Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 207 of 207
Found at i:62484354 original size:240 final size:237
Alignment explanation
Indices: 62483777--62484364 Score: 659
Period size: 240 Copynumber: 2.5 Consensus size: 237
62483767 CGGAATTTAC
* * * *
62483777 AATGAGATTGTTTAAAAAAACATCTTAAATGTGTGGTTCTAGACATTATGTAAAAAAAAACAG--
1 AATGAGATTGTTCAAAAAAA-ATCTTAAATGGGTGGTTCTAGACATTGTGTAAAAAAGAACAGAT
* * * *
62483840 ATGATTAGAATTTATAAAGAGATTGTTC-AAAAAAAATCTTGAATGCGTGGTTCAAGATATTATG
65 ATGATCAGAATCTATAATGAGATTGTTCAAAAAAAAATCTTGAAT--GTGGTTCAAGACATTATG
* * * * *
62483904 TAAAAAAAAACAGATATGATTAAAATTTATAATTAGATTGTTCAAAAAATAATCTTAAATGGGTG
128 TAAAAAAAAACAGATATGATCAAAATCTATAATGAGATTGTTAAAAAAAAAATCTTAAATGGGTG
* * * *
62483969 GTTCTTCTAGGCATTGTGTCAAAAGAACATATATGATCAGAACTTAT
193 G-T-TTCTAGCCATTGTGTCAAAAGAACAGATATGATCAAAACCTAT
* * * * *
62484016 AATAAGATTGTTCAAAAAAAATCTTAAATGGATGGTTCTAGTCATTGTGTCAAAAAGAGCAGATA
1 AATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCTAGACATTGTGTAAAAAAGAACAGATA
* * * * * * * * * * *
62484081 TGATCAAAACCTATAATAATATTATTAAAAAAAAAACTCTTGAAT-TTGTTCTAGGCATTGTGTC
66 TGATCAGAATCTATAATGAGATTGTTCAAAAAAAAA-TCTTGAATGTGGTTCAAGACATTATGTA
* * *
62484145 AAAAAATACATATATGATCAGAATCTATAATGAGATTGTTGAAAAAAAAAATCTTAAATGGGTGG
130 AAAAAAAACAGATATGATCAAAATCTATAATGAGATTGTT-AAAAAAAAAATCTTAAATGGGTGG
*
62484210 -TTCTAGCCATTGTGTTAAAA-ATAGCAGATATGATCAAAACCTAT
194 TTTCTAGCCATTGTGTCAAAAGA-A-CAGATATGATCAAAACCTAT
* *
62484254 AATGAGATTGTTCAAAAAAAATATCTTAAATGGGTGATTCTAGACGTTGTGTAAAAAAGAACAGA
1 AATGAGATTGTTC-AAAAAAA-ATCTTAAATGGGTGGTTCTAGACATTGTGTAAAAAAGAACAGA
* *
62484319 TATGATCAGAATCTATGATGAGATTGTTC-AAAAAAAATCTTAAATG
64 TATGATCAGAATCTATAATGAGATTGTTCAAAAAAAAATCTTGAATG
62484365 AGTGGTATGA
Statistics
Matches: 287, Mismatches: 52, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
236 1 0.00
237 19 0.07
238 71 0.25
239 80 0.28
240 100 0.35
241 8 0.03
242 8 0.03
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (237 bp):
AATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCTAGACATTGTGTAAAAAAGAACAGATA
TGATCAGAATCTATAATGAGATTGTTCAAAAAAAAATCTTGAATGTGGTTCAAGACATTATGTAA
AAAAAAACAGATATGATCAAAATCTATAATGAGATTGTTAAAAAAAAAATCTTAAATGGGTGGTT
TCTAGCCATTGTGTCAAAAGAACAGATATGATCAAAACCTAT
Found at i:62486952 original size:20 final size:22
Alignment explanation
Indices: 62486906--62486954 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
62486896 TAAAAAAATT
*
62486906 AAAAATTATAAAGATATTCAAA
1 AAAAATTATAAAGATATCCAAA
62486928 AAAAATTAT-AAGA-ATCCATAA
1 AAAAATTATAAAGATATCCA-AA
62486949 AAAAAT
1 AAAAAT
62486955 CAGCATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
22 9 0.36
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAATTATAAAGATATCCAAA
Found at i:62497046 original size:22 final size:21
Alignment explanation
Indices: 62496995--62497049 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
62496985 ATATATAAAA
62496995 TTTTAATAAATATAAAAAATAT
1 TTTTAA-AAATATAAAAAATAT
* *
62497017 TAAATTAAAAATATAAATATATAT
1 T--TTTAAAAATATAAA-AAATAT
62497041 TTTTAAAAA
1 TTTTAAAAA
62497050 AATAGGCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 8 0.30
23 9 0.33
24 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAATATAAAAAATAT
Found at i:62497315 original size:30 final size:31
Alignment explanation
Indices: 62497240--62497316 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
62497230 AAAAACTTGC
* *
62497240 TTAAAATTTTAATTAGGTCCTCTCAAAATTT
1 TTAAAATTTTAATTACGTCCTCTCAAAAGTT
* *
62497271 TTAAAAATTCTAATTACG-CCT-TCCAAAGGTT
1 TT-AAAATTTTAATTACGTCCTCT-CAAAAGTT
62497302 TTAAAATTTTAATTA
1 TTAAAATTTTAATTA
62497317 TATCCTTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.33
31 13 0.33
32 13 0.33
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (31 bp):
TTAAAATTTTAATTACGTCCTCTCAAAAGTT
Found at i:62497324 original size:31 final size:31
Alignment explanation
Indices: 62497240--62497324 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
62497230 AAAAACTTGC
* *
62497240 TTAAAATTTTAATTAGGTCC-TCTCAAAATTT
1 TTAAAATTTTAATTA-ATCCTTCTCAAAAGTT
* ** *
62497271 TTAAAAATTCTAATTACGCCTTC-CAAAGGTT
1 TT-AAAATTTTAATTAATCCTTCTCAAAAGTT
62497302 TTAAAATTTTAATTATATCCTTC
1 TTAAAATTTTAATTA-ATCCTTC
62497325 AAAATTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
30 12 0.28
31 17 0.40
32 14 0.33
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (31 bp):
TTAAAATTTTAATTAATCCTTCTCAAAAGTT
Found at i:62502960 original size:16 final size:16
Alignment explanation
Indices: 62502939--62502978 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
62502929 TCAACTTATT
62502939 AGGCCCAAGCCCAACA
1 AGGCCCAAGCCCAACA
*
62502955 AGGCCCAAGCCCAATA
1 AGGCCCAAGCCCAACA
62502971 AGGCCCAA
1 AGGCCCAA
62502979 ATATATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.40, G:0.20, T:0.03
Consensus pattern (16 bp):
AGGCCCAAGCCCAACA
Found at i:62507202 original size:2 final size:2
Alignment explanation
Indices: 62507195--62507221 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62507185 ACGTTGTAAA
62507195 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
62507222 AACTATTTTG
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:62508353 original size:37 final size:38
Alignment explanation
Indices: 62508298--62508374 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
62508288 GATCCAAGTT
* * *
62508298 TTCAGAGGGAATTAATGAGATGCATACATGT-GGGGTA
1 TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
*
62508335 TTCAAAGGGAAATAATGAGATGTATACATGTCGGAGTA
1 TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
62508373 TT
1 TT
62508375 ATGTGGGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (38 bp):
TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
Found at i:62513406 original size:10 final size:10
Alignment explanation
Indices: 62513391--62513446 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 10
62513381 TTTAAAATAC
62513391 TTTTTTAAAA
1 TTTTTTAAAA
62513401 TTTTTTAAAA
1 TTTTTTAAAA
62513411 -TTTTT-AAA
1 TTTTTTAAAA
62513419 TTTTTTAAAAA
1 TTTTTT-AAAA
62513430 TACTTTTT-AAA
1 T--TTTTTAAAA
62513441 TTTTTT
1 TTTTTT
62513447 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.07
9 15 0.37
10 10 0.24
11 8 0.20
13 5 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:62513430 original size:11 final size:11
Alignment explanation
Indices: 62513380--62513450 Score: 53
Period size: 13 Copynumber: 6.5 Consensus size: 11
62513370 AATTTTTTAC
62513380 TTTTAAAATACTT
1 TTTTAAAA-A-TT
62513393 TTTT-AAAATT
1 TTTTAAAAATT
62513403 TTTT-AAAA-T
1 TTTTAAAAATT
62513412 TTTT--AAATT
1 TTTTAAAAATT
62513421 TTTTAAAAATACT
1 TTTTAAAAAT--T
**
62513434 TTTTAAATTTT
1 TTTTAAAAATT
62513445 TTTTAA
1 TTTTAA
62513451 TTTTAAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
8 3 0.06
9 10 0.20
10 10 0.20
11 12 0.24
12 3 0.06
13 13 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAAATT
Found at i:62513465 original size:11 final size:11
Alignment explanation
Indices: 62513380--62513450 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 11
62513370 AATTTTTTAC
62513380 TTTTAAAATACTT
1 TTTTAAAATA--T
62513393 TTTTAAAAT-T
1 TTTTAAAATAT
62513403 TTTT-AAA-AT
1 TTTTAAAATAT
62513412 TTTT-AAAT-T
1 TTTTAAAATAT
62513421 TTTTAAAAATACT
1 TTTT-AAAATA-T
* *
62513434 TTTTAAATTTT
1 TTTTAAAATAT
62513445 TTTTAA
1 TTTTAA
62513451 TTTTAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
9 16 0.32
10 5 0.10
11 11 0.22
12 4 0.08
13 14 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:62513466 original size:18 final size:19
Alignment explanation
Indices: 62513433--62513473 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
62513423 TTAAAAATAC
*
62513433 TTTTTAAAT-TTTTTTTAA
1 TTTTAAAATATTTTTTTAA
62513451 TTTTAAAATATTTTTTTAA
1 TTTTAAAATATTTTTTTAA
62513470 TTTT
1 TTTT
62513474 TGTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAAAATATTTTTTTAA
Found at i:62513466 original size:42 final size:41
Alignment explanation
Indices: 62513380--62513465 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
62513370 AATTTTTTAC
*
62513380 TTTTAAAATACTTTTTTAAAATTTTTTAAAATTTTTAAATT
1 TTTTAAAATACTTTTTTAAAATTTTTTAAAATTTTAAAATT
**
62513421 TTTTAAAAATAC-TTTTT-AAATTTTTTTTAATTTTAAAATAT
1 TTTT-AAAATACTTTTTTAAAATTTTTTAAAATTTTAAAAT-T
62513462 TTTT
1 TTTT
62513466 TTAATTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 19 0.47
41 14 0.35
42 7 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAAATTTTTTAAAATTTTAAAATT
Found at i:62513483 original size:31 final size:31
Alignment explanation
Indices: 62513401--62513492 Score: 100
Period size: 30 Copynumber: 3.0 Consensus size: 31
62513391 TTTTTTAAAA
* *
62513401 TTTTTTAAA-ATTTTTAAATTTTTTAAAA-AT
1 TTTTTTAAATTTTTTTTAA-TTTTTAAAATAT
*
62513431 ACTTTTTAAATTTTTTTTAA-TTTTAAAATAT
1 -TTTTTTAAATTTTTTTTAATTTTTAAAATAT
*
62513462 TTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTTTAAATTTT-TTTTAATTTTTAAAATA
62513493 AATTTTTGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 19 0.37
31 16 0.31
32 17 0.33
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
TTTTTTAAATTTTTTTTAATTTTTAAAATAT
Found at i:62529303 original size:22 final size:22
Alignment explanation
Indices: 62529263--62529304 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62529253 AATTTAAAAA
**
62529263 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAAATTTTTTT
62529285 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
62529305 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTTT
Found at i:62543318 original size:15 final size:16
Alignment explanation
Indices: 62543293--62543324 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
62543283 CGGTAGCAGC
62543293 ACTGTTCGAAACCGCT
1 ACTGTTCGAAACCGCT
62543309 ACTG-TCGAAACCGCT
1 ACTGTTCGAAACCGCT
62543324 A
1 A
62543325 TTATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (16 bp):
ACTGTTCGAAACCGCT
Found at i:62547065 original size:16 final size:17
Alignment explanation
Indices: 62547029--62547068 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
62547019 TCGATACTTC
62547029 ATTGATCGACCATGGCG
1 ATTGATCGACCATGGCG
62547046 -TTGATCGA-C-TGGTCG
1 ATTGATCGACCATGG-CG
62547061 ATTGATCG
1 ATTGATCG
62547069 GATTCAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 3 0.14
16 15 0.71
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (17 bp):
ATTGATCGACCATGGCG
Found at i:62555070 original size:22 final size:22
Alignment explanation
Indices: 62555045--62555089 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
62555035 AATAATAAAA
62555045 ATATATTTTTAT-ATTAATATTT
1 ATATATTTTTATAATTAA-ATTT
62555067 ATATATTTTTATAATTAAATTT
1 ATATATTTTTATAATTAAATTT
62555089 A
1 A
62555090 AATAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATTTTTATAATTAAATTT
Found at i:62556617 original size:10 final size:11
Alignment explanation
Indices: 62556588--62556634 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
62556578 AAAAAAATGT
*
62556588 TAAAATTTATA
1 TAAAAATTATA
62556599 TATAAAATTAT-
1 TA-AAAATTATA
62556610 TAAAAATTATA
1 TAAAAATTATA
*
62556621 TAAAGATATATA
1 TAAAAAT-TATA
62556633 TA
1 TA
62556635 GGCGGGCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 8 0.26
11 10 0.32
12 13 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:62567279 original size:15 final size:15
Alignment explanation
Indices: 62567259--62567291 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
62567249 CTTGAAAGGC
62567259 ATTCTCAATATAATA
1 ATTCTCAATATAATA
*
62567274 ATTCTCAATATACTA
1 ATTCTCAATATAATA
62567289 ATT
1 ATT
62567292 TATAGAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTCTCAATATAATA
Found at i:62570031 original size:31 final size:31
Alignment explanation
Indices: 62569988--62570055 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
62569978 TTGCAATTTG
* *
62569988 GTCATTGAACTATTCAGAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
*
62570019 GTCACTGAACTATTCAAAAGTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
62570050 GTCACT
1 GTCACT
62570056 ACGATGGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:62570534 original size:31 final size:30
Alignment explanation
Indices: 62570496--62570566 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 30
62570486 CTCATATATG
*
62570496 AACTTTGATTCAATGTGCAATT-TAATACAT-A
1 AACTTTGATT--ATGTGCAATTAT-ACACATGA
*
62570527 AACTTTGATTTTGTGCAATTATACACATGA
1 AACTTTGATTATGTGCAATTATACACATGA
62570557 AACTTTGATT
1 AACTTTGATT
62570567 GTGTTCAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 14 0.39
30 12 0.33
31 10 0.28
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (30 bp):
AACTTTGATTATGTGCAATTATACACATGA
Found at i:62570554 original size:29 final size:30
Alignment explanation
Indices: 62570509--62570566 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
62570499 TTTGATTCAA
*
62570509 TGTGCAATTTAATACAT-AAACTTTGATTT
1 TGTGCAATTTAACACATGAAACTTTGATTT
62570538 TGTGCAA-TTATACACATGAAACTTTGATT
1 TGTGCAATTTA-ACACATGAAACTTTGATT
62570567 GTGTTCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 12 0.46
30 11 0.42
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (30 bp):
TGTGCAATTTAACACATGAAACTTTGATTT
Found at i:62570591 original size:30 final size:29
Alignment explanation
Indices: 62570520--62570587 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
62570510 GTGCAATTTA
* *
62570520 ATACATAAACTTTGATTTTGTGCAATTAT
1 ATACATAAACTTTGATTGTGTGCAAATAT
* * *
62570549 ACACATGAAACTTTGATTGTGTTCAAATGT
1 ATACAT-AAACTTTGATTGTGTGCAAATAT
62570579 ATACATAAA
1 ATACATAAA
62570588 ACTTCAATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (29 bp):
ATACATAAACTTTGATTGTGTGCAAATAT
Found at i:62573180 original size:4 final size:4
Alignment explanation
Indices: 62573171--62573218 Score: 78
Period size: 4 Copynumber: 12.0 Consensus size: 4
62573161 GGCTAGTTTG
* *
62573171 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA GAGA AAGA AAAA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
62573219 GGAATGCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:62573385 original size:4 final size:4
Alignment explanation
Indices: 62573376--62573440 Score: 112
Period size: 4 Copynumber: 16.2 Consensus size: 4
62573366 GCCCTTTTTA
* *
62573376 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
62573424 ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT A
62573441 AGAGATGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.26, C:0.03, G:0.25, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:62576797 original size:10 final size:9
Alignment explanation
Indices: 62576768--62576825 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
62576758 TCATCGGTTT
62576768 AAATTA-AA
1 AAATTATAA
62576776 TAAATTATTAA
1 -AAATTA-TAA
62576787 AAATTCATAA
1 AAATT-ATAA
* *
62576797 AATTTTTAA
1 AAATTATAA
*
62576806 AAATTAAAA
1 AAATTATAA
62576815 AAATTATAA
1 AAATTATAA
62576824 AA
1 AA
62576826 TTTGTTTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 25 0.62
10 12 0.30
11 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:62576799 original size:19 final size:19
Alignment explanation
Indices: 62576768--62576825 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
62576758 TCATCGGTTT
*
62576768 AAATTAAATAAATTATTAA
1 AAATTAAAAAAATTATTAA
* * *
62576787 AAATTCATAAAATTTTTAA
1 AAATTAAAAAAATTATTAA
62576806 AAATTAAAAAAATTA-TAA
1 AAATTAAAAAAATTATTAA
62576824 AA
1 AA
62576826 TTTGTTTCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 5 0.16
19 27 0.84
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTAAAAAAATTATTAA
Found at i:62579271 original size:34 final size:33
Alignment explanation
Indices: 62579199--62579306 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 33
62579189 TTTAGGGGTT
* *
62579199 TTTTTAAAAAATTAATTAAAATAG-GTTTTTGAA
1 TTTTTAAAAAATTAATTAAATTAGAG-TTTAGAA
* **
62579232 ATTTTAAATAAATTAATTAAATTAGAGTTTAGGG
1 TTTTTAAA-AAATTAATTAAATTAGAGTTTAGAA
* * **
62579266 TTTTTAAGAAAATTATTTAAATTATAGTTTAGTT
1 TTTTTAA-AAAATTAATTAAATTAGAGTTTAGAA
62579300 TTTTTAA
1 TTTTTAA
62579307 TAATTCTGTG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 7 0.11
34 53 0.85
35 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGAGTTTAGAA
Found at i:62579586 original size:126 final size:126
Alignment explanation
Indices: 62579378--62580010 Score: 1016
Period size: 126 Copynumber: 5.0 Consensus size: 126
62579368 TCTATAGTAT
*
62579378 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAGATAATGTAAAAAACGCTTCAAGCAGGAT
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTAAAAAACGCTTCAAGCAGGAT
* * *
62579442 GCACTGTTAGCAAAATTACTGAAAAAAGCTCCCGCATGGATGCTCTTTTTCTACAGTAGTTC
65 GCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* *
62579504 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTTTAAAAAACGCTTCAAGTAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
* * *
62579569 CAATGTTAGCAAAATTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* * * ** *
62579630 CTAAAAAAATAATTTTGAGAAGACGGTTATGAACAAATAGTGTCAAAAACATTTCAAGTAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
* **
62579695 CACTGTCAATAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* *
62579756 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
* * *
62579821 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGTATGCTGTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* *
62579882 CTGAAAAAATAATTTTGAGAAGACAGTTCTGAATAAATAGTGTAAAAAACGCTTCAAGCAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
*
62579947 CACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
62580008 CTG
1 CTG
62580011 TTTGGCCTTA
Statistics
Matches: 465, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
126 463 1.00
127 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (126 bp):
CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
Found at i:62583633 original size:18 final size:18
Alignment explanation
Indices: 62583599--62583633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62583589 AAAAGGAAAC
* *
62583599 ATATAAGGGTTATGATAT
1 ATATAAGGGCTAGGATAT
62583617 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
62583634 CTCACCTGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:62585260 original size:11 final size:11
Alignment explanation
Indices: 62585234--62585273 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
62585224 AGAGAGCTTT
62585234 GAGAAATTTAGA
1 GAGAAATTT-GA
62585246 GAGAAATTTGA
1 GAGAAATTTGA
*
62585257 GAGAAAATTGA
1 GAGAAATTTGA
62585268 -AGAAAT
1 GAGAAAT
62585274 AATGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:62587303 original size:27 final size:27
Alignment explanation
Indices: 62587271--62587325 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
62587261 ATTGTATGTA
62587271 TGTATGTATGTTTTGGGTTATGGATAC
1 TGTATGTATGTTTTGGGTTATGGATAC
62587298 TGTATGTATGTTTTGGGTTATGGATAC
1 TGTATGTATGTTTTGGGTTATGGATAC
62587325 T
1 T
62587326 CTTAAGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (27 bp):
TGTATGTATGTTTTGGGTTATGGATAC
Found at i:62589946 original size:28 final size:28
Alignment explanation
Indices: 62589906--62589961 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
62589896 TCTGTAGTAG
62589906 GAGTTAGATTGCATTTTGCCTCCTTTAC
1 GAGTTAGATTGCATTTTGCCTCCTTTAC
62589934 GAGTTAGATTGCATTTTGCCTCCTTTAC
1 GAGTTAGATTGCATTTTGCCTCCTTTAC
62589962 TCAAAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (28 bp):
GAGTTAGATTGCATTTTGCCTCCTTTAC
Found at i:62617990 original size:30 final size:31
Alignment explanation
Indices: 62617925--62617993 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
62617915 ACTCTTAATC
* *
62617925 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
62617956 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
62617985 GAGTGACTG
1 -AGTGACTG
62617994 AAATGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:62618117 original size:29 final size:29
Alignment explanation
Indices: 62618085--62618141 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
62618075 AAAACTTTTG
*
62618085 ATTATTTACACAAATAACCTATTTTGAAA
1 ATTATTTACACAAATAACCCATTTTGAAA
** *
62618114 ATTATTTACGTAAATGACCCATTTTGAA
1 ATTATTTACACAAATAACCCATTTTGAA
62618142 TAGTAAACGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (29 bp):
ATTATTTACACAAATAACCCATTTTGAAA
Found at i:62618896 original size:2 final size:2
Alignment explanation
Indices: 62618889--62618915 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62618879 GTAGTCGAAC
62618889 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
62618916 AATGTGTGTG
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:62623695 original size:20 final size:20
Alignment explanation
Indices: 62623663--62623702 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62623653 CAGAAAATGA
62623663 TTTCTAAACAATGATTTACT
1 TTTCTAAACAATGATTTACT
62623683 TTTCTGAAA-AATGATTTACT
1 TTTCT-AAACAATGATTTACT
62623703 GAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTCTAAACAATGATTTACT
Found at i:62623825 original size:20 final size:20
Alignment explanation
Indices: 62623800--62623838 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62623790 GTTTTTACAT
62623800 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
62623820 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
62623839 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:62626491 original size:19 final size:18
Alignment explanation
Indices: 62626455--62626491 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62626445 TCATTTAAAA
*
62626455 CAAGTTTATTTTTGTGCC
1 CAAGTTTATTTTTATGCC
62626473 CAAGTTTATTTTTCATGCC
1 CAAGTTTATTTTT-ATGCC
62626492 TTGTATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (18 bp):
CAAGTTTATTTTTATGCC
Found at i:62630925 original size:8 final size:8
Alignment explanation
Indices: 62630909--62630944 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
62630899 TAAAGAAGCC
62630909 ATATGTAT
1 ATATGTAT
*
62630917 ATATATAT
1 ATATGTAT
62630925 ATATGTAT
1 ATATGTAT
*
62630933 GTATGTAT
1 ATATGTAT
62630941 ATAT
1 ATAT
62630945 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:62653233 original size:23 final size:23
Alignment explanation
Indices: 62653207--62653260 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
62653197 TCGAACTCAA
* *
62653207 AACTCGAATTACT-TATTCGAGTC
1 AACTCGAATAACTCGATTCGA-TC
* *
62653230 AACTTGAATAACTCGATTCGATT
1 AACTCGAATAACTCGATTCGATC
62653253 AACTCGAA
1 AACTCGAA
62653261 ATTCAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGAATAACTCGATTCGATC
Found at i:62660397 original size:17 final size:17
Alignment explanation
Indices: 62660375--62660408 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62660365 ATCCACTAAT
*
62660375 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62660392 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62660409 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62665036 original size:17 final size:17
Alignment explanation
Indices: 62665014--62665047 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62665004 ATCCACTAAT
*
62665014 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
62665031 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
62665048 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:62672423 original size:31 final size:31
Alignment explanation
Indices: 62672388--62672448 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
62672378 AATTTTGAAA
* *
62672388 TTTAAAAAGTACAATGACTGAAATTGATCAT
1 TTTAAAAAGTACAAAGACTAAAATTGATCAT
*
62672419 TTTAAAAAGTATAAAGACTAAAATTGATCA
1 TTTAAAAAGTACAAAGACTAAAATTGATCA
62672449 AATTAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.31
Consensus pattern (31 bp):
TTTAAAAAGTACAAAGACTAAAATTGATCAT
Found at i:62683967 original size:31 final size:30
Alignment explanation
Indices: 62683901--62684057 Score: 97
Period size: 31 Copynumber: 5.1 Consensus size: 30
62683891 TTATACTCAT
* * **
62683901 TTTTAAAAATTTTAATTAGGTCCAT-CAAATT
1 TTTTAAAAA-TTTAATTAAG-CCTTCCAAAAG
62683932 TTTTAGAAAATTTAATTAAGCCTTCCAAAAG
1 TTTTA-AAAATTTAATTAAGCCTTCCAAAAG
* * *
62683963 TTTTAAAATTTTTAATT-AGACTCTCCAAAAC
1 TTTTAAAA-ATTTAATTAAGCCT-TCCAAAAG
* * * *
62683994 TTTTGAAAATTCTCATTAATCC-TCTCAAAAT
1 TTTTAAAAATT-TAATTAAGCCTTC-CAAAAG
* *
62684025 TTTTAAAAATTTTAATTAAACCCTCC-AAAG
1 TTTTAAAAA-TTTAATTAAGCCTTCCAAAAG
62684055 TTT
1 TTT
62684058 ATGGAAATTC
Statistics
Matches: 100, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
30 20 0.20
31 70 0.70
32 10 0.10
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (30 bp):
TTTTAAAAATTTAATTAAGCCTTCCAAAAG
Found at i:62683970 original size:62 final size:62
Alignment explanation
Indices: 62683901--62684106 Score: 169
Period size: 62 Copynumber: 3.3 Consensus size: 62
62683891 TTATACTCAT
* **
62683901 TTTTAAAAATTTTAATTAG-GTC-CATCAAATTTTTTAGAAAATT-TAATTAAGCCT-TCCAAAA
1 TTTTAAAAATTTTAATTAGACTCTC--CAAAACTTTT-GAAAATTCTAATTAAGCCTCT-CAAAA
62683962 G
62 G
* * * *
62683963 TTTTAAAATTTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTCATTAATCCTCTCAAAAT
1 TTTTAAAAATTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTAATTAAGCCTCTCAAAAG
* * * * *
62684025 TTTTAAAAATTTTAATTAAACCCTCC-AAAGTTTATGGAAATTCTTATTAAG-CTGCT---AAG
1 TTTTAAAAATTTTAATTAGACTCTCCAAAACTTT-TGAAAATTCTAATTAAGCCT-CTCAAAAG
62684084 TTTTTAGAAAATTTTAATTAGAC
1 -TTTTA-AAAATTTTAATTAGAC
62684107 CTTTGAAATT
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
59 2 0.02
60 5 0.04
61 30 0.25
62 79 0.66
63 3 0.03
64 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (62 bp):
TTTTAAAAATTTTAATTAGACTCTCCAAAACTTTTGAAAATTCTAATTAAGCCTCTCAAAAG
Found at i:62684019 original size:32 final size:32
Alignment explanation
Indices: 62683932--62684053 Score: 110
Period size: 31 Copynumber: 3.9 Consensus size: 32
62683922 CCATCAAATT
* *
62683932 TTTTAGAAAATT-TAATTAAGCCT-TCCAAAAG
1 TTTTA-AAAATTCTAATTAAACCTCTCCAAAAC
* * *
62683963 TTTTAAAATTTTTAATTAGA-CTCTCCAAAAC
1 TTTTAAAAATTCTAATTAAACCTCTCCAAAAC
* * * *
62683994 TTTTGAAAATTCTCATTAATCCTCT-CAAAAT
1 TTTTAAAAATTCTAATTAAACCTCTCCAAAAC
*
62684025 TTTTAAAAATTTTAATTAAACC-CTCCAAA
1 TTTTAAAAATTCTAATTAAACCTCTCCAAA
62684054 GTTTATGGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
30 9 0.12
31 59 0.82
32 4 0.06
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.39
Consensus pattern (32 bp):
TTTTAAAAATTCTAATTAAACCTCTCCAAAAC
Found at i:62689752 original size:322 final size:324
Alignment explanation
Indices: 62689233--62689853 Score: 858
Period size: 322 Copynumber: 1.9 Consensus size: 324
62689223 AGTACGTGGT
* * * * * *
62689233 GATAATTGATGGTTGTCTTATCGAAGTGACCTTGTTGTCAGGGGTGGTTGGCTTGCACTTCCTTT
1 GATAAGTGATAGTTGTCTTATCGAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCACTTCCCTT
* *
62689298 GATCCTGACAAACAATCCTTATGGTGGAAGAGATAAGATTGACGAAACCTGATGGGCGGAGTTAG
66 GATCCTGACAAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGA--TAG
* * ** *
62689363 GTGGTGAAGTGATCATGGTACTTTGGCGCAGATTGCCAAGTAGCGTATGTATTTGGAACAGTCCT
129 GT-GTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCT
* * *
62689428 TATGGTGGAAGAGATAAGACGGACGAAACCAGATCGGCGGAGTTAGATGATGGTTGTCTTTGATA
193 TATGGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTC-TTGATA
* * * * *
62689493 GGCTCGTTGCTCCTTCTCATGATCTCTTGTTAGGTGAGTAATGTGACATCACCAAGATTTCAAAA
257 GCCTCGCTGCTCCTTCCCATCATCCCTTGTTAGGTGAGTAATGTGACATCACCAAGATTTCAAAA
62689558 TAC
322 TAC
* *
62689561 GATAAGTGATAGTTGTCTTA-CTGGAGTGACCTTATTATTAGGGGTGGTTAGCTTGCACATTCCC
1 GATAAGTGATAGTTGTCTTATC-GAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCAC-TTCCC
* *
62689625 TTGATCCTGGCAGAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGG-TGA-A
64 TTGATCCTGACA-AACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGATA
* *
62689688 -GT-T-AGGTGATCACGGTACTTTGGCGCAGATTGCCAAGTGGAGTACATATATGGAACAGTCCT
128 GGTGTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCT
* * *
62689750 TATGGTGGAAGAGATAAGACTGACAAAACCAGATGGGCGGAGTTAGGGGATGATTGTCTTGATAG
193 TATGGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTCTTGATAG
*
62689815 CCTCGCTGGTCCTTCCCATCATCCCTTGTTAGGTGAGTA
258 CCTCGCTGCTCCTTCCCATCATCCCTTGTTAGGTGAGTA
62689854 TTGTTAGGTG
Statistics
Matches: 259, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
321 40 0.15
322 104 0.40
323 1 0.00
325 2 0.01
326 1 0.00
327 1 0.00
328 49 0.19
329 17 0.07
330 44 0.17
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (324 bp):
GATAAGTGATAGTTGTCTTATCGAAGTGACCTTATTATCAGGGGTGGTTAGCTTGCACTTCCCTT
GATCCTGACAAACAATCCTTATGGTGGAAGAGATAAGACTGACGAAACCAGATGGGCGGATAGGT
GTGAAGTGATCACGGTACTTTGGCGCAGATTGCCAAGTAGAGTACATATATGGAACAGTCCTTAT
GGTGGAAGAGATAAGACGGACAAAACCAGATCGGCGGAGTTAGAGGATGATTGTCTTGATAGCCT
CGCTGCTCCTTCCCATCATCCCTTGTTAGGTGAGTAATGTGACATCACCAAGATTTCAAAATAC
Found at i:62689859 original size:14 final size:14
Alignment explanation
Indices: 62689840--62689867 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62689830 CCATCATCCC
62689840 TTGTTAGGTGAGTA
1 TTGTTAGGTGAGTA
62689854 TTGTTAGGTGAGTA
1 TTGTTAGGTGAGTA
62689868 ATGTGATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
TTGTTAGGTGAGTA
Found at i:62698864 original size:23 final size:21
Alignment explanation
Indices: 62698838--62698884 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
62698828 AACTCAAATA
62698838 ATTCAAATAACTCAAACAATTCG
1 ATTCAAATAACTC-AA-AATTCG
* *
62698861 ATTCGATTAACTCAAAATTCG
1 ATTCAAATAACTCAAAATTCG
62698882 ATT
1 ATT
62698885 TTTTTGAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (21 bp):
ATTCAAATAACTCAAAATTCG
Found at i:62702742 original size:24 final size:26
Alignment explanation
Indices: 62702695--62702742 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
62702685 GTTGTTGACA
62702695 AAAAAGATAAAATTGAATAGTTGGGT
1 AAAAAGATAAAATTGAATAGTTGGGT
*
62702721 AAAAA-ATAATATT-AATAGTTGG
1 AAAAAGATAAAATTGAATAGTTGG
62702743 AGGACTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 7 0.33
26 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (26 bp):
AAAAAGATAAAATTGAATAGTTGGGT
Found at i:62703833 original size:73 final size:69
Alignment explanation
Indices: 62703674--62703906 Score: 274
Period size: 69 Copynumber: 3.3 Consensus size: 69
62703664 TTACTTCGGT
* *
62703674 TTTTGCTGATAGCATGAATAATAT-T-ATTACCAAGTATTCAATACTCGTACCCGAGTCTGAATA
1 TTTTGCTGATAGCATGAATAAGATCTCA-TACC-TGTATTCAATACTCGTACCCGAGTCTGAATA
62703737 AGATGA
64 AGATGA
* * *
62703743 TTTTGCTGATAGAATGAATAAGATGCTCATACCTGTATTCAGTACTCGTA-CTGAGTCTGAATAA
1 TTTTGCTGATAGCATGAATAAGAT-CTCATACCTGTATTCAATACTCGTACCCGAGTCTGAATAA
62703807 GATACTTGA
65 G--A--TGA
* * * *
62703816 TTTTGCTGATAGCATGAATAAGACACTCATACATCTGTATTCAATACTCATACCCGAGTCCGAGT
1 TTTTGCTGATAGCATGAATAAGA-TCTCATAC--CTGTATTCAATACTCGTACCCGAGTCTGAAT
62703881 AAGATGA
63 AAGATGA
62703888 TTTTGCTGATAGCATGAAT
1 TTTTGCTGATAGCATGAAT
62703907 GTTATTAGTA
Statistics
Matches: 141, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
69 36 0.26
70 15 0.11
71 6 0.04
72 23 0.16
73 32 0.23
74 1 0.01
75 16 0.11
76 12 0.09
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (69 bp):
TTTTGCTGATAGCATGAATAAGATCTCATACCTGTATTCAATACTCGTACCCGAGTCTGAATAAG
ATGA
Found at i:62710866 original size:16 final size:16
Alignment explanation
Indices: 62710840--62710886 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
62710830 AAAATTCAAT
*
62710840 AAATAAAAAATATATA
1 AAATAATAAATATATA
* *
62710856 AATTATTAAATAT-TA
1 AAATAATAAATATATA
62710871 AAATAATATAATATAT
1 AAATAATA-AATATAT
62710887 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATAAATATATA
Found at i:62710867 original size:27 final size:27
Alignment explanation
Indices: 62710823--62710908 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
62710813 TTTAAAAGAC
** *
62710823 TATATAAAAAATTCAATAAATAAAAAA
1 TATATAAATTATTAAATAAATAAAAAA
*
62710850 TATATAAATTATTAAAT-ATTAAAATAA
1 TATATAAATTATTAAATAAATAAAA-AA
* * *
62710877 TATAATATATCTTTTAAAAAAATTAAAAAA
1 TAT-ATAAAT-TATTAAATAAA-TAAAAAA
62710907 TA
1 TA
62710909 ATATGAACGA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
26 6 0.13
27 19 0.41
28 5 0.11
29 6 0.13
30 5 0.11
31 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TATATAAATTATTAAATAAATAAAAAA
Found at i:62716202 original size:3 final size:3
Alignment explanation
Indices: 62716194--62716222 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
62716184 TCTTTTAGCA
62716194 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
62716223 CAGATTAACA
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:62716250 original size:3 final size:3
Alignment explanation
Indices: 62716244--62716270 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62716234 AACTTAAAAA
62716244 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
62716271 CGTACCACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:62716592 original size:14 final size:14
Alignment explanation
Indices: 62716573--62716608 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
62716563 ATTTACTGAG
62716573 TTATTTAAAAAATT
1 TTATTTAAAAAATT
**
62716587 TTATTTAAAAGTTT
1 TTATTTAAAAAATT
62716601 TTATTTAA
1 TTATTTAA
62716609 GTTTCTTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATTTAAAAAATT
Found at i:62719815 original size:20 final size:21
Alignment explanation
Indices: 62719790--62719831 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
62719780 AAAAAAAGAG
62719790 AGGATAAACGTA-CAACAAAT
1 AGGATAAACGTACCAACAAAT
*
62719810 AGGATAAATGTATCCAACAAAT
1 AGGATAAACGTA-CCAACAAAT
62719832 TCATTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (21 bp):
AGGATAAACGTACCAACAAAT
Found at i:62721078 original size:17 final size:17
Alignment explanation
Indices: 62721058--62721090 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62721048 ATAAAGAATC
*
62721058 TAATTTAATAATAATAA
1 TAATATAATAATAATAA
62721075 TAATATAATAATAATA
1 TAATATAATAATAATA
62721091 GAAAAAGGTA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATATAATAATAATAA
Found at i:62729962 original size:29 final size:29
Alignment explanation
Indices: 62729929--62729985 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
62729919 GCTCAAAAAA
62729929 TTAAAGACTAAATTGATAAAAGATATAAG
1 TTAAAGACTAAATTGATAAAAGATATAAG
62729958 TTAAAGACTAAATTGATAAAAGATATAA
1 TTAAAGACTAAATTGATAAAAGATATAA
62729986 ATGTTGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (29 bp):
TTAAAGACTAAATTGATAAAAGATATAAG
Found at i:62737149 original size:11 final size:11
Alignment explanation
Indices: 62737133--62737193 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
62737123 TATTTTTACT
62737133 TTTTTTAAAAA
1 TTTTTTAAAAA
62737144 TTTTTT---AA
1 TTTTTTAAAAA
62737152 --TTTTAAAATA
1 TTTTTTAAAA-A
*
62737162 TTTTTAAAATAA
1 TTTTTTAAA-AA
*
62737174 TTTTTTTAAAA
1 TTTTTTAAAAA
62737185 TTTTTTAAA
1 TTTTTTAAA
62737194 TAAATTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
6 4 0.10
8 2 0.05
9 1 0.03
10 1 0.03
11 16 0.41
12 14 0.36
13 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTTAAAAA
Found at i:62737189 original size:24 final size:24
Alignment explanation
Indices: 62737152--62737202 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 24
62737142 AATTTTTTAA
*
62737152 TTTTAAAATATTTTTAAAATAATTT
1 TTTTAAAATATTTTT-AAATAAATT
62737177 TTTTAAAAT-TTTTTAAATAAATT
1 TTTTAAAATATTTTTAAATAAATT
62737200 TTT
1 TTT
62737203 GATATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 5 0.20
25 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTAAAATATTTTTAAATAAATT
Found at i:62743399 original size:23 final size:21
Alignment explanation
Indices: 62743350--62743399 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
62743340 TTAAAATTTT
*
62743350 AAAATTTTTTTAATTTTTAAA
1 AAAATTTTTGTAATTTTTAAA
*
62743371 ATAAATTTTTGGTATTTTATTAAA
1 A-AAATTTTT-GTAATTT-TTAAA
62743395 AAAAT
1 AAAAT
62743400 AGGCTGGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 8 0.33
23 9 0.38
24 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
AAAATTTTTGTAATTTTTAAA
Found at i:62747549 original size:155 final size:154
Alignment explanation
Indices: 62747327--62747625 Score: 422
Period size: 155 Copynumber: 1.9 Consensus size: 154
62747317 CAAAAGTACC
* * * * * *
62747327 AAAAAAAAAAGTTGTTGATATGATTGTCATAAAAAACACAAATACACACACAAAAAGAAAAACCA
1 AAAAAAAAAAGTTGGTGATATGATTATCATAAAAAACACAAATACACAAAAAAAAACAAAAAACA
* * *
62747392 TTTTGATTATTTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAACCAT
66 TTTTCATTAATTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAAACAT
* *
62747457 AAGCTTCAAATTGAACTTAAACAA
131 AAACTCCAAATTGAACTTAAACAA
* * *
62747481 AAAAAAAAAAGGTTGGTGATATGA-TATCATCAGAAACATAAATACA-AAAAAAAAACAACAACA
1 AAAAAAAAAA-GTTGGTGATATGATTATCATAAAAAACACAAATACACAAAAAAAAACAA-AA-A
*
62747544 ACATTTTCATTAATTTTAGAGCTAACCCATATTCCCAAATCATAAATTATGAACAAAAAACGAAA
63 ACATTTTCATTAATTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAAA
62747609 CATAAACTCCAAATTGA
128 CATAAACTCCAAATTGA
62747626 GCTCAAAGAA
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
153 9 0.07
154 30 0.24
155 88 0.69
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.23
Consensus pattern (154 bp):
AAAAAAAAAAGTTGGTGATATGATTATCATAAAAAACACAAATACACAAAAAAAAACAAAAAACA
TTTTCATTAATTTTAGAGCTAACCCAAATTCCCAAATCATAAATTATGAACAAAAAACGAAACAT
AAACTCCAAATTGAACTTAAACAA
Found at i:62749204 original size:20 final size:21
Alignment explanation
Indices: 62749170--62749218 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
62749160 GGTTGTCGGT
62749170 TAAATAAATTATT-AAA-AAA
1 TAAATAAATTATTAAAATAAA
*
62749189 TAAATATAATTGTTAAAATAAA
1 TAAATA-AATTATTAAAATAAA
62749211 TAAATAAA
1 TAAATAAA
62749219 AAACGGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 5 0.19
22 9 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAATAAATTATTAAAATAAA
Found at i:62750183 original size:11 final size:11
Alignment explanation
Indices: 62750169--62750195 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62750159 TTTTTGTAAT
62750169 TTTTTTTTTTG
1 TTTTTTTTTTG
62750180 TTTTTTTTTTG
1 TTTTTTTTTTG
62750191 TTTTT
1 TTTTT
62750196 ATCATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:62752870 original size:5 final size:6
Alignment explanation
Indices: 62752857--62752908 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
62752847 ATAATAAATA
* ** *
62752857 TTTATT TTTATT TTTATT TTTA-A AATACT TTTATT TTTATTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT
62752905 TTTA
1 TTTA
62752909 AAATAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 2 0.05
6 29 0.78
7 6 0.16
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:62752890 original size:29 final size:30
Alignment explanation
Indices: 62752857--62752918 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
62752847 ATAATAAATA
*
62752857 TTTATTTTTA-TTTTTATTTTTAAAATACT
1 TTTATTTTTATTTTTTATTTTTAAAATAAT
62752886 TTTATTTTTATTTTTTATTTTTAAAATAAT
1 TTTATTTTTATTTTTTATTTTTAAAATAAT
62752916 TTT
1 TTT
62752919 TTAATGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (30 bp):
TTTATTTTTATTTTTTATTTTTAAAATAAT
Found at i:62754376 original size:20 final size:20
Alignment explanation
Indices: 62754341--62754378 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62754331 TGGTCATTTC
62754341 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
62754361 GTAATCAAAACG-TAACAT
1 GTAA-CAAAACGATAACAT
62754379 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:62755426 original size:30 final size:30
Alignment explanation
Indices: 62755387--62755448 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
62755377 TTTTATAAAT
*
62755387 AATTAATATTT-AT-TACTTAAAAATATTTAC
1 AATTAATATTTCATATA-TT-AAAATATTAAC
*
62755417 AATTTATATTTCATATATTAAAATATTAAC
1 AATTAATATTTCATATATTAAAATATTAAC
62755447 AA
1 AA
62755449 CAAGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 22 0.79
31 4 0.14
32 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTAAC
Found at i:62755629 original size:13 final size:13
Alignment explanation
Indices: 62755613--62755640 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62755603 AATTTTAAAC
62755613 AACACTTTTCAAA
1 AACACTTTTCAAA
62755626 AACACTTTTCAAA
1 AACACTTTTCAAA
62755639 AA
1 AA
62755641 TAATAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
AACACTTTTCAAA
Found at i:62758115 original size:97 final size:96
Alignment explanation
Indices: 62757959--62758247 Score: 332
Period size: 97 Copynumber: 3.0 Consensus size: 96
62757949 AGCACACAAT
* * * * *
62757959 GAGGAAAGATTGAACCATAAAACCAA-AAAAAGCAACCA-AAGCGTTTTGAAGATCAATATAACT
1 GAGG-AAGATGGAACCATAAAGCCAATAAAAAACAACCAGAA-CATTTTGAA-ATCGATATAACT
** *
62758022 CACTAACACGAACCGAGCAATGAAAACTCGAATA
63 TGCTAACACGAACCAAGCAATGAAAACTCGAATA
* * **
62758056 TAGGAAGATGGAACCGTAATTCCAATAAAAAAACAA-CAGAAACATTTTGAAATCGATATAACTT
1 GAGGAAGATGGAACCATAAAGCCAAT-AAAAAACAACCAG-AACATTTTGAAATCGATATAACTT
* * * *
62758120 GCTACCACGAACCAAGCAATGAAAACTTGTATG
64 GCTAACACGAACCAAGCAATGAAAACTCGAATA
* * *
62758153 GAGGAAGATGGAACCATAAAGCCAATAAAAAGCAACCTGAACATTTTGAAAATCGACATAACTTG
1 GAGGAAGATGGAACCATAAAGCCAATAAAAAACAACCAGAACATTTTG-AAATCGATATAACTTG
62758218 CTAACACGAACCAAGCAATGAAAACTCGAA
65 CTAACACGAACCAAGCAATGAAAACTCGAA
62758248 AGTAGGCCAT
Statistics
Matches: 161, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
96 34 0.21
97 109 0.68
98 16 0.10
99 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (96 bp):
GAGGAAGATGGAACCATAAAGCCAATAAAAAACAACCAGAACATTTTGAAATCGATATAACTTGC
TAACACGAACCAAGCAATGAAAACTCGAATA
Found at i:62768674 original size:17 final size:16
Alignment explanation
Indices: 62768652--62768685 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
62768642 CTTAGGCGAA
*
62768652 ATAATAAATTATAAAAT
1 ATAATAAAATA-AAAAT
62768669 ATAATAAAATAAAAAT
1 ATAATAAAATAAAAAT
62768685 A
1 A
62768686 AAAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAATAAAATAAAAAT
Found at i:62768686 original size:14 final size:14
Alignment explanation
Indices: 62768650--62768692 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
62768640 GTCTTAGGCG
62768650 AAATAATAAATTATAA
1 AAATAATAAA--ATAA
62768666 AATATAATAAAATAA
1 AA-ATAATAAAATAA
*
62768681 AAATAAAAAAAT
1 AAATAATAAAAT
62768693 TTAGACCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 9 0.36
15 6 0.24
16 2 0.08
17 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAATAAAATAA
Found at i:62769193 original size:60 final size:60
Alignment explanation
Indices: 62769037--62769201 Score: 190
Period size: 62 Copynumber: 2.7 Consensus size: 60
62769027 GCAAAGTAAC
* * * **
62769037 TAAACAAAATAGTAAGAGGGA-CGAAGTGAGAATTTCATTATAGTGTAAGGAACAAAATGA
1 TAAAAAAAATAGTAA-AAGGACCAAAGTGAGAATTTCATTATAGTCAAAGGAACAAAATGA
* * * *
62769097 TAAAAAAAAATTAGTAGAAGGGCTAAGGTGAGAATTTCATTATAGTACAAAGG-ACAAAATGA
1 T-AAAAAAAA-TAGTAAAAGGACCAAAGTGAGAATTTCATTATAGT-CAAAGGAACAAAATGA
*
62769159 TAAAAAAAATAGTAAAAGGACCAAAGTGAGAATTTCACTATAG
1 TAAAAAAAATAGTAAAAGGACCAAAGTGAGAATTTCATTATAG
62769202 GGCCAAAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
60 30 0.34
61 18 0.21
62 35 0.40
63 4 0.05
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (60 bp):
TAAAAAAAATAGTAAAAGGACCAAAGTGAGAATTTCATTATAGTCAAAGGAACAAAATGA
Found at i:62769937 original size:3 final size:3
Alignment explanation
Indices: 62769929--62769978 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
62769919 TGTCAGAGCA
62769929 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
62769977 GG
1 GG
62769979 AGGAGGAGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:62780180 original size:104 final size:104
Alignment explanation
Indices: 62780044--62780468 Score: 647
Period size: 104 Copynumber: 4.1 Consensus size: 104
62780034 ATCAGGCACC
* * * * * * * *
62780044 AACCACTAAGTTAAATACTCGAGTTTATGCGAAAATTA-CAGATCAAAAACAAACTCCTGCTACA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGA-ATCAAAATCAAACTCATTCTACA
*
62780108 ATGTAAGAGCTTTGATTAATTATTTACATAAAAATCTTGA
65 ATGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
62780148 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
62780213 TGTAAGAGCTTTGATTCCTTGTTTACATGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
62780252 AACCTCTAAGTTAAATATTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
* * *
62780317 TGTAAGAGCTTTGATTCATTATTTACATGAAAATTTTTA
66 TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
*
62780356 AACCTCTAAGTTTAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
1 AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
*
62780421 TGTAAGAGCTTTGATTCATTACTTACA-AGAAAATCTTGA
66 TGTAAGAGCTTTGATTCATTATTTACATA-AAAATCTTGA
*
62780460 AGCCTCTAA
1 AACCTCTAA
62780469 ATTTACAACA
Statistics
Matches: 295, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
104 294 1.00
105 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (104 bp):
AACCTCTAAGTTAAATACTCAAGTTTAAGCGAAAATGATGAATCAAAATCAAACTCATTCTACAA
TGTAAGAGCTTTGATTCATTATTTACATAAAAATCTTGA
Found at i:62785395 original size:29 final size:29
Alignment explanation
Indices: 62785352--62785413 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
62785342 ATTCGAAAGG
62785352 ATTTTGGTTGCCTCAATTTGAATTTTAAA
1 ATTTTGGTTGCCTCAATTTGAATTTTAAA
*
62785381 ATTTTGGTTGGCTCAATTTGAATTTTAAA
1 ATTTTGGTTGCCTCAATTTGAATTTTAAA
62785410 ATTT
1 ATTT
62785414 ACATAATATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (29 bp):
ATTTTGGTTGCCTCAATTTGAATTTTAAA
Found at i:62785450 original size:20 final size:21
Alignment explanation
Indices: 62785425--62785463 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
62785415 CATAATATCA
62785425 AATTTAATGTTTAT-TTTTTT
1 AATTTAATGTTTATATTTTTT
*
62785445 AATTTAATTTTTATATTTT
1 AATTTAATGTTTATATTTT
62785464 AGTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (21 bp):
AATTTAATGTTTATATTTTTT
Found at i:62792706 original size:19 final size:20
Alignment explanation
Indices: 62792670--62792707 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62792660 AGCAACATGG
*
62792670 TTCATTTTTATGTATTTTTT
1 TTCATTTATATGTATTTTTT
62792690 TTCATTTATAT-TATTTTT
1 TTCATTTATATGTATTTTT
62792708 CCAGTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTCATTTATATGTATTTTTT
Found at i:62792742 original size:16 final size:16
Alignment explanation
Indices: 62792715--62792755 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
62792705 TTTCCAGTGT
62792715 AAAA-TATTTTTTT-A
1 AAAATTATTTTTTTCA
62792729 AAAATTATTTTTTTCA
1 AAAATTATTTTTTTCA
*
62792745 AATATTATTTT
1 AAAATTATTTT
62792756 CGAGAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 11 0.46
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
AAAATTATTTTTTTCA
Found at i:62796225 original size:22 final size:22
Alignment explanation
Indices: 62796197--62796248 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
62796187 ATGACTACAG
62796197 ACACGTGGACAAAACGTTATCT
1 ACACGTGGACAAAACGTTATCT
* *
62796219 ACACGTGGACTATACGTTATCT
1 ACACGTGGACAAAACGTTATCT
62796241 ACACGTGG
1 ACACGTGG
62796249 CCCAAAATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (22 bp):
ACACGTGGACAAAACGTTATCT
Found at i:62802661 original size:22 final size:23
Alignment explanation
Indices: 62802607--62802654 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
62802597 TTTGCACAAA
62802607 TTTA-GAATTTAATCCTTTTATT
1 TTTAGGAATTTAATCCTTTTATT
* *
62802629 TTTAGGAATTTGATCTTTTTATT
1 TTTAGGAATTTAATCCTTTTATT
62802652 TTT
1 TTT
62802655 CAGATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTAGGAATTTAATCCTTTTATT
Found at i:62803450 original size:30 final size:31
Alignment explanation
Indices: 62803380--62803453 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
62803370 AATATTTTAG
*
62803380 TTTAAATCACTGAATAATTTGAAAGCTTCTA
1 TTTAAGTCACTGAATAATTTGAAAGCTTCTA
* *
62803411 TTTAAGTCACTGAATTATTTGGAATG-TT-TA
1 TTTAAGTCACTGAATAATTT-GAAAGCTTCTA
*
62803441 TTTACGTCACTGA
1 TTTAAGTCACTGA
62803454 GTTGTTAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 14 0.37
31 20 0.53
32 4 0.11
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
TTTAAGTCACTGAATAATTTGAAAGCTTCTA
Found at i:62813280 original size:20 final size:20
Alignment explanation
Indices: 62813241--62813279 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62813231 AAACTTATAG
* *
62813241 ATGTATGTAATTTATATTTT
1 ATGTATATAATATATATTTT
62813261 ATGTATATAATATAT-TTTT
1 ATGTATATAATATATATTTT
62813280 TTAGAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
ATGTATATAATATATATTTT
Found at i:62818578 original size:21 final size:20
Alignment explanation
Indices: 62818549--62818597 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
62818539 TACCAAAAAA
*
62818549 AATTGTTTTAGTGTTTTATTT
1 AATT-TTTTTGTGTTTTATTT
* *
62818570 AATTTTTTTGTTTTTTTTTT
1 AATTTTTTTGTGTTTTATTT
62818590 AAATTTTT
1 -AATTTTT
62818598 GATCTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (20 bp):
AATTTTTTTGTGTTTTATTT
Found at i:62818698 original size:24 final size:21
Alignment explanation
Indices: 62818651--62818690 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62818641 ATTAACTTTG
62818651 TTTAAAAATATTTTTTTTAAT
1 TTTAAAAATATTTTTTTTAAT
**
62818672 TTTAAAAATAAATTTTTTA
1 TTTAAAAATATTTTTTTTA
62818691 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAAAATATTTTTTTTAAT
Found at i:62818941 original size:23 final size:23
Alignment explanation
Indices: 62818911--62818958 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
62818901 TATGTTAGTC
62818911 TGGTCGATTTCAAGTCTAAGTTT
1 TGGTCGATTTCAAGTCTAAGTTT
62818934 TGGTCGATTTCAAGTCTAAGTTT
1 TGGTCGATTTCAAGTCTAAGTTT
62818957 TG
1 TG
62818959 AATTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (23 bp):
TGGTCGATTTCAAGTCTAAGTTT
Found at i:62841296 original size:54 final size:55
Alignment explanation
Indices: 62841202--62841317 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 55
62841192 AAAATAGTTT
* * ** *
62841202 GGTGATCATTTTGTAACTTTTCATAGTTAGGTGACAAAAAAAATAG-TAATAATTG
1 GGTGA-CATTTTATAACTTTTCATAATTAAATAACAAAAAAAATAGTTAATAATTG
* * *
62841257 GGTGACATTTTATAACTTTTCATAATTAAATAACTAAAAAAATTGTTAATAGTTG
1 GGTGACATTTTATAACTTTTCATAATTAAATAACAAAAAAAATAGTTAATAATTG
*
62841312 GATGAC
1 GGTGAC
62841318 TAGTAATGCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.37
Consensus pattern (55 bp):
GGTGACATTTTATAACTTTTCATAATTAAATAACAAAAAAAATAGTTAATAATTG
Found at i:62843959 original size:31 final size:33
Alignment explanation
Indices: 62843888--62843961 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
62843878 GCAGTCAACG
* *
62843888 TTATCAGTCCTTATATTTTTGTAAAAGTTGTGGC
1 TTAT-AGTCCTTATATTTTTGTAAAAGTTGTAGA
62843922 TT-TAGTCCTTATATTTTT-TAAAA-TT-TAAGA
1 TTATAGTCCTTATATTTTTGTAAAAGTTGT-AGA
62843952 TTATAGTCCT
1 TTATAGTCCT
62843962 AACCCAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
29 1 0.03
30 5 0.14
31 12 0.33
32 15 0.42
33 1 0.03
34 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.50
Consensus pattern (33 bp):
TTATAGTCCTTATATTTTTGTAAAAGTTGTAGA
Found at i:62854046 original size:19 final size:19
Alignment explanation
Indices: 62854005--62854046 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
62853995 CTAAAAATAT
62854005 TAAAACTGATATTTTTATC
1 TAAAACTGATATTTTTATC
*
62854024 -AAAATTGATATTTTTATC
1 TAAAACTGATATTTTTATC
62854042 TAAAA
1 TAAAA
62854047 ATTAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
TAAAACTGATATTTTTATC
Found at i:62855512 original size:24 final size:24
Alignment explanation
Indices: 62855484--62855531 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
62855474 GCGTGTCTTC
* *
62855484 CAAGGAAGAGAAGGATAAATCATT
1 CAAGGAAGAGAAAGAGAAATCATT
62855508 CAAGGAAGAGAAAGAGAAATCATT
1 CAAGGAAGAGAAAGAGAAATCATT
62855532 ATCACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.08, G:0.25, T:0.15
Consensus pattern (24 bp):
CAAGGAAGAGAAAGAGAAATCATT
Found at i:62860393 original size:17 final size:15
Alignment explanation
Indices: 62860363--62860396 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
62860353 ACGAAGTCTC
62860363 CCTCCCTTTCCCTCA
1 CCTCCCTTTCCCTCA
62860378 CCTCCCTCTCTCCCTCA
1 CCTCCCT-T-TCCCTCA
62860395 CC
1 CC
62860397 CGTTGCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.06, C:0.65, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTCCCTTTCCCTCA
Found at i:62865375 original size:11 final size:11
Alignment explanation
Indices: 62865359--62865401 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
62865349 AACACCAATT
62865359 TTTTAAAAAAA
1 TTTTAAAAAAA
62865370 TTTTAAAAAAGTA
1 TTTTAAAAAA--A
* *
62865383 TTCTAAAAATA
1 TTTTAAAAAAA
62865394 TTTTAAAA
1 TTTTAAAA
62865402 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:62886756 original size:6 final size:6
Alignment explanation
Indices: 62886747--62886776 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
62886737 ACAGCAAGAG
*
62886747 CCCAGT CCCAGC CCCAGC CCCAGC CCCAGC
1 CCCAGC CCCAGC CCCAGC CCCAGC CCCAGC
62886777 GGTTTGAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.63, G:0.17, T:0.03
Consensus pattern (6 bp):
CCCAGC
Found at i:62897520 original size:2 final size:2
Alignment explanation
Indices: 62897513--62897540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62897503 TGTTAGCCTC
62897513 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
62897541 AATGCTCTTA
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:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:62904813 original size:18 final size:18
Alignment explanation
Indices: 62904725--62904813 Score: 56
Period size: 18 Copynumber: 4.7 Consensus size: 18
62904715 TTTAGATGAC
62904725 TTTTTTTATAATTTTTAA
1 TTTTTTTATAATTTTTAA
* **
62904743 TTTTTCTA-AAACTTTAA
1 TTTTTTTATAATTTTTAA
*
62904760 TATATTCTTATAATTTTTTAAA
1 T-T-TTTTTATAA-TTTTT-AA
*
62904782 TATGTTTTGT-TAATTTGTAA
1 T-T-TTTT-TATAATTTTTAA
62904802 TTTTTTTATAAT
1 TTTTTTTATAAT
62904814 ATATTAGGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 9 0.17
18 16 0.30
19 5 0.09
20 5 0.09
21 7 0.13
22 11 0.20
23 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTTATAATTTTTAA
Found at i:62921654 original size:33 final size:33
Alignment explanation
Indices: 62921596--62921663 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
62921586 TGGGAGTTAC
* * *
62921596 ATAATGCATGACATAGTTAAGAGATGTAGATTA
1 ATAATGCAGGACATAATTAAGAGATGCAGATTA
*
62921629 ATAATGCAGGACATTAATTAA-AGATGCATATTA
1 ATAATGCAGGACA-TAATTAAGAGATGCAGATTA
62921662 AT
1 AT
62921664 GATGTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (33 bp):
ATAATGCAGGACATAATTAAGAGATGCAGATTA
Found at i:62922596 original size:23 final size:23
Alignment explanation
Indices: 62922570--62922616 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
62922560 ATTTAATCAC
*
62922570 TTCATATTTTATTATAGGTTGTT
1 TTCATATTTTATTATAAGTTGTT
62922593 TTCATATTTTATTATAAGTTGTT
1 TTCATATTTTATTATAAGTTGTT
62922616 T
1 T
62922617 CCACTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.62
Consensus pattern (23 bp):
TTCATATTTTATTATAAGTTGTT
Found at i:62944309 original size:87 final size:88
Alignment explanation
Indices: 62944172--62944339 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 88
62944162 ATGTGATTGG
* * * *
62944172 TGATGATATTTGAAATTTGTGTAATGTTAATGATAAGTCAAGAATGGTGAAAGATAAAA-GCGC-
1 TGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGAATAGTGAAAGATAAAAGGC-CT
*
62944235 TATTTATTGAATTAATGTGACTAA
65 TATATATTGAATTAATGTGACTAA
*
62944259 TGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGACTAGTGAAAGATAAAAGGCCTT
1 TGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGAATAGTGAAAGATAAAAGGCCTT
62944324 ATATATTGAATTAATG
66 ATATATTGAATTAATG
62944340 ATTAATTTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 55 0.75
88 18 0.25
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (88 bp):
TGATGATATATGAAATTTGGGTAATGTTAATGATAAGCCAAGAATAGTGAAAGATAAAAGGCCTT
ATATATTGAATTAATGTGACTAA
Found at i:62952380 original size:16 final size:16
Alignment explanation
Indices: 62952359--62952393 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
62952349 TTCGATTAAG
62952359 TTTCAAAATTTTTGGA
1 TTTCAAAATTTTTGGA
62952375 TTTCAAAATTTTTGGA
1 TTTCAAAATTTTTGGA
62952391 TTT
1 TTT
62952394 AGGATAATTT
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:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (16 bp):
TTTCAAAATTTTTGGA
Found at i:62953380 original size:30 final size:30
Alignment explanation
Indices: 62953346--62953404 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
62953336 TTCGAGCTTT
*
62953346 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTATAAATATGCAAAAGTTTA
* * *
62953376 GGGGCAAAATTATAATTTTGCAAAAGTTT
1 GGGGCAAAAGTATAAATATGCAAAAGTTT
62953405 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTATAAATATGCAAAAGTTTA
Found at i:62953783 original size:33 final size:33
Alignment explanation
Indices: 62953741--62953943 Score: 147
Period size: 33 Copynumber: 5.6 Consensus size: 33
62953731 AATATAAGGG
62953741 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
62953774 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
62953815 GAGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 G-GTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * *
62953849 GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-GAA--T-CAT-TG---GT
* *
62953891 GGTTGCTAAGTGTTGATTCCCTGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
62953924 GGTTGTTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
62953944 ACTGTATCTT
Statistics
Matches: 134, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
33 57 0.43
34 9 0.07
35 2 0.01
36 4 0.03
37 5 0.04
38 5 0.04
39 4 0.03
40 2 0.01
41 8 0.06
42 38 0.28
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:62953834 original size:42 final size:41
Alignment explanation
Indices: 62953775--62954028 Score: 195
Period size: 42 Copynumber: 6.5 Consensus size: 41
62953765 ATCATTGGTG
62953775 GTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGGA
1 GTTGCTAAGTGTTGATTCCACCGTATCTT-AATGTGAAAGGA
* *
62953817 GTTGCTAAGTGCTGATTCC-CCGAATC---AT-TG---GTG-
1 GTTGCTAAGTGTTGATTCCACCGTATCTTAATGTGAAAG-GA
** * * *
62953850 GTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGG
1 GTTGCTAAGTGTTGATTCCACCGTATCTT-AATGTGAAAGGA
* *
62953892 GTTGCTAAGTGTTGATTCC-CTGAATC---AT-TG---GTG-
1 GTTGCTAAGTGTTGATTCCACCGTATCTTAATGTGAAAG-GA
* * *
62953925 GTTGTTAAGTGCTGATTCCACTGTATCTTAAATGTGAAA-GA
1 GTTGCTAAGTGTTGATTCCACCGTATCTT-AATGTGAAAGGA
62953966 GGTTGCTAAGTGTTGATTCCACCGTATCTTTGAATGTGAAAGGA
1 -GTTGCTAAGTGTTGATTCCACCGTATC-TT-AATGTGAAAGGA
62954010 GTTGCTAAGTGTTGATTCC
1 GTTGCTAAGTGTTGATTCC
62954029 CCGAATCACT
Statistics
Matches: 168, Mismatches: 19, Indels: 49
0.71 0.08 0.21
Matches are distributed among these distances:
33 37 0.22
34 12 0.07
36 4 0.02
37 4 0.02
38 4 0.02
39 4 0.02
40 1 0.01
41 10 0.06
42 60 0.36
43 30 0.18
44 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
GTTGCTAAGTGTTGATTCCACCGTATCTTAATGTGAAAGGA
Found at i:62953867 original size:75 final size:75
Alignment explanation
Indices: 62953742--62953985 Score: 373
Period size: 75 Copynumber: 3.3 Consensus size: 75
62953732 ATATAAGGGG
*
62953742 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTAAA
1 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
62953807 TGTGAAAGGA
66 TGTGAAAGGA
* * * *
62953817 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCCGATTCCACCATAACTTGAA
1 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
*
62953882 TGTGAAAGGG
66 TGTGAAAGGA
* * * *
62953892 GTTGCTAAGTGTTGATTCCCTGAATCATTGGTGGTTGTTAAGTGCTGATTCCACTGTATCTTAAA
1 GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
62953957 TGTGAAA-GA
66 TGTGAAAGGA
*
62953966 GGTTGCTAAGTGTTGATTCC
1 -GTTGCTAAGTGCTGATTCC
62953986 ACCGTATCTT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
74 1 0.01
75 152 0.99
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (75 bp):
GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAA
TGTGAAAGGA
Found at i:62954016 original size:43 final size:42
Alignment explanation
Indices: 62953924--62954028 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 42
62953914 AATCATTGGT
* * *
62953924 GGTTGTTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGA
1 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGA
*
62953966 GGTTGCTAAGTGTTGATTCCACCGTATCTTTGAATGTGAAAG-
1 GGTTGCTAAGTGTTGATTCCACCGTATC-TTAAATGTGAAAGA
62954008 GAGTTGCTAAGTGTTGATTCC
1 G-GTTGCTAAGTGTTGATTCC
62954029 CCGAATCACT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGA
Found at i:62954057 original size:118 final size:117
Alignment explanation
Indices: 62953849--62954063 Score: 331
Period size: 118 Copynumber: 1.8 Consensus size: 117
62953839 AATCATTGGT
* *
62953849 GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCTG
1 GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGAGTTGCTAAGTGTTGATTCCCCG
* * * *
62953914 AATCATTGGTGGTTGTTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGA
66 AATCACTGGTGGTTGCTAAGGGCTGAATCCACTGTATCTTAAATGTGAAAGA
** * *
62953966 GGTTGCTAAGTGTTGATTCCACCGTATCTTTGAATGTGAAAGGAGTTGCTAAGTGTTGATTCCCC
1 GGTTGCTAAGTGCCGATTCCACCATAAC-TTGAATGTGAAAGGAGTTGCTAAGTGTTGATTCCCC
62954031 GAATCACTGGTGGTTGCTAAGGGCTGAATCCAC
65 GAATCACTGGTGGTTGCTAAGGGCTGAATCCAC
62954064 CGAGTAACGG
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
117 24 0.28
118 63 0.72
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (117 bp):
GGTTGCTAAGTGCCGATTCCACCATAACTTGAATGTGAAAGGAGTTGCTAAGTGTTGATTCCCCG
AATCACTGGTGGTTGCTAAGGGCTGAATCCACTGTATCTTAAATGTGAAAGA
Found at i:62960913 original size:21 final size:22
Alignment explanation
Indices: 62960888--62960934 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
62960878 GTTTCGTTTC
*
62960888 AATTTTGTTTG-TTTGTTTAAT
1 AATTTTATTTGTTTTGTTTAAT
62960909 AA-TTTATTTGTTTTGTTTAAT
1 AATTTTATTTGTTTTGTTTAAT
62960930 AATTT
1 AATTT
62960935 ACTTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 14 0.61
22 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (22 bp):
AATTTTATTTGTTTTGTTTAAT
Found at i:62960935 original size:21 final size:20
Alignment explanation
Indices: 62960895--62960935 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
62960885 TTCAATTTTG
62960895 TTTGTTTGTTTAATAATTTA
1 TTTGTTTGTTTAATAATTTA
62960915 TTTGTTTTGTTTAATAATTTA
1 TTTG-TTTGTTTAATAATTTA
62960936 CTTAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTGTTTGTTTAATAATTTA
Found at i:62962299 original size:23 final size:23
Alignment explanation
Indices: 62962267--62962311 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
62962257 GCCTGCACAC
*
62962267 TTAACCCATTCCCATGCTACCCA
1 TTAACACATTCCCATGCTACCCA
62962290 TTAACACATTCCCATGCTACCC
1 TTAACACATTCCCATGCTACCC
62962312 GCAGCCCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.42, G:0.04, T:0.27
Consensus pattern (23 bp):
TTAACACATTCCCATGCTACCCA
Done.