 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3139235 TTATCCAATT
3139245 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 T
3139272 TCCTGGAAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3147851 original size:3 final size:3
Alignment explanation
Indices: 3147843--3147876 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3147833 AAGGTCTGGG
3147843 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3147877 TAGAAAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3149962 original size:18 final size:18
Alignment explanation
Indices: 3149932--3149978 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
3149922 ATTAAATTTA
*
3149932 TATTATTGTT-TTAAAATT
1 TATTATT-TTATTTAAATT
3149950 TATT-TTTTATTTAAATT
1 TATTATTTTATTTAAATT
*
3149967 TTTTATTTTATT
1 TATTATTTTATT
3149979 AATGTAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.08
17 12 0.48
18 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTATTTTATTTAAATT
Found at i:3150288 original size:22 final size:21
Alignment explanation
Indices: 3150254--3150297 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3150244 TAAGATTAAT
*
3150254 ATTATATAATAAAATAAATAAA
1 ATTATATAATAAAA-AAACAAA
* *
3150276 ATTATGTATTAAAAAAACAAA
1 ATTATATAATAAAAAAACAAA
3150297 A
1 A
3150298 AAACCTTCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
ATTATATAATAAAAAAACAAA
Found at i:3150538 original size:11 final size:10
Alignment explanation
Indices: 3150516--3150621 Score: 55
Period size: 9 Copynumber: 10.7 Consensus size: 10
3150506 AATTTTTTTA
3150516 ATATT-TAAT
1 ATATTATAAT
3150525 ATATTATAATT
1 ATATTATAA-T
*
3150536 ATATT-TAAA
1 ATATTATAAT
3150545 ATATTAT-AT
1 ATATTATAAT
* *
3150554 ATTTATATAAA
1 ATAT-TATAAT
3150565 AT-TTA-AAT
1 ATATTATAAT
3150573 ATATTAATAATTT
1 ATATT-ATAA--T
3150586 ATATTAT-AT
1 ATATTATAAT
* *
3150595 AAATTTTAAT
1 ATATTATAAT
*
3150605 TTATT-TATAT
1 ATATTATA-AT
3150615 ATATTAT
1 ATATTAT
3150622 TTTAATTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.05
9 26 0.35
10 23 0.31
11 13 0.18
12 2 0.03
13 6 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATTATAAT
Found at i:3150539 original size:20 final size:19
Alignment explanation
Indices: 3150516--3150619 Score: 66
Period size: 16 Copynumber: 5.7 Consensus size: 19
3150506 AATTTTTTTA
3150516 ATATTTAATATATTATAATT
1 ATATTTAATATATT-TAATT
*
3150536 ATATTTAAAATA-TT-A-T
1 ATATTTAATATATTTAATT
* *
3150552 ATATTTATATAAAATTTAAAT
1 ATATTTA-AT-ATATTTAATT
3150573 ATA-TTAATA-ATTTATATT
1 ATATTTAATATATTTA-ATT
3150591 ATA--TAA-AT-TTTAATT
1 ATATTTAATATATTTAATT
3150606 -TATTTATATATATT
1 ATATTTA-ATATATT
3150620 ATTTTAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
14 2 0.03
15 3 0.04
16 15 0.22
17 11 0.16
18 11 0.16
19 7 0.10
20 15 0.22
21 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTAATATATTTAATT
Found at i:3150543 original size:27 final size:28
Alignment explanation
Indices: 3150512--3150619 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 28
3150502 TTTTAATTTT
3150512 TTTAATAT-TTAATATA-TTATAATTATA
1 TTTAATATATTAATATATTTAT-ATTATA
* * *
3150539 TTTAAAATATT-ATATATTTATATAAAA
1 TTTAATATATTAATATATTTATATTATA
3150566 TTTAAATATATTAATA-ATTTATATTATA
1 TTT-AATATATTAATATATTTATATTATA
* *
3150594 --TAA-ATTTTAATTTATTTATA-TATA
1 TTTAATATATTAATATATTTATATTATA
3150618 TT
1 TT
3150620 ATTTTAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
24 11 0.17
25 9 0.14
26 1 0.02
27 19 0.29
28 23 0.35
29 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTAATATATTAATATATTTATATTATA
Found at i:3150554 original size:22 final size:20
Alignment explanation
Indices: 3150516--3150594 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
3150506 AATTTTTTTA
*
3150516 ATATTTAATATATTATAATT
1 ATATTTAAAATATTATAATT
3150536 ATATTTAAAATATTATATATT
1 ATATTTAAAATATTATA-ATT
*
3150557 -TATATAAAAT-TTA-AA-T
1 ATATTTAAAATATTATAATT
3150573 ATA-TTAATAAT-TTAT-ATT
1 ATATTTAA-AATATTATAATT
3150591 ATAT
1 ATAT
3150595 AAATTTTAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
16 4 0.08
17 10 0.20
18 5 0.10
19 3 0.06
20 25 0.50
21 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTAAAATATTATAATT
Found at i:3150614 original size:25 final size:24
Alignment explanation
Indices: 3150582--3150641 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
3150572 TATATTAATA
3150582 ATTTATATTATATAAATTTTAATTT
1 ATTTATATTATAT-AATTTTAATTT
*
3150607 ATTTATA-TATATTATTTTAATTT
1 ATTTATATTATATAATTTTAATTT
*
3150630 -TTCATATTATAT
1 ATTTATATTATAT
3150642 CTTATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 5 0.16
23 15 0.47
24 5 0.16
25 7 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTATATTATATAATTTTAATTT
Found at i:3150619 original size:29 final size:29
Alignment explanation
Indices: 3150539--3150630 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
3150529 TATAATTATA
*
3150539 TTTAAAATA-TTATATAT-TTATATAAAAT
1 TTTAATATATTTATATATATTATAT-AAAT
* *
3150567 TTAAATATATTAATAATTTATATTATATAAAT
1 TTTAATATATT--T-ATATATATTATATAAAT
* * *
3150599 TTTAATTTATTTATATATATTATTTTAAT
1 TTTAATATATTTATATATATTATATAAAT
3150628 TTT
1 TTT
3150631 TCATATTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 7 0.14
29 18 0.35
30 1 0.02
31 1 0.02
32 18 0.35
33 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTAATATATTTATATATATTATATAAAT
Found at i:3150656 original size:20 final size:21
Alignment explanation
Indices: 3150603--3150657 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
3150593 ATAAATTTTA
* *
3150603 ATTTATTTATATATATTATTTT
1 ATTTTTTTATAT-TATTATCTT
* *
3150625 AATTTTTCATATTA-TATCTT
1 ATTTTTTTATATTATTATCTT
3150645 ATTTTTTTATATT
1 ATTTTTTTATATT
3150658 CTGTAATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 16 0.59
21 2 0.07
22 9 0.33
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTTATATTATTATCTT
Found at i:3151293 original size:2 final size:2
Alignment explanation
Indices: 3151286--3151329 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
3151276 TTTATGTATG
* * *
3151286 TA TA TA TA TA CA TA TA TA TA TA TG TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3151328 TA
1 TA
3151330 ATAAGAGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3151416 original size:29 final size:30
Alignment explanation
Indices: 3151384--3151443 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
3151374 AGTTTTTAAA
* *
3151384 TTTTT-ATT-ATATTTAAGTAAATTTTTAT
1 TTTTTAATTCATATTAAAATAAATTTTTAT
3151412 TTTTTAATTCATATTAAAATAAATTTTTAT
1 TTTTTAATTCATATTAAAATAAATTTTTAT
3151442 TT
1 TT
3151444 AAATAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 5 0.18
29 3 0.11
30 20 0.71
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTAATTCATATTAAAATAAATTTTTAT
Found at i:3151787 original size:34 final size:33
Alignment explanation
Indices: 3151741--3151843 Score: 84
Period size: 34 Copynumber: 3.0 Consensus size: 33
3151731 TGAATACATA
* * *
3151741 AATATATTAAAAATT-TACATAATATAAATTATT
1 AATATATAAAAAATTATA-AAAATATAAAATATT
3151774 AATATATCAAAAAATTATAAAAATATAAAATATT
1 AATATAT-AAAAAATTATAAAAATATAAAATATT
* *
3151808 -TTATCATAATAATAATATATAAAATTATATAAATAT
1 AATAT-ATAA-AA-AAT-TATAAAAATATA-AAATAT
3151844 AATTTTAACA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
33 12 0.21
34 24 0.41
35 5 0.09
36 11 0.19
37 6 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (33 bp):
AATATATAAAAAATTATAAAAATATAAAATATT
Found at i:3152653 original size:37 final size:37
Alignment explanation
Indices: 3152595--3152684 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
3152585 GCATATCATT
*
3152595 TAATTAGAATATATAATATTAAATATAACCGT-AA-TTAAA
1 TAATTA-AA-ATATAATATTAAA-ATAA-CATAAATTTAAA
*
3152634 TAATTAAAATATAATATTAAAATAATATAAATTTAAA
1 TAATTAAAATATAATATTAAAATAACATAAATTTAAA
*
3152671 TTATTAAAATATAA
1 TAATTAAAATATAA
3152685 ATATAATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 1 0.02
36 6 0.13
37 31 0.67
38 2 0.04
39 6 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (37 bp):
TAATTAAAATATAATATTAAAATAACATAAATTTAAA
Found at i:3152658 original size:11 final size:11
Alignment explanation
Indices: 3152631--3152725 Score: 50
Period size: 11 Copynumber: 8.1 Consensus size: 11
3152621 AACCGTAATT
3152631 AAATAAT-TAA
1 AAATAATATAA
*
3152641 AATATAATATTA
1 AA-ATAATATAA
3152653 AAATAATATAA
1 AAATAATATAA
**
3152664 ATTTAAATTATTAA
1 AAAT-AA-TA-TAA
3152678 AATATAAATATAA
1 AA-AT-AATATAA
* *
3152691 TATAATATTTTAA
1 -A-AATAATATAA
*
3152704 ATATAAT-TAA
1 AAATAATATAA
3152714 AAATAATATAA
1 AAATAATATAA
3152725 A
1 A
3152726 TATATAAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
10 11 0.17
11 23 0.35
12 7 0.11
13 10 0.15
14 9 0.14
15 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATAATATAA
Found at i:3152673 original size:21 final size:21
Alignment explanation
Indices: 3152627--3152729 Score: 83
Period size: 21 Copynumber: 5.0 Consensus size: 21
3152617 ATATAACCGT
3152627 AATT-AAATAAT-TAAAATATA
1 AATTAAAATAATAT-AAATATA
*
3152647 ATATTAAAATAATATAAATTTA
1 A-ATTAAAATAATATAAATATA
*
3152669 AATTATTAA-AATATAAATAT-
1 AATTA-AAATAATATAAATATA
* * *
3152689 AA-TATAATATTTTAAATAT-
1 AATTAAAATAATATAAATATA
3152708 AATTAAAAATAATATAAATATA
1 AATT-AAAATAATATAAATATA
3152730 TAAATTATTC
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
18 3 0.04
19 13 0.19
20 4 0.06
21 30 0.45
22 16 0.24
23 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTAAAATAATATAAATATA
Found at i:3152696 original size:37 final size:35
Alignment explanation
Indices: 3152629--3152735 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 35
3152619 ATAACCGTAA
*
3152629 TTAAATAATTAAAATATAATATTAAAATAATATAAAT
1 TTAAATTATTAAAATATAATA-T-AAATAATATAAAT
3152666 TTAAATTATTAAAATATAA-AT--ATAATATAATATT
1 TTAAATTATTAAAATATAATATAAATAATATAA-A-T
3152700 TTAAATATAATTAAAA-ATAATATAAAT-ATATAAAT
1 TTAAAT-T-ATTAAAATATAATATAAATAATATAAAT
3152735 T
1 T
3152736 ATTCGACTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 16
0.78 0.01 0.20
Matches are distributed among these distances:
32 9 0.15
33 1 0.02
34 7 0.11
35 8 0.13
36 11 0.18
37 24 0.39
38 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
TTAAATTATTAAAATATAATATAAATAATATAAAT
Found at i:3154006 original size:22 final size:21
Alignment explanation
Indices: 3153976--3154017 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3153966 AAATTTATTT
* *
3153976 AAATTTTATTGTAATAATATAA
1 AAATATTATTATAA-AATATAA
3153998 AAATATTATTATAAAATATA
1 AAATATTATTATAAAATATA
3154018 TTTTAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATATTATTATAAAATATAA
Found at i:3160371 original size:12 final size:12
Alignment explanation
Indices: 3160356--3160394 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
3160346 ACTTTTTTTT
3160356 TTTAATATTATA
1 TTTAATATTATA
3160368 TTTAATATTTATA
1 TTTAATA-TTATA
*
3160381 TTAAATA-TATA
1 TTTAATATTATA
3160392 TTT
1 TTT
3160395 TGATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.25
12 7 0.29
13 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAATATTATA
Found at i:3160442 original size:22 final size:22
Alignment explanation
Indices: 3160417--3160460 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3160407 AAAATTTTTT
*
3160417 AAATATATAAAAAAATTTTAAA
1 AAATAAATAAAAAAATTTTAAA
**
3160439 AAATAAATAAATTAATTTTAAA
1 AAATAAATAAAAAAATTTTAAA
3160461 TTTTAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATAAATAAAAAAATTTTAAA
Found at i:3160444 original size:18 final size:19
Alignment explanation
Indices: 3160399--3160451 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
3160389 ATATTTTGAT
**
3160399 ATAAATATAAAATTTTTTAA
1 ATAAATA-AAAAAATTTTAA
*
3160419 ATATATAAAAAAATTTTAA
1 ATAAATAAAAAAATTTTAA
*
3160438 A-AAATAAATAAATT
1 ATAAATAAAAAAATT
3160452 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 11 0.39
19 11 0.39
20 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAATAAAAAAATTTTAA
Found at i:3161400 original size:2 final size:2
Alignment explanation
Indices: 3161389--3161428 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3161379 TCCGTATCCT
3161389 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3161429 TCATTTCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3166860 original size:2 final size:2
Alignment explanation
Indices: 3166853--3166880 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3166843 TCTTGTTTCT
3166853 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3166881 AATTTCTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3170622 original size:24 final size:24
Alignment explanation
Indices: 3170558--3170627 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
3170548 TACATTAACG
* *
3170558 TAAATTTAAATGAATTTAATATTTTT
1 TAAATTT-AATTAATTT-ATATTTGT
*
3170584 TAATTATTTATTTAATTTATATTTGT
1 TAA--ATTTAATTAATTTATATTTGT
3170610 TAAATTTAATTAATTTAT
1 TAAATTTAATTAATTTAT
3170628 TAAATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 14 0.37
26 13 0.34
27 7 0.18
28 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TAAATTTAATTAATTTATATTTGT
Found at i:3170630 original size:18 final size:17
Alignment explanation
Indices: 3170582--3170637 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 17
3170572 TTTAATATTT
*
3170582 TTTAATTATTTATTTAA
1 TTTAATTATTTATTAAA
*
3170599 TTT-A-TATTTGTTAAA
1 TTTAATTATTTATTAAA
3170614 TTTAATTAATTTATTAAA
1 TTTAATT-ATTTATTAAA
3170632 TTTAAT
1 TTTAAT
3170638 GATATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 12 0.36
16 2 0.06
17 4 0.12
18 15 0.45
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTAATTATTTATTAAA
Found at i:3170765 original size:11 final size:11
Alignment explanation
Indices: 3170751--3170787 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
3170741 TTAAATTTGA
3170751 TAAATATAAAT
1 TAAATATAAAT
* *
3170762 TAAATAAAAAA
1 TAAATATAAAT
3170773 TAAATATAAAT
1 TAAATATAAAT
3170784 TAAA
1 TAAA
3170788 CAAAAAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:3170777 original size:22 final size:24
Alignment explanation
Indices: 3170749--3170809 Score: 90
Period size: 22 Copynumber: 2.6 Consensus size: 24
3170739 TTTTAAATTT
*
3170749 GATAAATATAAATTAAA-TAAAAA
1 GATAAATATAAATTAAACAAAAAA
3170772 -ATAAATATAAATTAAACAAAAAA
1 GATAAATATAAATTAAACAAAAAA
*
3170795 GATAAACATAAATTA
1 GATAAATATAAATTA
3170810 TGAAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 16 0.47
23 5 0.15
24 13 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (24 bp):
GATAAATATAAATTAAACAAAAAA
Found at i:3170787 original size:18 final size:18
Alignment explanation
Indices: 3170756--3170800 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
3170746 TTTGATAAAT
3170756 ATAAAT-TAAATAAA-AA
1 ATAAATATAAATAAACAA
3170772 ATAAATATAAATTAAACAA
1 ATAAATATAAA-TAAACAA
*
3170791 A-AAAGATAAA
1 ATAAATATAAA
3170801 CATAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 12 0.48
19 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
ATAAATATAAATAAACAA
Found at i:3170816 original size:24 final size:22
Alignment explanation
Indices: 3170749--3170818 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 22
3170739 TTTTAAATTT
3170749 GATAAATATAAATTAAATAAAAA
1 GATAAATATAAATTAAA-AAAAA
3170772 -ATAAATATAAATTAAACAAAAAA
1 GATAAATATAAATT-AA-AAAAAA
*
3170795 GATAAACATAAATTATGAAAAAAA
1 GATAAATATAAATTA--AAAAAAA
3170819 CCATGATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 13 0.32
23 8 0.20
24 19 0.46
25 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (22 bp):
GATAAATATAAATTAAAAAAAA
Found at i:3173532 original size:2 final size:2
Alignment explanation
Indices: 3173527--3173574 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
3173517 TTTCAGCTTC
*
3173527 CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3173569 CT CT CT
1 CT CT CT
3173575 ATATATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:3173579 original size:2 final size:2
Alignment explanation
Indices: 3173574--3173599 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3173564 TCTCTCTCTC
3173574 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
3173600 AATGCCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3177289 original size:2 final size:2
Alignment explanation
Indices: 3177282--3177316 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3177272 GACTAACCAT
3177282 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3177317 TCTTCATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3178217 original size:60 final size:62
Alignment explanation
Indices: 3178153--3178271 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 62
3178143 CAGTTTGTAA
* * * *
3178153 GAATTAATAAAAAACTGA-AATG-ATGAGATATTGGTCGGTTTAGGTTGGTATGATTGATAT
1 GAATTAATAAAAAAATGATAATGAATAAGATATTGATCGGTTTAGGTTAGTATGATTGATAT
* * * *
3178213 GAATTGATAAAAAAATTATATTGATATAAGATATTGATCGGTTTATGTTAGTATGATTG
1 GAATTAATAAAAAAATGATAATGA-ATAAGATATTGATCGGTTTAGGTTAGTATGATTG
3178272 TTTACAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
60 15 0.31
61 3 0.06
63 30 0.62
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (62 bp):
GAATTAATAAAAAAATGATAATGAATAAGATATTGATCGGTTTAGGTTAGTATGATTGATAT
Found at i:3186280 original size:2 final size:2
Alignment explanation
Indices: 3186273--3186298 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3186263 TAAATTTAAC
3186273 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
3186299 GAATAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3188110 original size:2 final size:2
Alignment explanation
Indices: 3188103--3188128 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3188093 ATGTAGCATA
3188103 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
3188129 GTAAGCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3191921 original size:21 final size:21
Alignment explanation
Indices: 3191897--3191948 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3191887 ATATACTTAA
3191897 AATTAAAATAAATAAAAAAAT
1 AATTAAAATAAATAAAAAAAT
* *
3191918 AATTAATAAT-ATTTAAAAAAT
1 AATTAA-AATAAATAAAAAAAT
*
3191939 TATTAAAATA
1 AATTAAAATA
3191949 TTAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTAAAATAAATAAAAAAAT
Found at i:3191934 original size:31 final size:31
Alignment explanation
Indices: 3191898--3191968 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
3191888 TATACTTAAA
3191898 ATTAAAATAAATAAAAAAATAATT-A-ATAAT
1 ATTAAAATAAATAAAAAAAT-ATTAATATAAT
* **
3191928 ATTTAAAA-AATTATTAAAATATTAATATAAT
1 A-TTAAAATAAATAAAAAAATATTAATATAAT
3191959 ATTAAAATAA
1 ATTAAAATAA
3191969 CATGTGATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
29 3 0.09
30 17 0.50
31 14 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
ATTAAAATAAATAAAAAAATATTAATATAAT
Found at i:3191952 original size:19 final size:20
Alignment explanation
Indices: 3191911--3191967 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
3191901 AAAATAAATA
*
3191911 AAAAAATAATTAATAATATTT
1 AAAAAATTATTAA-AATATTT
3191932 AAAAAATTATTAAAATA-TT
1 AAAAAATTATTAAAATATTT
*
3191951 AATATAA-TATTAAAATA
1 AA-AAAATTATTAAAATA
3191968 ACATGTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.42
20 7 0.21
21 12 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTAAAATATTT
Found at i:3192116 original size:20 final size:20
Alignment explanation
Indices: 3192087--3192125 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3192077 GCATTATATA
*
3192087 AATATTTTAATAATTTTTTT
1 AATATCTTAATAATTTTTTT
*
3192107 AATATCTTAATTATTTTTT
1 AATATCTTAATAATTTTTT
3192126 ATTTATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
AATATCTTAATAATTTTTTT
Found at i:3192157 original size:15 final size:15
Alignment explanation
Indices: 3192139--3192188 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
3192129 TATTATAATT
3192139 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
3192154 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
*
3192168 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
3192183 TTAAAA
1 TTAAAA
3192189 TATCTTTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:3192159 original size:14 final size:14
Alignment explanation
Indices: 3192142--3192191 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
3192132 TATAATTTTA
3192142 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
3192156 AAAATATTAAATTT
1 AAAATATAAAAATT
3192170 AATAATATAAAAATT
1 AA-AATATAAAAATT
3192185 AAAATAT
1 AAAATAT
3192192 CTTTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:3192176 original size:29 final size:31
Alignment explanation
Indices: 3192129--3192191 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 31
3192119 ATTTTTTATT
3192129 TATTATAATTTTAAAAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
*
3192160 TATTA-AA-TTTAATAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
3192189 TAT
1 TAT
3192192 CTTTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 24 0.77
30 2 0.06
31 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATTAAAA
Found at i:3192455 original size:11 final size:11
Alignment explanation
Indices: 3192439--3192463 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3192429 CTGATTTTGA
3192439 TAAATTTAATT
1 TAAATTTAATT
3192450 TAAATTTAATT
1 TAAATTTAATT
3192461 TAA
1 TAA
3192464 TTAAACGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:3193949 original size:34 final size:34
Alignment explanation
Indices: 3193885--3194067 Score: 260
Period size: 34 Copynumber: 5.4 Consensus size: 34
3193875 CATTTGTCGG
* *
3193885 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
3193918 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
3193952 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
3193986 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
3194020 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
3194054 TGTTGATTAAATGG
1 TGTTGATTAAATGG
3194068 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 11 0.08
34 121 0.92
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:3198522 original size:34 final size:34
Alignment explanation
Indices: 3198456--3198640 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
3198446 AAGTGGGAGA
* *
3198456 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
3198489 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
3198523 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
3198557 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
3198591 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
3198625 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
3198641 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:3199424 original size:23 final size:23
Alignment explanation
Indices: 3199387--3199453 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
3199377 ATTAAAATTT
*
3199387 ATTTAAATAATAAATATTATTTAA
1 ATTT-AATTATAAATATTATTTAA
*
3199411 ATTTAATTATAAATATTAATATAA
1 ATTTAATTATAAATATT-ATTTAA
*
3199435 ATTT--TTTTAAATATTATTT
1 ATTTAATTATAAATATTATTT
3199454 TCAATAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 3 0.08
22 10 0.26
23 12 0.32
24 13 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTAATTATAAATATTATTTAA
Found at i:3199454 original size:12 final size:12
Alignment explanation
Indices: 3199397--3199459 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
3199387 ATTTAAATAA
3199397 TAAATATTA-TT
1 TAAATATTATTT
*
3199408 TAAAT-TTAATTA
1 TAAATATT-ATTT
* *
3199420 TAAATATTAATA
1 TAAATATTATTT
3199432 TAAAT-TT-TTT
1 TAAATATTATTT
3199442 TAAATATTATTT
1 TAAATATTATTT
*
3199454 TCAATA
1 TAAATA
3199460 ATAAAATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 8 0.19
11 10 0.24
12 22 0.52
13 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATATTATTT
Found at i:3200458 original size:12 final size:13
Alignment explanation
Indices: 3200443--3200479 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
3200433 AAAATTTACT
3200443 TAAAAAATATA-A
1 TAAAAAATATATA
3200455 TAAAAAAT-TATA
1 TAAAAAATATATA
3200467 T-AAAAATATATA
1 TAAAAAATATATA
3200479 T
1 T
3200480 TTTTTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATATATA
Found at i:3200472 original size:25 final size:25
Alignment explanation
Indices: 3200431--3200478 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3200421 ATTTTTTTAA
*
3200431 AAAAAATTTACTTAAAAAATATAAT
1 AAAAAATTTACTAAAAAAATATAAT
*
3200456 AAAAAATTATA-TAAAAATATATA
1 AAAAAATT-TACTAAAAAAATATA
3200479 TTTTTTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAAATTTACTAAAAAAATATAAT
Found at i:3202884 original size:40 final size:40
Alignment explanation
Indices: 3202840--3202920 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
3202830 ATTCTGAAAA
3202840 AAAAAATGTGACCATCTATTAGTAATCAACCCCATCAGTC
1 AAAAAATGTGACCATCTATTAGTAATCAACCCCATCAGTC
*
3202880 AAAAAATGTGACCATCTATTAGTAATCAACCTCATCAGTC
1 AAAAAATGTGACCATCTATTAGTAATCAACCCCATCAGTC
3202920 A
1 A
3202921 TGACAAGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (40 bp):
AAAAAATGTGACCATCTATTAGTAATCAACCCCATCAGTC
Found at i:3220373 original size:2 final size:2
Alignment explanation
Indices: 3220366--3220412 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
3220356 TCTGGATGAC
*
3220366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3220408 TA TA T
1 TA TA T
3220413 CTGTTAGGCG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3223433 original size:12 final size:13
Alignment explanation
Indices: 3223411--3223439 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3223401 CCCTTTTTAA
3223411 TTTTCTTTTT-CT
1 TTTTCTTTTTCCT
3223423 TTTTCTTTTTCCT
1 TTTTCTTTTTCCT
3223436 TTTT
1 TTTT
3223440 TTCCCAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTCCT
Found at i:3224803 original size:16 final size:16
Alignment explanation
Indices: 3224772--3224803 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
3224762 GGAAGAATTG
3224772 AAAAGCATAAAGAAAA
1 AAAAGCATAAAGAAAA
3224788 AAAAG-ATAAAGAAAA
1 AAAAGCATAAAGAAAA
3224803 A
1 A
3224804 CTTAAACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAGCATAAAGAAAA
Found at i:3230546 original size:29 final size:29
Alignment explanation
Indices: 3230513--3230568 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
3230503 TTGCTTATTC
* *
3230513 ATAAAGCAATGGTGCACAGTTTTAAGATG
1 ATAAAGAAATGGTCCACAGTTTTAAGATG
*
3230542 ATAAAGAAATGGTCCACATTTTTAAGA
1 ATAAAGAAATGGTCCACAGTTTTAAGA
3230569 AGTATCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (29 bp):
ATAAAGAAATGGTCCACAGTTTTAAGATG
Found at i:3236910 original size:13 final size:14
Alignment explanation
Indices: 3236887--3236915 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3236877 ATTTGTTGAA
3236887 TTTATAATATTATT
1 TTTATAATATTATT
3236901 TTTA-AATATTATT
1 TTTATAATATTATT
3236914 TT
1 TT
3236916 AAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATAATATTATT
Found at i:3238149 original size:26 final size:27
Alignment explanation
Indices: 3238108--3238164 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
3238098 CACTCACATC
3238108 TTCTCTTTTCTTCTTAAATCTTTGTTA
1 TTCTCTTTTCTTCTTAAATCTTTGTTA
*
3238135 TTCTTTTTTC-TCTTAAATCTTTGTTA
1 TTCTCTTTTCTTCTTAAATCTTTGTTA
3238161 TTCT
1 TTCT
3238165 ATCTGGTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.14, C:0.18, G:0.04, T:0.65
Consensus pattern (27 bp):
TTCTCTTTTCTTCTTAAATCTTTGTTA
Found at i:3239439 original size:15 final size:15
Alignment explanation
Indices: 3239421--3239449 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3239411 GATTTTCTTT
3239421 AAAATTCTTTTTATA
1 AAAATTCTTTTTATA
3239436 AAAATTCTTTTTAT
1 AAAATTCTTTTTAT
3239450 TTGAGTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
AAAATTCTTTTTATA
Found at i:3242670 original size:16 final size:15
Alignment explanation
Indices: 3242627--3242668 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
3242617 ATAATATATT
* *
3242627 TATA-TAAATTATAT
1 TATATTAAATTTTAA
3242641 TATATTAAATTTTAA
1 TATATTAAATTTTAA
*
3242656 TATATTTAATTTT
1 TATATTAAATTTT
3242669 TATGTCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTAAATTTTAA
Found at i:3249725 original size:2 final size:2
Alignment explanation
Indices: 3249718--3249755 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3249708 ATTAGTAAGT
3249718 TC TC TC TC TC TC TC TC TC TC 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 TC TC
3249756 AAACCGTCCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3251070 original size:31 final size:29
Alignment explanation
Indices: 3251018--3251089 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
3251008 ATATATAATT
*
3251018 TATTTTAAAATTTATCGTAAGATTAA-TATAA
1 TATTTTACAATTTATCGTAAGA--AATTAT-A
*
3251049 TATTTTACTAATTTAT-TTAAGAAATTATA
1 TATTTTAC-AATTTATCGTAAGAAATTATA
3251078 TATTTTACAATT
1 TATTTTACAATT
3251090 GATTGATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 4 0.11
29 11 0.30
30 3 0.08
31 12 0.32
32 7 0.19
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (29 bp):
TATTTTACAATTTATCGTAAGAAATTATA
Found at i:3255297 original size:16 final size:15
Alignment explanation
Indices: 3255272--3255303 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
3255262 GGGACAAATG
3255272 GCATCTTTAGGAGTT
1 GCATCTTTAGGAGTT
3255287 GCATACTTTAGGAGTT
1 GCAT-CTTTAGGAGTT
3255303 G
1 G
3255304 TGCTAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (15 bp):
GCATCTTTAGGAGTT
Found at i:3260716 original size:2 final size:2
Alignment explanation
Indices: 3260704--3260748 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
3260694 ATTGGGAAAT
* *
3260704 AC AC AC GC AC AC AC AC AC AC AC GC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
3260746 AC A
1 AC A
3260749 TATATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.49, G:0.04, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3261786 original size:2 final size:2
Alignment explanation
Indices: 3261779--3261807 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3261769 TTTTCCTTCT
3261779 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
3261808 GTGTGTGTGT
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:3261812 original size:2 final size:2
Alignment explanation
Indices: 3261807--3261847 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3261797 TATATATATA
3261807 TG TG TG TG TG TG TG 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 TG TG TG TG TG TG TG T
3261848 ATGTATATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:3269075 original size:17 final size:16
Alignment explanation
Indices: 3269055--3269106 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
3269045 ATTTTATTAA
3269055 TATTTTTATAAAATAAT
1 TATTTTTA-AAAATAAT
3269072 TATTTTTAAAATATTAAT
1 TATTTTTAAAA-A-TAAT
3269090 TA-TTTTAAAAA-AAT
1 TATTTTTAAAAATAAT
3269104 TAT
1 TAT
3269107 AAATCACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.16
16 4 0.12
17 17 0.53
18 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTTTAAAAATAAT
Found at i:3269089 original size:18 final size:18
Alignment explanation
Indices: 3269049--3269105 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
3269039 TTAATTATTT
3269049 TATTAA-TATTTTTATAAA
1 TATTAATTATTTTTA-AAA
3269067 -A-TAATTATTTTTAAAA
1 TATTAATTATTTTTAAAA
*
3269083 TATTAATTATTTTAAAAA
1 TATTAATTATTTTTAAAA
*
3269101 AATTA
1 TATTA
3269106 TAAATCACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.18
17 10 0.29
18 18 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAATTATTTTTAAAA
Found at i:3271682 original size:3 final size:3
Alignment explanation
Indices: 3271674--3271727 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
3271664 TTCTCAAAAG
3271674 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3271722 TAA TAA
1 TAA TAA
3271728 CATTAGCATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3272556 original size:2 final size:2
Alignment explanation
Indices: 3272549--3272581 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3272539 GACAACATCA
3272549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3272582 CACAACACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3273517 original size:14 final size:13
Alignment explanation
Indices: 3273493--3273552 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 13
3273483 CTAACATAAA
3273493 TATATTATATTATT
1 TATATT-TATTATT
3273507 TATAATTTA-T-TT
1 TAT-ATTTATTATT
3273519 TATATTTATTA--
1 TATATTTATTATT
*
3273530 TATATTT-TTATA
1 TATATTTATTATT
3273542 TATATTTATTA
1 TATATTTATTA
3273553 AATATGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
10 3 0.08
11 12 0.30
12 13 0.32
13 4 0.10
14 5 0.12
15 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TATATTTATTATT
Found at i:3273518 original size:11 final size:12
Alignment explanation
Indices: 3273498--3273551 Score: 64
Period size: 11 Copynumber: 4.8 Consensus size: 12
3273488 ATAAATATAT
3273498 TATA-TTATTTA
1 TATATTTATTTA
3273509 TA-ATTTATTT-
1 TATATTTATTTA
3273519 TATATTTA-TTA
1 TATATTTATTTA
3273530 TATATTT-TTATA
1 TATATTTATT-TA
3273542 TATATTTATT
1 TATATTTATT
3273552 AAATATGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 5 0.14
11 21 0.57
12 9 0.24
13 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATTTATTTA
Found at i:3273521 original size:21 final size:19
Alignment explanation
Indices: 3273497--3273550 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
3273487 CATAAATATA
*
3273497 TTATATTATTTATAATTTATT
1 TTATATTATTTAT-ATAT-TT
3273518 TTATATT-TATTATATATTT
1 TTATATTAT-TTATATATTT
3273537 TTATATATATTTAT
1 TTATAT-TATTTAT
3273551 TAAATATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 8 0.28
20 9 0.31
21 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATTATTTATATATTT
Found at i:3273540 original size:19 final size:18
Alignment explanation
Indices: 3273492--3273547 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
3273482 CCTAACATAA
* *
3273492 ATATATTATATTATTTATA
1 ATATATTTTA-TATTTATT
*
3273511 ATTTATTTTATATTTATT
1 ATATATTTTATATTTATT
*
3273529 ATATATTTTTATATATATT
1 ATATA-TTTTATATTTATT
3273548 TATTAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATATTTTATATTTATT
Done.