Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 108 of 210
Found at i:36511562 original size:50 final size:50
Alignment explanation
Indices: 36511487--36511662 Score: 271
Period size: 50 Copynumber: 3.5 Consensus size: 50
36511477 ATTTGGGTAA
*
36511487 AGAGGTCCCATGTAAGACCATGTCTGGCACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
36511537 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
36511587 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
36511637 AGAACATCCCTTGTAAGACCATGTCT
1 AG-AGGTCCCATGTAAGACCATGTCT
36511663 TTGGCATGTT
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 96 0.83
51 19 0.17
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:36516893 original size:5 final size:5
Alignment explanation
Indices: 36516883--36516908 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36516873 TGAGCATTCG
36516883 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
36516909 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:36517921 original size:9 final size:9
Alignment explanation
Indices: 36517907--36517943 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
36517897 TATAGTTTGA
36517907 TATTCGAAT
1 TATTCGAAT
*
36517916 TATTCGAGT
1 TATTCGAAT
*
36517925 TATTCGAGT
1 TATTCGAAT
36517934 TATTCGAAT
1 TATTCGAAT
36517943 T
1 T
36517944 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:36518014 original size:9 final size:9
Alignment explanation
Indices: 36517997--36518027 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36517987 TCGAGTTGAT
36517997 TCGAATAAC
1 TCGAATAAC
*
36518006 TCGATTAAC
1 TCGAATAAC
36518015 TCGAATAAC
1 TCGAATAAC
36518024 TCGA
1 TCGA
36518028 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:36519027 original size:28 final size:28
Alignment explanation
Indices: 36518995--36519050 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
36518985 AACATTAAGT
36518995 ATAAATATTTAAGAACAGTTCTAACCTC
1 ATAAATATTTAAGAACAGTTCTAACCTC
36519023 ATAAATATTTAAGAACAGTTCTAACCTC
1 ATAAATATTTAAGAACAGTTCTAACCTC
36519051 GAACATTTTT
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:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (28 bp):
ATAAATATTTAAGAACAGTTCTAACCTC
Found at i:36519268 original size:16 final size:16
Alignment explanation
Indices: 36519247--36519282 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36519237 TAGTCTCATC
*
36519247 TAAATTAATAAAATTA
1 TAAATTAATAAAATGA
*
36519263 TAAATTAATATAATGA
1 TAAATTAATAAAATGA
36519279 TAAA
1 TAAA
36519283 ATTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TAAATTAATAAAATGA
Found at i:36521921 original size:421 final size:421
Alignment explanation
Indices: 36521137--36521978 Score: 1675
Period size: 421 Copynumber: 2.0 Consensus size: 421
36521127 TTAATTATTA
*
36521137 AATTAAAATAATACTTAAGTTATATACTTTTATAATATTATCTTAACAAACTCGTAATAACAAGG
1 AATTAAAATAATAATTAAGTTATATACTTTTATAATATTATCTTAACAAACTCGTAATAACAAGG
36521202 ATGAAGTAACGAAGATTGAGAATTTATACTTGAGTTTTATTTTGTATGAATAATTTGTGAAATTC
66 ATGAAGTAACGAAGATTGAGAATTTATACTTGAGTTTTATTTTGTATGAATAATTTGTGAAATTC
36521267 TCTTTATCATTATTCTTAAATATTTGCAAACATTTTTATCGGGAGAAATTACGAAATTGATATGA
131 TCTTTATCATTATTCTTAAATATTTGCAAACATTTTTATCGGGAGAAATTACGAAATTGATATGA
36521332 TTAAAAAATAAATATGAAACCTTAAAAAAATGTCACACGTCTAAAGCTGTTATTAGTAGAAATCT
196 TTAAAAAATAAATATGAAACCTTAAAAAAATGTCACACGTCTAAAGCTGTTATTAGTAGAAATCT
36521397 TTACTAATATTATTATGGGTGAACCATTCAATGTTGCTAAATTATTAGTAAGTTTACGTTGTGGT
261 TTACTAATATTATTATGGGTGAACCATTCAATGTTGCTAAATTATTAGTAAGTTTACGTTGTGGT
36521462 CACTCTACTTAAAAAAAATTACAAAATGATCATTGAATTATTTAAAAGTTACTATTTAAGTGAGT
326 CACTCTACTTAAAAAAAATTACAAAATGATCATTGAATTATTTAAAAGTTACTATTTAAGTGAGT
36521527 GGGTTGTTAGAATTGTTGATGTATGGTCTTC
391 GGGTTGTTAGAATTGTTGATGTATGGTCTTC
36521558 AATTAAAATAATAATTAAGTTATATACTTTTATAATATTATCTTAACAAACTCGTAATAACAAGG
1 AATTAAAATAATAATTAAGTTATATACTTTTATAATATTATCTTAACAAACTCGTAATAACAAGG
36521623 ATGAAGTAACGAAGATTGAGAATTTATACTTGAGTTTTATTTTGTATGAATAATTTGTGAAATTC
66 ATGAAGTAACGAAGATTGAGAATTTATACTTGAGTTTTATTTTGTATGAATAATTTGTGAAATTC
36521688 TCTTTATCATTATTCTTAAATATTTGCAAACATTTTTATCGGGAGAAATTACGAAATTGATATGA
131 TCTTTATCATTATTCTTAAATATTTGCAAACATTTTTATCGGGAGAAATTACGAAATTGATATGA
36521753 TTAAAAAATAAATATGAAACCTTAAAAAAATGTCACACGTCTAAAGCTGTTATTAGTAGAAATCT
196 TTAAAAAATAAATATGAAACCTTAAAAAAATGTCACACGTCTAAAGCTGTTATTAGTAGAAATCT
36521818 TTACTAATATTATTATGGGTGAACCATTCAATGTTGCTAAATTATTAGTAAGTTTACGTTGTGGT
261 TTACTAATATTATTATGGGTGAACCATTCAATGTTGCTAAATTATTAGTAAGTTTACGTTGTGGT
36521883 CACTCTACTTAAAAAAAATTACAAAATGATCATTGAATTATTTAAAAGTTACTATTTAAGTGAGT
326 CACTCTACTTAAAAAAAATTACAAAATGATCATTGAATTATTTAAAAGTTACTATTTAAGTGAGT
36521948 GGGTTGTTAGAATTGTTGATGTATGGTCTTC
391 GGGTTGTTAGAATTGTTGATGTATGGTCTTC
36521979 TATATTTGTA
Statistics
Matches: 420, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
421 420 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (421 bp):
AATTAAAATAATAATTAAGTTATATACTTTTATAATATTATCTTAACAAACTCGTAATAACAAGG
ATGAAGTAACGAAGATTGAGAATTTATACTTGAGTTTTATTTTGTATGAATAATTTGTGAAATTC
TCTTTATCATTATTCTTAAATATTTGCAAACATTTTTATCGGGAGAAATTACGAAATTGATATGA
TTAAAAAATAAATATGAAACCTTAAAAAAATGTCACACGTCTAAAGCTGTTATTAGTAGAAATCT
TTACTAATATTATTATGGGTGAACCATTCAATGTTGCTAAATTATTAGTAAGTTTACGTTGTGGT
CACTCTACTTAAAAAAAATTACAAAATGATCATTGAATTATTTAAAAGTTACTATTTAAGTGAGT
GGGTTGTTAGAATTGTTGATGTATGGTCTTC
Found at i:36524307 original size:21 final size:21
Alignment explanation
Indices: 36524260--36524312 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
36524250 TATAAACAAA
*
36524260 ATTAAATATTATGTAATTATT
1 ATTAAATAATATGTAATTATT
*
36524281 -TTAAATAATATGTCACTT-TT
1 ATTAAATAATATGT-AATTATT
*
36524301 ATTAAATTATAT
1 ATTAAATAATAT
36524313 ATTTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTAAATAATATGTAATTATT
Found at i:36526198 original size:16 final size:16
Alignment explanation
Indices: 36526177--36526212 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36526167 TAGTCTCCTC
*
36526177 TAAATTAATAAAATTA
1 TAAATTAATAAAATGA
*
36526193 TAAATTAATATAATGA
1 TAAATTAATAAAATGA
36526209 TAAA
1 TAAA
36526213 ATTATACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TAAATTAATAAAATGA
Found at i:36526578 original size:138 final size:139
Alignment explanation
Indices: 36526315--36526600 Score: 524
Period size: 138 Copynumber: 2.1 Consensus size: 139
36526305 ACTTCTTAAA
36526315 AAATTATAATTAAATTTTGACCCCTCTAAAAAAGTTTCTAGATTCATATCGACACTTTTGAATTC
1 AAATTATAATTAAATTTTGACCCCTCTAAAAAAGTTTCTAGATTCATATCGACACTTTTGAATTC
36526380 ACAATAACACTCAAATTCTAGACCTAGTTAAACAACCAAACACCTCCGAACGTAATTTGCAACTA
66 ACAATAACACTCAAATTCTAGACCTAGTTAAACAACCAAACACCTCCGAACGTAATTTGCAACTA
36526445 GACTACATC
131 GACTACATC
36526454 AAANTTATAATT-AA-TTTGACCCCTCTAAAAAAGTTTCTAGATTCATATCGACACTTTTGAATT
1 AAA-TTATAATTAAATTTTGACCCCTCTAAAAAAGTTTCTAGATTCATATCGACACTTTTGAATT
36526517 CACAATAACACTCAAATTCTAGACCTAGTTATAA-AACCAAACACCTCCGAACGTAATTTGCAAC
65 CACAATAACACTCAAATTCTAGACCTAGTTA-AACAACCAAACACCTCCGAACGTAATTTGCAAC
36526581 TAGACTACATC
129 TAGACTACATC
36526592 AAATATATA
1 AAAT-TATA
36526601 TATATATATA
Statistics
Matches: 144, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
137 1 0.01
138 128 0.89
139 7 0.05
140 8 0.06
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (139 bp):
AAATTATAATTAAATTTTGACCCCTCTAAAAAAGTTTCTAGATTCATATCGACACTTTTGAATTC
ACAATAACACTCAAATTCTAGACCTAGTTAAACAACCAAACACCTCCGAACGTAATTTGCAACTA
GACTACATC
Found at i:36540029 original size:65 final size:66
Alignment explanation
Indices: 36539912--36540035 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 66
36539902 AGTAATTTTG
* *
36539912 AAAAATAATAAGAGCTAAATTGATAAAAAGATGTAAACATTAAAGGTAAAATTTGACATTATACC
1 AAAAAGAATAAGAGCCAAATTGATAAAAAGATGTAAACATTAAAGGTAAAATTTGACATTATACC
36539977 A
66 A
* *
36539978 AAAAAGAATAAGAGCCAAGTTGA-AAAAAGATGTAAACGTT-AAGG-ACTAAATTTGACAT
1 AAAAAGAATAAGAGCCAAATTGATAAAAAGATGTAAACATTAAAGGTA--AAATTTGACAT
36540036 AATGCATTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
63 1 0.02
64 4 0.08
65 27 0.52
66 20 0.38
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.23
Consensus pattern (66 bp):
AAAAAGAATAAGAGCCAAATTGATAAAAAGATGTAAACATTAAAGGTAAAATTTGACATTATACC
A
Found at i:36540917 original size:2 final size:2
Alignment explanation
Indices: 36540910--36540938 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36540900 TCGGATTCTT
36540910 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36540939 AACAACAAAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36544814 original size:32 final size:27
Alignment explanation
Indices: 36544754--36544807 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36544744 ATGCAACGAG
36544754 GTGGATTCCCTGTTATTTACTTTTTTT
1 GTGGATTCCCTGTTATTTACTTTTTTT
36544781 GTGGATTCCCTGTTATTTACTTTTTTT
1 GTGGATTCCCTGTTATTTACTTTTTTT
36544808 TTTTTGTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (27 bp):
GTGGATTCCCTGTTATTTACTTTTTTT
Found at i:36558523 original size:23 final size:22
Alignment explanation
Indices: 36558484--36558527 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
36558474 AAATAGACTC
*
36558484 ATTCAGCTTCAATTTCATATATT
1 ATTCAGCCTCAATTTCA-ATATT
36558507 ATTCAGCCTCTAA-TTCAATAT
1 ATTCAGCCTC-AATTTCAATAT
36558528 CCACCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTCAGCCTCAATTTCAATATT
Found at i:36558712 original size:23 final size:22
Alignment explanation
Indices: 36558669--36558712 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
36558659 TTCTAAGTCG
36558669 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
36558692 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
36558713 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:36558822 original size:45 final size:45
Alignment explanation
Indices: 36558757--36558850 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
36558747 AATAGATACT
* * * *
36558757 CGGTGGATTCAGCACGTAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
* *
36558802 CGGTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
36558847 CGGT
1 CGGT
36558851 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:36558914 original size:51 final size:50
Alignment explanation
Indices: 36558856--36559026 Score: 209
Period size: 51 Copynumber: 3.4 Consensus size: 50
36558846 TCGGTTCACA
36558856 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATTCGATACACG
* * * * * * *
36558907 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGATACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATTCGATACACG
** *
36558958 TAGTAGCCTGCACATAGTACTACACATACGACC-TATCATTCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATT-CGATACACG
*
36559008 TAGTAGCTTGCACATAGTA
1 TAGTAGCCTGCACATAGTA
36559027 ATNNNNNNNN
Statistics
Matches: 100, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.03
50 26 0.26
51 69 0.69
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATTCGATACACG
Found at i:36570438 original size:29 final size:29
Alignment explanation
Indices: 36570405--36570464 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
36570395 TATAGTTAGC
36570405 ATGCCGTAGCATAGGAAGAGGTCAGGGTT
1 ATGCCGTAGCATAGGAAGAGGTCAGGGTT
*
36570434 ATGCCGTAGGATAGGAAGAGGTCAGGGTT
1 ATGCCGTAGCATAGGAAGAGGTCAGGGTT
36570463 AT
1 AT
36570465 ACGTGTCGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.38, T:0.22
Consensus pattern (29 bp):
ATGCCGTAGCATAGGAAGAGGTCAGGGTT
Found at i:36570544 original size:36 final size:36
Alignment explanation
Indices: 36570476--36570546 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
36570466 CGTGTCGGGG
* * *
36570476 AGTGTTGGGCACACCCATTTTTCGGTTATACCGACC
1 AGTGCTGGGCACACCCATTTGTCAGTTATACCGACC
* * *
36570512 AGTGCTGGGCACATCTATTTGTCAGTTTTACCGAC
1 AGTGCTGGGCACACCCATTTGTCAGTTATACCGAC
36570547 TAGCGTTGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (36 bp):
AGTGCTGGGCACACCCATTTGTCAGTTATACCGACC
Found at i:36572338 original size:14 final size:14
Alignment explanation
Indices: 36572319--36572348 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36572309 AAGAATGAGG
*
36572319 TTAAAATATTTTAC
1 TTAAAATATGTTAC
36572333 TTAAAATATGTTAC
1 TTAAAATATGTTAC
36572347 TT
1 TT
36572349 TTAGTACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (14 bp):
TTAAAATATGTTAC
Found at i:36573591 original size:17 final size:17
Alignment explanation
Indices: 36573566--36573603 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
36573556 TAAGGGACTA
*
36573566 AAAATAAATAAATAAAG
1 AAAAGAAATAAATAAAG
36573583 AAAAGAAATAAATAAAG
1 AAAAGAAATAAATAAAG
36573600 AAAA
1 AAAA
36573604 ATAGACAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAGAAATAAATAAAG
Found at i:36573762 original size:68 final size:67
Alignment explanation
Indices: 36573629--36573764 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 67
36573619 AAATCAATAA
* * *
36573629 ACCAATCATGAAGATTAACTCGTTTCAGGGTTGTAACTAACTTTGAATTTGGGATTTATGGTAGA
1 ACCAATCAGGAAGATTAACTCGTTTCAGGGTTGTAACTAACTTCGAATTTGGGATTTAGGGTAGA
36573694 TT
66 TT
*
36573696 ACCAATCAGGAAGATTAACTCAG-TTCAGGGTTTGTAACTAACTTCGAATTTGGGTTTTAGGGTA
1 ACCAATCAGGAAGATTAACTC-GTTTCAGGG-TTGTAACTAACTTCGAATTTGGGATTTAGGGTA
36573760 GATT
64 GATT
36573764 A
1 A
36573765 GCTATCGATT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
67 27 0.43
68 36 0.57
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (67 bp):
ACCAATCAGGAAGATTAACTCGTTTCAGGGTTGTAACTAACTTCGAATTTGGGATTTAGGGTAGA
TT
Found at i:36578352 original size:19 final size:19
Alignment explanation
Indices: 36578328--36578368 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
36578318 TGATCACACA
36578328 CATAATTAAATTGAATTAT
1 CATAATTAAATTGAATTAT
36578347 CATAATTAAATTGAATTAT
1 CATAATTAAATTGAATTAT
36578366 CAT
1 CAT
36578369 CAAGCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
CATAATTAAATTGAATTAT
Found at i:36579641 original size:19 final size:20
Alignment explanation
Indices: 36579594--36579643 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
36579584 TTTGCAAAAT
36579594 AAATACCAAAATCAAAATTA
1 AAATACCAAAATCAAAATTA
* *
36579614 AAGTCCCAAAA-CAAAATTA
1 AAATACCAAAATCAAAATTA
*
36579633 AAATTCCAAAA
1 AAATACCAAAA
36579644 GCCCGTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.62, C:0.18, G:0.02, T:0.18
Consensus pattern (20 bp):
AAATACCAAAATCAAAATTA
Found at i:36583015 original size:6 final size:6
Alignment explanation
Indices: 36583004--36583041 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
36582994 ATCTTGTGGC
* *
36583004 AAAAAG AAAAAG AAAAAG -AAAAG AAGAAG AAGAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
36583042 GAGATGGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:36583027 original size:17 final size:17
Alignment explanation
Indices: 36583005--36583041 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
36582995 TCTTGTGGCA
36583005 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGAAAAAG
* *
36583022 AAAAGAAGAAGAAGAAG
1 AAAAGAAAAAGAAAAAG
36583039 AAA
1 AAA
36583042 GAGATGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAG
Found at i:36586109 original size:7 final size:6
Alignment explanation
Indices: 36586065--36586106 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
36586055 TAAACGACCT
*
36586065 AAAAT- AAAATA AAAATA GAAATA AAAATA AATAATTA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AA-TA AAAAT
36586107 TAATATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 5 0.16
6 19 0.59
7 4 0.12
8 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:36596280 original size:21 final size:22
Alignment explanation
Indices: 36596250--36596291 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
36596240 CACTTCAAAA
*
36596250 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
36596272 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
36596292 AAAGTCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:36598459 original size:42 final size:43
Alignment explanation
Indices: 36598351--36598510 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
36598341 AGCTCGTACA
* * * *
36598351 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
36598394 ATGCCACTGTCTCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
36598436 ATGCTAATGTCCCAAACATGGTCTTACATGTAATTCTCAAAT-T-G
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AA--ATCAAATATCG
* * *
36598480 ATGCCAACGTTCCAGACGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
36598511 TAACACATAT
Statistics
Matches: 91, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 26 0.29
43 35 0.38
44 25 0.27
45 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:36607027 original size:10 final size:11
Alignment explanation
Indices: 36607007--36607031 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36606997 GAAAGGAACG
36607007 AAAAAGAAAAA
1 AAAAAGAAAAA
36607018 AAAAAGAAAAA
1 AAAAAGAAAAA
36607029 AAA
1 AAA
36607032 CAAAACAAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:36610950 original size:17 final size:17
Alignment explanation
Indices: 36610930--36610990 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
36610920 ATTTTAAGAT
36610930 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
36610947 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
36610966 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
36610984 TTATGTA
1 TTATGTA
36610991 GTGATTTAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 16 0.50
18 4 0.12
19 4 0.12
20 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:36610971 original size:37 final size:37
Alignment explanation
Indices: 36610925--36610996 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
36610915 TGTTAATTTT
* *
36610925 AAGATTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
36610962 AAGACTTATGTAATATTTTTAATTATGTAGTGATT
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATT
36610997 TAATTCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (37 bp):
AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:36613202 original size:55 final size:55
Alignment explanation
Indices: 36613141--36613251 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
36613131 TTATTAAATT
36613141 TTTTATATATTTTTCAAAAAATTATAA-TTTAAAAAAATATAAATATTAGAATTTC
1 TTTTATAT-TTTTTCAAAAAATTATAATTTTAAAAAAATATAAATATTAGAATTTC
* * ***
36613196 TTTTATATTTTTTTAAAAAATTGTAATTTTTTTAAAATATAAATATTAGAATTTC
1 TTTTATATTTTTTCAAAAAATTATAATTTTAAAAAAATATAAATATTAGAATTTC
36613251 T
1 T
36613252 ATAAATATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 16 0.32
55 34 0.68
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (55 bp):
TTTTATATTTTTTCAAAAAATTATAATTTTAAAAAAATATAAATATTAGAATTTC
Found at i:36621728 original size:43 final size:43
Alignment explanation
Indices: 36621652--36621884 Score: 276
Period size: 43 Copynumber: 5.4 Consensus size: 43
36621642 CAATATCATA
* * * * * *
36621652 TCCCAGATATGGTCTTAGATGTAATCTCGTATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAAT-G
*
36621696 -CCCAG-CTATGGTCTTACACGAAATCACATATCGATGCCACTG
1 TCCCAGAC-ATGGTCTTACACGAAATCACATATCGATGCCAATG
*
36621738 TCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATG
* *
36621781 TCCCAGACATGGTCTTACACGAATTCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATG
* * * *
36621824 TCCCAGACATGGTCTTACAC-AAATTATTATATTGATGCC-ATA
1 TCCCAGACATGGTCTTACACGAAATCA-CATATCGATGCCAATG
*
36621866 TCCCAGATATGGTCTTACA
1 TCCCAGACATGGTCTTACA
36621885 TGTAACCTCG
Statistics
Matches: 166, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
42 24 0.14
43 141 0.85
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAATG
Found at i:36625434 original size:65 final size:66
Alignment explanation
Indices: 36625365--36625579 Score: 216
Period size: 64 Copynumber: 3.4 Consensus size: 66
36625355 ATTTTTTACA
* * * * * * *
36625365 TATATATGCACATATGGTTCGAATATATATATT-TAAAGTTCTTGAGCTGTATTTAATGTATGAA
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
36625429 T
66 T
* *
36625430 TATATATACATATGTGGTTC-AA-ATATAGGTTACAAAGTTTTTGAGCGGAATTTAATGTATGAA
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
36625493 T
66 T
* * * *
36625494 TTTACATACATATGTGGTTCG-A-ATATAGGTTACAAA-TTCTTTGAGCTGAAATTTAATGT-TG
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTC-TTGAGC-GGAATTTAATGTATG
36625555 TAA-
64 -AAT
36625558 -AT-TATACATATGTGGTTCGAAT
1 TATATATACATATGTGGTTCGAAT
36625580 GTTTGTTTGA
Statistics
Matches: 128, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
62 16 0.12
63 11 0.09
64 71 0.55
65 30 0.23
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (66 bp):
TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
T
Found at i:36625485 original size:64 final size:64
Alignment explanation
Indices: 36625399--36625575 Score: 229
Period size: 64 Copynumber: 2.8 Consensus size: 64
36625389 ATATATATTT
* * *
36625399 AAAGTTCTTGAGCTGTATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGCGGAATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
* * *
36625463 AAAGTTTTTGAGCGGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTTTTGAGCGGAATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
*
36625527 AAA-TTCTTTGAGCTGAAATTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTT-TTTGAGC-GGAATTTAATGTATG-AATTATATATACATATGTGGTTC
36625576 GAATGTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
62 15 0.15
63 3 0.03
64 70 0.69
65 13 0.13
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (64 bp):
AAAGTTTTTGAGCGGAATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
Found at i:36628031 original size:28 final size:27
Alignment explanation
Indices: 36627992--36628092 Score: 139
Period size: 28 Copynumber: 3.6 Consensus size: 27
36627982 AGTAACAGTA
36627992 CAGTGTGTGCCTTAGCCCAATACAGAAT
1 CAGTGTG-GCCTTAGCCCAATACAGAAT
36628020 CAGTGTGAGCCTTAGCCCAATACAGAAT
1 CAGTGTG-GCCTTAGCCCAATACAGAAT
* *
36628048 TAGTGTTGGCCTTAGCCCAATACAAAAT
1 CAGTG-TGGCCTTAGCCCAATACAGAAT
*
36628076 TAGTGTGGGCCTTAGCC
1 CAGTGT-GGCCTTAGCC
36628093 TCACACAGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
27 1 0.01
28 65 0.96
29 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (27 bp):
CAGTGTGGCCTTAGCCCAATACAGAAT
Found at i:36628109 original size:56 final size:57
Alignment explanation
Indices: 36627986--36628109 Score: 150
Period size: 56 Copynumber: 2.2 Consensus size: 57
36627976 TTCAATAGTA
* *
36627986 ACAGT-ACAGTG-TGTGCCTTAGCCCAATACAGAATCAGTGTGAGCCTTAGCCCAAT
1 ACAGTAACAGTGTTGTGCCTTAGCCCAATACAAAATCAGTGTGAGCCTTAGCCCAAC
* * *
36628041 ACAG-AATTAGTGTTG-GCCTTAGCCCAATACAAAATTAGTGTGGGCCTTAGCCTC-AC
1 ACAGTAA-CAGTGTTGTGCCTTAGCCCAATACAAAATCAGTGTGAGCCTTAGCC-CAAC
36628097 ACAGTAACAGTGT
1 ACAGTAACAGTGT
36628110 GGCAATTGGG
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
55 5 0.09
56 48 0.83
57 5 0.09
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (57 bp):
ACAGTAACAGTGTTGTGCCTTAGCCCAATACAAAATCAGTGTGAGCCTTAGCCCAAC
Found at i:36628608 original size:27 final size:27
Alignment explanation
Indices: 36628578--36628638 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
36628568 TATAATCGTC
*
36628578 ATTTTACCC-TACGAGGGTATTTCGGTA
1 ATTTTACCCAT-CGAGGGTATTTCGATA
*
36628605 ATTTTATCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
36628632 ATTTTAC
1 ATTTTAC
36628639 AACCTTTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:36630011 original size:25 final size:25
Alignment explanation
Indices: 36629977--36630025 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
36629967 AACATCAACT
36629977 CTTGCCACACCTGTGAT-GCCACCTC
1 CTTGCCACACCTGTG-TCGCCACCTC
36630002 CTTGCCACACCTGTGTCGCCACCT
1 CTTGCCACACCTGTGTCGCCACCT
36630026 TGCCACTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.14, C:0.45, G:0.16, T:0.24
Consensus pattern (25 bp):
CTTGCCACACCTGTGTCGCCACCTC
Found at i:36630029 original size:22 final size:23
Alignment explanation
Indices: 36629977--36630031 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
36629967 AACATCAACT
36629977 CTTGCCACACCTGTGATGCCACCTC
1 CTTGCCACACCTGTGATGCCA-C-C
36630002 CTTGCCACACCTGTG-TCGCCA-C
1 CTTGCCACACCTGTGAT-GCCACC
36630024 CTTGCCAC
1 CTTGCCAC
36630032 TACACCACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.31
24 1 0.03
25 19 0.66
ACGTcount: A:0.15, C:0.45, G:0.16, T:0.24
Consensus pattern (23 bp):
CTTGCCACACCTGTGATGCCACC
Found at i:36638942 original size:21 final size:21
Alignment explanation
Indices: 36638913--36638954 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36638903 GTACAACTTA
*
36638913 AAGTGGAGGCAGCAGCAAGGG
1 AAGTAGAGGCAGCAGCAAGGG
*
36638934 AAGTAGAGGCGGCAGCAAGGG
1 AAGTAGAGGCAGCAGCAAGGG
36638955 TAGCAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.48, T:0.05
Consensus pattern (21 bp):
AAGTAGAGGCAGCAGCAAGGG
Found at i:36638964 original size:21 final size:21
Alignment explanation
Indices: 36638919--36638965 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36638909 CTTAAAGTGG
* *
36638919 AGGCAGCAGCAAGGGAAGTAG
1 AGGCAGCAGCAAGGGAAGCAA
* *
36638940 AGGCGGCAGCAAGGGTAGCAA
1 AGGCAGCAGCAAGGGAAGCAA
36638961 AGGCA
1 AGGCA
36638966 ACAAGAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.43, T:0.04
Consensus pattern (21 bp):
AGGCAGCAGCAAGGGAAGCAA
Found at i:36639409 original size:43 final size:43
Alignment explanation
Indices: 36639362--36639578 Score: 229
Period size: 43 Copynumber: 5.0 Consensus size: 43
36639352 CTTGCGGCAC
* * * * *
36639362 TTGTAAAAAAAACGCCGCTAAAAAACATATTCTTTAGCGGCGT
1 TTGTAAGAAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGT
* * *
36639405 TTGTAATAAAAGC-CTCGCTAAATATCATGTTCTATAGTGGCGT
1 TTGTAAGAAAAGCGC-CGCTAAAAATCATGTTCTATAGCGGCGT
* * *
36639448 TTGTAGGAAAAGTGCCGTTAAAAATCATGTTCTATAGCGGCGT
1 TTGTAAGAAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGT
* * * *
36639491 TTGTAGGAAAAGCACCGCGAAAGATCATGTTCTATAGCGGCGT
1 TTGTAAGAAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGT
* * ** * *
36639534 TTGTAGGGAAAGCGTTGCTAAAGATCATGTTCTATAGCGGTGT
1 TTGTAAGAAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGT
36639577 TT
1 TT
36639579 TCCACATAAA
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 146 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TTGTAAGAAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGT
Found at i:36639518 original size:86 final size:86
Alignment explanation
Indices: 36639369--36639578 Score: 260
Period size: 86 Copynumber: 2.4 Consensus size: 86
36639359 CACTTGTAAA
* * * * * * *
36639369 AAAAACGCCGCTAAAAAACATATTCTTTAGCGGCGTTTGTAATAAAAGCCTCGCTAAATATCATG
1 AAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGTTTGTAAGAAAAGCCTCGCGAAAGATCATG
*
36639434 TTCTATAGTGGCGTTTGTAGG
66 TTCTATAGCGGCGTTTGTAGG
* * *
36639455 AAAAGTGCCGTTAAAAATCATGTTCTATAGCGGCGTTTGTAGGAAAAGCAC-CGCGAAAGATCAT
1 AAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGTTTGTAAGAAAAGC-CTCGCGAAAGATCAT
36639519 GTTCTATAGCGGCGTTTGTAGG
65 GTTCTATAGCGGCGTTTGTAGG
* ** * *
36639541 GAAAGCGTTGCTAAAGATCATGTTCTATAGCGGTGTTT
1 AAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGTTT
36639579 TCCACATAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 104 0.99
87 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAAATCATGTTCTATAGCGGCGTTTGTAAGAAAAGCCTCGCGAAAGATCATG
TTCTATAGCGGCGTTTGTAGG
Found at i:36644770 original size:1 final size:1
Alignment explanation
Indices: 36644764--36644839 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
36644754 CAGTGGAGGC
* * * * * * * * * *
36644764 AAAAAAAAAACAAAAACAAAAAAACAACAAAAAAACAACAAAAAAACAAAAACAAAAACAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
36644829 AAAAGAAAAAA
1 AAAAAAAAAAA
36644840 CCTCTACCGG
Statistics
Matches: 53, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:36644786 original size:14 final size:13
Alignment explanation
Indices: 36644764--36644839 Score: 91
Period size: 14 Copynumber: 5.6 Consensus size: 13
36644754 CAGTGGAGGC
36644764 AAAAAAAAAACAA
1 AAAAAAAAAACAA
36644777 AAACAAAAAAACAA
1 AAA-AAAAAAACAA
*
36644791 CAAAAAAACAACAA
1 -AAAAAAAAAACAA
36644805 AAAAACAAAAAC-A
1 AAAAA-AAAAACAA
*
36644818 AAAACAAAAACAA
1 AAAAAAAAAACAA
36644831 AAGAAAAAA
1 AA-AAAAAA
36644840 CCTCTACCGG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
12 6 0.11
13 16 0.30
14 29 0.54
15 3 0.06
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:36644838 original size:6 final size:6
Alignment explanation
Indices: 36644763--36644832 Score: 83
Period size: 6 Copynumber: 11.8 Consensus size: 6
36644753 TCAGTGGAGG
* *
36644763 CAAAAA -AAAAA CAAAAA CAAAAA -AACAA CAAAAA -AACAACA AAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAA-AA-A CAAAAA
36644810 CAAAAA CAAAAA CAAAAA CAAAA
1 CAAAAA CAAAAA CAAAAA CAAAA
36644833 GAAAAAACCT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
5 11 0.20
6 40 0.71
7 3 0.05
8 2 0.04
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:36644840 original size:12 final size:11
Alignment explanation
Indices: 36644763--36644839 Score: 82
Period size: 11 Copynumber: 6.6 Consensus size: 11
36644753 TCAGTGGAGG
36644763 CAAAAAAAAAA
1 CAAAAAAAAAA
36644774 CAAAAACAAAAAAA
1 C--AAA-AAAAAAA
*
36644788 CAACAAAAAAA
1 CAAAAAAAAAA
*
36644799 CAACAAAAAAA
1 CAAAAAAAAAA
36644810 CAAAAACAAAAA
1 CAAAAA-AAAAA
*
36644822 CAAAAACAAAA
1 CAAAAAAAAAA
*
36644833 GAAAAAA
1 CAAAAAA
36644840 CCTCTACCGG
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
11 33 0.58
12 13 0.23
13 3 0.05
14 8 0.14
ACGTcount: A:0.84, C:0.14, G:0.01, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:36645299 original size:6 final size:6
Alignment explanation
Indices: 36645274--36645335 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
36645264 AACTTCACTT
*
36645274 GAAAAA -AAAAA GAAACAA -AAAGAA -AAAAA GGAAAA GAAAAA CGAAAAA
1 GAAAAA GAAAAA GAAA-AA GAAA-AA GAAAAA GAAAAA GAAAAA -GAAAAA
36645322 GAAAAGA GAAAAA G
1 GAAAA-A GAAAAA G
36645336 GAGAGGCCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 7 0.15
6 27 0.56
7 14 0.29
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:36645299 original size:19 final size:21
Alignment explanation
Indices: 36645277--36645321 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
36645267 TTCACTTGAA
36645277 AAAAAAAAG-AAACAAAAA-G
1 AAAAAAAAGAAAACAAAAACG
* *
36645296 AAAAAAAGGAAAAGAAAAACG
1 AAAAAAAAGAAAACAAAAACG
36645317 AAAAA
1 AAAAA
36645322 GAAAAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAAACAAAAACG
Found at i:36645313 original size:13 final size:13
Alignment explanation
Indices: 36645276--36645335 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
36645266 CTTCACTTGA
* *
36645276 AAAAAAAAAGAAAC
1 AAAAAGAAA-AAAG
36645290 AAAAAGAAAAAAAG
1 AAAAAG-AAAAAAG
* *
36645304 GAAAAGAAAAACG
1 AAAAAGAAAAAAG
*
36645317 AAAAAGAAAAGAG
1 AAAAAGAAAAAAG
36645330 AAAAAG
1 AAAAAG
36645336 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 22 0.58
14 13 0.34
15 3 0.08
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:36645327 original size:32 final size:30
Alignment explanation
Indices: 36645274--36645337 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
36645264 AACTTCACTT
*
36645274 GAAAAAAAAAAGAAACAAAAAGAAAAAAAG
1 GAAAAAAAAAAGAAAAAAAAAGAAAAAAAG
* *
36645304 GAAAAGAAAAACGAAAAAGAAAAGAGAAAAAG
1 GAAAA-AAAAAAGAAAAA-AAAAGAAAAAAAG
36645336 GA
1 GA
36645338 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.17
31 10 0.34
32 14 0.48
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (30 bp):
GAAAAAAAAAAGAAAAAAAAAGAAAAAAAG
Found at i:36645677 original size:45 final size:47
Alignment explanation
Indices: 36645609--36645696 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 47
36645599 TCCATTTTAT
* *
36645609 TCATTTTCGTATTTTTGACAAAATACGCCATCTTGATTAATTTATTC
1 TCATTTTCGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
** *
36645656 TCATTTT-GTATTCTAGA-AAAATTTGCTATCTTGATTAATTT
1 TCATTTTCGTATTCTAGACAAAATACGCCATCTTGATTAATTT
36645697 GTTCATTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 21 0.58
46 8 0.22
47 7 0.19
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (47 bp):
TCATTTTCGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
Found at i:36648280 original size:132 final size:132
Alignment explanation
Indices: 36648044--36648353 Score: 435
Period size: 132 Copynumber: 2.4 Consensus size: 132
36648034 NNNNNNNNNN
* * * * *
36648044 AAGCCAGTAGTTCTA-TCTCCCTGGGCAGCAGTGGAATAGATT-AAAACCACAGATCTTATCTCC
1 AAGCCAGAAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGACCACAGATATTATCTCC
* * * * *
36648107 CTAAGTAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACA
65 CTAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTAGAGTACA
36648172 TTG
130 TTG
* **
36648175 AAGCCAGAAATTCTACTTTCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATATTATCTCCC
1 AAGCCAGAAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGACCACAGATATTATCTCCC
*
36648240 TAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCTCTGAGATTACAGTAGAGTACAT
66 TAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTAGAGTACAT
36648305 TG
131 TG
* * * *
36648307 AAGCCAGTAGTTCTACTTCCCTGGACAACAGTGAAATAGATTGAAGA
1 AAGCCAGAAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGA
36648354 GCAGACGAAA
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
131 36 0.23
132 122 0.77
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
AAGCCAGAAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGACCACAGATATTATCTCCC
TAAGCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTAGAGTACAT
TG
Found at i:36652645 original size:23 final size:21
Alignment explanation
Indices: 36652597--36652636 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
36652587 TGTCCCTGTC
36652597 CCACACGGGTGTGTGCCTCAT
1 CCACACGGGTGTGTGCCTCAT
36652618 CCACAC-GGTCGTGTGCCTC
1 CCACACGGGT-GTGTGCCTC
36652637 CTCCGCACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGTGTGTGCCTCAT
Found at i:36656267 original size:12 final size:13
Alignment explanation
Indices: 36656243--36656271 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36656233 CGGCTTTCAA
36656243 TTTCTCAATTTTT
1 TTTCTCAATTTTT
36656256 TTTCTC-ATTTTT
1 TTTCTCAATTTTT
36656268 TTTC
1 TTTC
36656272 AATTGTACAT
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:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTCAATTTTT
Found at i:36659441 original size:14 final size:15
Alignment explanation
Indices: 36659422--36659454 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
36659412 TAAGAATTGG
36659422 ATAAAAAAA-TTTAT
1 ATAAAAAAAGTTTAT
36659436 ATAAAAAAAAGTTTAT
1 AT-AAAAAAAGTTTAT
36659452 ATA
1 ATA
36659455 TGAATCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.12
15 8 0.47
16 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAAAAAAAGTTTAT
Found at i:36659445 original size:16 final size:16
Alignment explanation
Indices: 36659424--36659454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36659414 AGAATTGGAT
36659424 AAAAAAATTTATATAA
1 AAAAAAATTTATATAA
*
36659440 AAAAAAGTTTATATA
1 AAAAAAATTTATATA
36659455 TGAATCGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAAAATTTATATAA
Found at i:36660921 original size:19 final size:19
Alignment explanation
Indices: 36660878--36660947 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
36660868 TTTTAGAATT
*
36660878 TATTTTGAAGTTTTTATAAA
1 TATTTTGAA-TTTTTAAAAA
36660898 TATTTTGAA-TTTTAAAAA
1 TATTTTGAATTTTTAAAAA
*
36660916 TCATTTTAAATTTTTAAAAA
1 T-ATTTTGAATTTTTAAAAA
36660936 TTATTTTGAATT
1 -TATTTTGAATT
36660948 ATTTTATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.20
19 7 0.16
20 27 0.61
21 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (19 bp):
TATTTTGAATTTTTAAAAA
Found at i:36661266 original size:22 final size:22
Alignment explanation
Indices: 36661238--36661281 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36661228 AAAATATGTA
36661238 TGAAGCATAAGAATTTTTTTGT
1 TGAAGCATAAGAATTTTTTTGT
36661260 TGAAGCATAAGAATTTTTTTGT
1 TGAAGCATAAGAATTTTTTTGT
36661282 CACCCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
TGAAGCATAAGAATTTTTTTGT
Found at i:36661289 original size:21 final size:22
Alignment explanation
Indices: 36661243--36661289 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
36661233 ATGTATGAAG
* *
36661243 CATAAGAATTTTTTTGTTGAAG
1 CATAAGAATTTTTTTGTTCAAC
*
36661265 CATAAGAATTTTTTTG-TCACC
1 CATAAGAATTTTTTTGTTCAAC
36661286 CATA
1 CATA
36661290 TAGTGAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
CATAAGAATTTTTTTGTTCAAC
Found at i:36663338 original size:42 final size:42
Alignment explanation
Indices: 36663279--36663367 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
36663269 ACACTCCGAA
*
36663279 TCAACCACCGTACTCTTTAGATCATCATCATTCTGCAAATTT
1 TCAACCAACGTACTCTTTAGATCATCATCATTCTGCAAATTT
36663321 TCAACCAACGTACTCTTTAGATCATCATCATTCTGCAAATTT
1 TCAACCAACGTACTCTTTAGATCATCATCATTCTGCAAATTT
36663363 TCAAC
1 TCAAC
36663368 TTCCTCATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (42 bp):
TCAACCAACGTACTCTTTAGATCATCATCATTCTGCAAATTT
Found at i:36667989 original size:308 final size:308
Alignment explanation
Indices: 36667441--36668019 Score: 878
Period size: 308 Copynumber: 1.9 Consensus size: 308
36667431 TTTAATAAAC
36667441 AAATCAAACTTTTATTATTTTGGAGGACTAAAGTACAATTTTACCATTACTAATTTAAAATTTTA
1 AAATCAAACTTTTATTATTTTGGAGGACTAAAGTACAATTTTACCATTACTAATTTAAAATTTTA
* * *
36667506 TAACTTATAAAAGGCCTAACTGAAAATTTTCTATTTTAGGGGTGAGTCAAGGCCCCTGCCTGCCC
66 TAACTTATAAAAGGCCTAAATGAAAATTTTCCATTTTAAGGGTGAGTCAAGGCCCCTGCCTGCCC
* * * * *
36667571 CTCTTAGCTCCGTCACTGCAAATGACATTCACCTTCCAAACTTTACCTATACAGCGACACTCTAG
131 CTCTTAGCTCCGCCACTGCAAATGACATTCACCTTCCAAACTTTACCTACACAACCACACTCTAA
* * * *
36667636 AGATGTTTTATGTAATTTTGTAGGACTTGCTTCTTTGTGGTGTTTTTTTTTACAGCAATGCTTTA
196 AGATGTTTTATGTAATTTTGTAGGACTTACTTCTTTGTAGTG-TTTTTCTTACAACAATGCTTTA
36667701 AGATTGTTTATTACTTCATTTATGAAATTAAATCAAAATTTTAAAGGAT
260 AGATTGTTTATTACTTCATTTATGAAATTAAATCAAAATTTTAAAGGAT
* * * *
36667750 AAATCAAATTTTTATTATTTT-TAGGAGCTAAAGTGCAATTTTACCATT-TTCAATTTAAAATTT
1 AAATCAAACTTTTATTATTTTGGAGGA-CTAAAGTACAATTTTACCATTACT-AATTTAAAATTT
* **
36667813 TATAACTTATAAAAGGGCTAAATGTAAAATTTTCCATTTTAAGGG-G-GTCGGGGCCCCTGCCTG
64 TATAACTTATAAAAGGCCTAAATG-AAAATTTTCCATTTTAAGGGTGAGTCAAGGCCCCTGCCTG
* * *
36667876 CCCCTCTTGGCTCTGCCACTGCAAATGACATTCACCTTGCAAACTTTACCTACACAACCACACTC
128 CCCCTCTTAGCTCCGCCACTGCAAATGACATTCACCTTCCAAACTTTACCTACACAACCACACTC
*
36667941 TAAAGATGTTTTATGTAGTTTTGTAGGACTTACTTCTTTGTAGTGTTTTTCTTACAACAATGCTT
193 TAAAGATGTTTTATGTAATTTTGTAGGACTTACTTCTTTGTAGTGTTTTTCTTACAACAATGCTT
*
36668006 TGAGATTGTTTATT
258 TAAGATTGTTTATT
36668020 CTATTTTCTA
Statistics
Matches: 243, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
307 31 0.13
308 119 0.49
309 75 0.31
310 18 0.07
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (308 bp):
AAATCAAACTTTTATTATTTTGGAGGACTAAAGTACAATTTTACCATTACTAATTTAAAATTTTA
TAACTTATAAAAGGCCTAAATGAAAATTTTCCATTTTAAGGGTGAGTCAAGGCCCCTGCCTGCCC
CTCTTAGCTCCGCCACTGCAAATGACATTCACCTTCCAAACTTTACCTACACAACCACACTCTAA
AGATGTTTTATGTAATTTTGTAGGACTTACTTCTTTGTAGTGTTTTTCTTACAACAATGCTTTAA
GATTGTTTATTACTTCATTTATGAAATTAAATCAAAATTTTAAAGGAT
Found at i:36669648 original size:29 final size:29
Alignment explanation
Indices: 36669615--36669673 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
36669605 GTTTTAGTAA
36669615 TAGTTTCATGTCTATTTTGATTATTTGAG
1 TAGTTTCATGTCTATTTTGATTATTTGAG
36669644 TAGTTTCATGTCTATTTTGATTATTTGAG
1 TAGTTTCATGTCTATTTTGATTATTTGAG
36669673 T
1 T
36669674 GTGAAAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (29 bp):
TAGTTTCATGTCTATTTTGATTATTTGAG
Found at i:36669683 original size:29 final size:29
Alignment explanation
Indices: 36669622--36669683 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
36669612 TAATAGTTTC
***
36669622 ATGTCTATTTTGATTATTTGAGTAGTTTC
1 ATGTCTATTTTGATTATTTGAGTAGTAAA
36669651 ATGTCTATTTTGATTATTTGAGT-GTGAAA
1 ATGTCTATTTTGATTATTTGAGTAGT-AAA
36669680 ATGT
1 ATGT
36669684 TGTAGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.52
Consensus pattern (29 bp):
ATGTCTATTTTGATTATTTGAGTAGTAAA
Found at i:36679270 original size:93 final size:93
Alignment explanation
Indices: 36679111--36679296 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
36679101 TTACGTTAGG
36679111 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
1 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
36679176 TATTATGCGAAGCATAGTTTTGTATGAT
66 TATTATGCGAAGCATAGTTTTGTATGAT
36679204 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
1 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
*
36679269 TATTATGTGAAGCATAGTTTTGTATGAT
66 TATTATGCGAAGCATAGTTTTGTATGAT
36679297 TGTGTTATTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (93 bp):
AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
TATTATGCGAAGCATAGTTTTGTATGAT
Found at i:36687536 original size:23 final size:23
Alignment explanation
Indices: 36687510--36687587 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
36687500 TAGCACTTGA
*
36687510 GAATTTAGCACTTCGGTGCTCCT
1 GAATTTAGCACTTTGGTGCTCCT
*
36687533 GAATTTAACACTTTGGTGCTCCT
1 GAATTTAGCACTTTGGTGCTCCT
* *
36687556 GAATCTAGCATTTTGGTGCTCCT
1 GAATTTAGCACTTTGGTGCTCCT
36687579 -AATTTAGCA
1 GAATTTAGCA
36687588 GTTATGTGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
22 8 0.16
23 41 0.84
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (23 bp):
GAATTTAGCACTTTGGTGCTCCT
Found at i:36688962 original size:23 final size:23
Alignment explanation
Indices: 36688936--36689034 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
36688926 ATAAGTGCCA
*
36688936 CACTGATATGTAGCCAAAGTTAC
1 CACTGATATGTAGCCAAAGCTAC
**
36688959 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
*
36688982 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
* * *
36689005 CATTGATATGTAACCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
*
36689028 CTCTGAT
1 CACTGAT
36689035 CAATAACACT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCAAAGCTAC
Found at i:36689006 original size:46 final size:46
Alignment explanation
Indices: 36688936--36689033 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
36688926 ATAAGTGCCA
* * * *
36688936 CACTGATATGTAGCCAAAGTTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCAAAGCTACCACTGATATGTAACCGAAGCTAC
*
36688982 CACTGAAATGTAGCCAAAGCTACCATTGATATGTAACCGAAGCTAC
1 CACTGAAATGTAGCCAAAGCTACCACTGATATGTAACCGAAGCTAC
*
36689028 CTCTGA
1 CACTGA
36689034 TCAATAACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCAAAGCTACCACTGATATGTAACCGAAGCTAC
Found at i:36689692 original size:45 final size:45
Alignment explanation
Indices: 36689642--36689767 Score: 252
Period size: 45 Copynumber: 2.8 Consensus size: 45
36689632 CACAAAATCA
36689642 CAACTTTATGCACACTTTACTATCTTTCACAATTTAGTCTTTTTT
1 CAACTTTATGCACACTTTACTATCTTTCACAATTTAGTCTTTTTT
36689687 CAACTTTATGCACACTTTACTATCTTTCACAATTTAGTCTTTTTT
1 CAACTTTATGCACACTTTACTATCTTTCACAATTTAGTCTTTTTT
36689732 CAACTTTATGCACACTTTACTATCTTTCACAATTTA
1 CAACTTTATGCACACTTTACTATCTTTCACAATTTA
36689768 CTATCTTTCA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.26, C:0.23, G:0.04, T:0.47
Consensus pattern (45 bp):
CAACTTTATGCACACTTTACTATCTTTCACAATTTAGTCTTTTTT
Found at i:36689767 original size:17 final size:17
Alignment explanation
Indices: 36689742--36689778 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
36689732 CAACTTTATG
*
36689742 CACACTTTACTATCTTT
1 CACAATTTACTATCTTT
36689759 CACAATTTACTATCTTT
1 CACAATTTACTATCTTT
36689776 CAC
1 CAC
36689779 TTTATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (17 bp):
CACAATTTACTATCTTT
Found at i:36691380 original size:14 final size:14
Alignment explanation
Indices: 36691361--36691388 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36691351 ATATTATTGA
36691361 AAAAGTATGAAATT
1 AAAAGTATGAAATT
36691375 AAAAGTATGAAATT
1 AAAAGTATGAAATT
36691389 GATGTTAATG
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:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (14 bp):
AAAAGTATGAAATT
Found at i:36695262 original size:32 final size:32
Alignment explanation
Indices: 36695207--36695379 Score: 213
Period size: 32 Copynumber: 5.4 Consensus size: 32
36695197 GAATGGCTAC
* * *
36695207 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
36695238 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
36695270 TAGCCATCAGTATCGGTAATATGATCGACATA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
36695302 AAGCCATCAGTAACGGTAATATGACCAGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
36695334 AAGTCGTCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
36695366 AAGCCATCAGTAAC
1 AAGCCATCAGTAAC
36695380 ATCGTAGTAA
Statistics
Matches: 119, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 10 0.08
32 109 0.92
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:36695590 original size:24 final size:24
Alignment explanation
Indices: 36695549--36695611 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
36695539 TCATGCTCAG
** *
36695549 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
* *
36695573 AATCAGTCATTTACATCACGGATA
1 AATCAGTCATTTACATCACAGACA
*
36695597 AATCAATCATTTACA
1 AATCAGTCATTTACA
36695612 CTCGAGGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAGACA
Found at i:36695674 original size:27 final size:27
Alignment explanation
Indices: 36695628--36695880 Score: 258
Period size: 27 Copynumber: 9.4 Consensus size: 27
36695618 GGGCAAAATA
* * *
36695628 GTCA-TTTACCCTCCAGGGGCATTATG
1 GTCATTTTACCCTACAAGGGCATTACG
* *
36695654 GTCATTTTACCCTATAAGGGCATTACA
1 GTCATTTTACCCTACAAGGGCATTACG
* *
36695681 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* *** *
36695708 GTCATTTTATCCTATGGGGGTATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* * * *
36695735 GTCATTTTACCCTACATGAGTATTACA
1 GTCATTTTACCCTACAAGGGCATTACG
* *
36695762 GTCATTTTATCCTA-TAGGGACATTACG
1 GTCATTTTACCCTACAAGGG-CATTACG
* * *
36695789 GTCTTTTTACCCTACATGGGCATTACA
1 GTCATTTTACCCTACAAGGGCATTACG
* *
36695816 TTCATTTTACCCTACAAGGACATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
*
36695843 GTCATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
*
36695870 GTCATTATACC
1 GTCATTTTACC
36695881 TATTTTAGGG
Statistics
Matches: 184, Mismatches: 40, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
26 6 0.03
27 175 0.95
28 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCATTACG
Found at i:36695702 original size:54 final size:54
Alignment explanation
Indices: 36695628--36695880 Score: 285
Period size: 54 Copynumber: 4.7 Consensus size: 54
36695618 GGGCAAAATA
* * *
36695628 GTCA-TTTACCCTCCAGGGGCATTATGGTCATTTTACCCTATAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGCATTACG
* * ** *
36695681 ATCATTTTACCCTACAGGGGCATTACGGTCATTTTATCCTATGGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGCATTACG
* * * * *
36695735 GTCATTTTACCCTACATGAGTATTACAGTCATTTTATCCTAT-AGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAAGGG-CATTACG
* * ** * *
36695789 GTCTTTTTACCCTACATGGGCATTACATTCATTTTACCCTACAAGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGCATTACG
* * *
36695843 GTCATTTTACCCTATAAGGGCATTACGGTCATTATACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACC
36695881 TATTTTAGGG
Statistics
Matches: 169, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
53 6 0.04
54 160 0.95
55 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAAGGGCATTACG
Found at i:36715425 original size:34 final size:34
Alignment explanation
Indices: 36715387--36715483 Score: 194
Period size: 34 Copynumber: 2.9 Consensus size: 34
36715377 AAAGCTTTGA
36715387 TTACATGGGTTACATATTGTTTTAAGCATCTCAT
1 TTACATGGGTTACATATTGTTTTAAGCATCTCAT
36715421 TTACATGGGTTACATATTGTTTTAAGCATCTCAT
1 TTACATGGGTTACATATTGTTTTAAGCATCTCAT
36715455 TTACATGGGTTACATATTGTTTTAAGCAT
1 TTACATGGGTTACATATTGTTTTAAGCAT
36715484 TTTATTTGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (34 bp):
TTACATGGGTTACATATTGTTTTAAGCATCTCAT
Found at i:36717051 original size:76 final size:78
Alignment explanation
Indices: 36716922--36717064 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 78
36716912 TTGGACTTGG
* *
36716922 TTAAAGGTATGAATGTTATATATATGTATATGTGAGTTGGAACATATATGTATACT-CATGAATA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATA-TACATGAATA
36716986 AGTCTTGACTATAT
65 AGTCTTGACTATAT
* * * * *
36717000 TTAAAGGTATGAATG-T-TATGTATGTATATGTAATTTCGAATATGTATGTATATACATGTATAA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
36717063 GT
66 GT
36717065 TTTTGTATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.02
76 40 0.70
77 1 0.02
78 15 0.26
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (78 bp):
TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
GTCTTGACTATAT
Found at i:36722687 original size:323 final size:324
Alignment explanation
Indices: 36722088--36722739 Score: 1297
Period size: 323 Copynumber: 2.0 Consensus size: 324
36722078 AGATCTATGT
36722088 AATTTATAAGTGAGAAATTTAATTTTATTAAAACATTTTTAAACTGATGTGAAAATAAATAAAAA
1 AATTTATAAGTGAGAAATTTAATTTTATTAAAACATTTTTAAACTGATGTGAAAATAAATAAAAA
36722153 ATAACTAAGGGTGTTTAATAAAATATTCAAATTTTTATTGTCTTGAAGAAATTTCAAATTATTTT
66 ATAACTAAGGGTGTTTAATAAAATATTCAAATTTTTATTGTCTTGAAGAAATTTCAAATTATTTT
36722218 TAGAAATGTATTTGATAATTATATTTGTTTTTACTTAATACAAAATTTTTTTTAAAAAAATGTTA
131 TAGAAATGTATTTGATAATTATATTTGTTTTTACTTAATACAAAATTTTTTTTAAAAAAATGTTA
36722283 AATAAGATAAGTAGATAAATAGTTAATTATCACACAATGTTGAAAAATATTAAATGGATTATATT
196 AATAAGATAAGTAGATAAATAGTTAATTATCACACAATGTTGAAAAATATTAAATGGATTATATT
36722348 TTTAAATATATATGATGTAACAGCCCGTTTTTCAATGTTGCTGGAAACAGTGGTTCCGGATCAC
261 TTTAAATATATATGATGTAACAGCCCGTTTTTCAATGTTGCTGGAAACAGTGGTTCCGGATCAC
36722412 AATTTATAAG-GAGAAATTTAATTTTATTAAAACATTTTTAAACTGATGTGAAAATAAATAAAAA
1 AATTTATAAGTGAGAAATTTAATTTTATTAAAACATTTTTAAACTGATGTGAAAATAAATAAAAA
36722476 ATAACTAAGGGTGTTTAATAAAATATTCAAATTTTTATTGTCTTGAAGAAATTTCAAATTATTTT
66 ATAACTAAGGGTGTTTAATAAAATATTCAAATTTTTATTGTCTTGAAGAAATTTCAAATTATTTT
36722541 TAGAAATGTATTTGATAATTATATTTGTTTTTACTTAATACAAAATTTTTTTTAAAAAAATGTTA
131 TAGAAATGTATTTGATAATTATATTTGTTTTTACTTAATACAAAATTTTTTTTAAAAAAATGTTA
36722606 AATAAGATAAGTAGATAAATAGTTAATTATCACACAATGTTGAAAAATATTAAATGGATTATATT
196 AATAAGATAAGTAGATAAATAGTTAATTATCACACAATGTTGAAAAATATTAAATGGATTATATT
36722671 TTTAAATATATATGATGTAACAGCCCGTTTTTCAATGTTGCTGGAAACAGTGGTTCCGGATCAC
261 TTTAAATATATATGATGTAACAGCCCGTTTTTCAATGTTGCTGGAAACAGTGGTTCCGGATCAC
36722735 AATTT
1 AATTT
36722740 TGACATGTGA
Statistics
Matches: 328, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
323 318 0.97
324 10 0.03
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (324 bp):
AATTTATAAGTGAGAAATTTAATTTTATTAAAACATTTTTAAACTGATGTGAAAATAAATAAAAA
ATAACTAAGGGTGTTTAATAAAATATTCAAATTTTTATTGTCTTGAAGAAATTTCAAATTATTTT
TAGAAATGTATTTGATAATTATATTTGTTTTTACTTAATACAAAATTTTTTTTAAAAAAATGTTA
AATAAGATAAGTAGATAAATAGTTAATTATCACACAATGTTGAAAAATATTAAATGGATTATATT
TTTAAATATATATGATGTAACAGCCCGTTTTTCAATGTTGCTGGAAACAGTGGTTCCGGATCAC
Found at i:36723954 original size:125 final size:124
Alignment explanation
Indices: 36723733--36723968 Score: 280
Period size: 125 Copynumber: 1.9 Consensus size: 124
36723723 AAAGGTGACA
* *
36723733 AGTAAAAGTTTAGGGGGAAAATAAAAAATTTTGAAAGTTGAGGGAGTAAAATTTAGGGGGTAGAA
1 AGTAAAAGTTTAGGGGAAAAATAAAAAATTTTGAAAGTTGAGGGAGTAAAATTTAGGGGGGAGAA
* * ** * * *
36723798 TATTAAAAAAAATTGGAGGGGGGGAGGGTTTGGGGTAGAATGGGGTGAAATGAGATAGG
66 TATTAAAAAAAAATGGAGGAGGAAAGAGTTTGCGGTAGAAAGGGGTGAAATGAGATAGG
* * * ** *
36723857 AGTAAAAGTTTTGGGGAAAAAATAAGAAGTTTTGACGGTTGAGGGAGTAAAATTTTGGGGGGA-A
1 AGTAAAAGTTTAGGGG-AAAAATAAAAAATTTTGAAAGTTGAGGGAGTAAAATTTAGGGGGGAGA
36723921 ATATTCAAAAAGAAAAT-G-GGAGGAAATGAGTTTGCGGTAGAAAGGGGT
65 ATATT-AAAAA-AAAATGGAGGAGGAAA-GAGTTTGCGGTAGAAAGGGGT
36723969 TGGGATGGGA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
124 26 0.28
125 63 0.68
126 4 0.04
ACGTcount: A:0.39, C:0.01, G:0.36, T:0.24
Consensus pattern (124 bp):
AGTAAAAGTTTAGGGGAAAAATAAAAAATTTTGAAAGTTGAGGGAGTAAAATTTAGGGGGGAGAA
TATTAAAAAAAAATGGAGGAGGAAAGAGTTTGCGGTAGAAAGGGGTGAAATGAGATAGG
Found at i:36724025 original size:30 final size:30
Alignment explanation
Indices: 36723974--36724034 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
36723964 GGGGTTGGGA
*
36723974 TGGGAGGAGAATAAAAGTTTTGGGGGGAAAG
1 TGGGAGGAGAATAAAAATTTT-GGGGGAAAG
*
36724005 TGGGAGG-GAGTAAAAATTTTGGGGGAAAG
1 TGGGAGGAGAATAAAAATTTTGGGGGAAAG
36724034 T
1 T
36724035 AGATAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.44, T:0.21
Consensus pattern (30 bp):
TGGGAGGAGAATAAAAATTTTGGGGGAAAG
Found at i:36724104 original size:18 final size:18
Alignment explanation
Indices: 36724081--36724119 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
36724071 ATTATAGTTT
36724081 ATTATTCG-GTTTATTCGA
1 ATTATTCGAG-TTATTCGA
36724099 ATTATTCGAGTTATTCGA
1 ATTATTCGAGTTATTCGA
36724117 ATT
1 ATT
36724120 CGAAAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (18 bp):
ATTATTCGAGTTATTCGA
Found at i:36725709 original size:37 final size:38
Alignment explanation
Indices: 36725630--36725725 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 38
36725620 CACTCCGACC
* * ** *
36725630 ACCCTACATACCACAATTGTGCTATGGTAGGCCCGTCC
1 ACCCTACACACCACAATAGTGCTATAATAGGCCCGTCA
* *
36725668 ACCCTACACACCACAATAG-GCTATAATATGCTCGTCA
1 ACCCTACACACCACAATAGTGCTATAATAGGCCCGTCA
*
36725705 ACCCTACACAGCACAATAGTG
1 ACCCTACACACCACAATAGTG
36725726 GGTCTAAGCC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 31 0.63
38 18 0.37
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (38 bp):
ACCCTACACACCACAATAGTGCTATAATAGGCCCGTCA
Found at i:36726984 original size:18 final size:18
Alignment explanation
Indices: 36726961--36726997 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36726951 AAAGTGAGAA
36726961 AACGTGAGAGAAGTTGAG
1 AACGTGAGAGAAGTTGAG
36726979 AACGTGAGAGAAGTTGAG
1 AACGTGAGAGAAGTTGAG
36726997 A
1 A
36726998 CTATTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
AACGTGAGAGAAGTTGAG
Found at i:36727445 original size:18 final size:18
Alignment explanation
Indices: 36727409--36727446 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36727399 GGTCATATGC
*
36727409 ATGTATTTGAGTATTATA
1 ATGTATTTGAGAATTATA
36727427 ATGTATTTG-GAATTGATA
1 ATGTATTTGAGAATT-ATA
36727445 AT
1 AT
36727447 TTGACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (18 bp):
ATGTATTTGAGAATTATA
Found at i:36728695 original size:19 final size:17
Alignment explanation
Indices: 36728654--36728705 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 17
36728644 ACCTATGTGG
* *
36728654 GGCCCACAAGCCCATTG
1 GGCCCACAGGCCCATTC
36728671 GGCCCACACGGCCCATTTC
1 GGCCCACA-GGCCCA-TTC
36728690 GGCCCAACATGGCCCA
1 GGCCC-ACA-GGCCCA
36728706 AAACAGCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
19 7 0.24
20 9 0.31
ACGTcount: A:0.21, C:0.44, G:0.23, T:0.12
Consensus pattern (17 bp):
GGCCCACAGGCCCATTC
Found at i:36729959 original size:23 final size:23
Alignment explanation
Indices: 36729929--36729974 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36729919 AACAAAATTT
36729929 TGTGCACAAGCCCAAGCTTGAAC
1 TGTGCACAAGCCCAAGCTTGAAC
36729952 TGTGCACAAGCCCAAGCTTGAAC
1 TGTGCACAAGCCCAAGCTTGAAC
36729975 CCAAGACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.17
Consensus pattern (23 bp):
TGTGCACAAGCCCAAGCTTGAAC
Found at i:36735420 original size:965 final size:966
Alignment explanation
Indices: 36733540--36735470 Score: 3855
Period size: 965 Copynumber: 2.0 Consensus size: 966
36733530 TTATTTAAAA
36733540 AATATTTATATTATATTATTTTAATATTTAGTATTTTGTTTTCATTTATTAAAAATTTGATATGA
1 AATATTTATATTATATTATTTTAATATTTAGTATTTTGTTTTCATTTATTAAAAATTTGATATGA
36733605 GTTTTTTTATTGTCTAATAATAAATTTAGTTCTCTAATATTTAAATATTCTATCAATTTGATTCT
66 GTTTTTTTATTGTCTAATAATAAATTTAGTTCTCTAATATTTAAATATTCTATCAATTTGATTCT
36733670 AAACTTAAAAAGTTAACAAATCTTATCAAGAAACAACTTGACTCTCTCTCACTCTCGACAATACA
131 AAACTTAAAAAGTTAACAAATCTTATCAAGAAACAACTTGACTCTCTCTCACTCTCGACAATACA
36733735 CACCCACGGCCCTCTCATCAACCACTATACGCTATGCATTACCATCTTCAACACAACCTCATCAT
196 CACCCACGGCCCTCTCATCAACCACTATACGCTATGCATTACCATCTTCAACACAACCTCATCAT
36733800 CATCATTTTCTCTGACCACCTTTCTTTCGACCCAAAATCAATAGCCAAAAGTGGTTGAAACAAGC
261 CATCATTTTCTCTGACCACCTTTCTTTCGACCCAAAATCAATAGCCAAAAGTGGTTGAAACAAGC
36733865 ACAAACATCACTAACTCACCATTTCCCCATTTGCCCAATGTTATCACCACCATTTTCCCCTTTAA
326 ACAAACATCACTAACTCACCATTTCCCCATTTGCCCAATGTTATCACCACCATTTTCCCCTTTAA
36733930 CTCTTACGCACCACTCTTACCAACCATCTACTTGAGACCCGCTATGCACCAAGACTCACTTATTT
391 CTCTTACGCACCACTCTTACCAACCATCTACTTGAGACCCGCTATGCACCAAGACTCACTTATTT
36733995 CTCACCATCTAGCTTTTGACCCTTAACCCAAAATCAACCCAAAATTTTAACGCCCCAAAATCCAG
456 CTCACCATCTAGCTTTTGACCCTTAACCCAAAATCAACCCAAAATTTTAACGCCCCAAAATCCAG
36734060 TCTAGAAGTTTATACTGGATCTCGGAGGTCACATTGATCATCGAAGCTATCGTAGAAAAACTTTA
521 TCTAGAAGTTTATACTGGATCTCGGAGGTCACATTGATCATCGAAGCTATCGTAGAAAAACTTTA
36734125 CCAAACGTGCTATCCAAAAGTCTAGTTACAAACACACTGTGCCAAATTCAAATAAAACATTCAAT
586 CCAAACGTGCTATCCAAAAGTCTAGTTACAAACACACTGTGCCAAATTCAAATAAAACATTCAAT
36734190 CATTTAAAAATTCAAACGGATACTTTAGGTTATGTTTAAAATATTTGAGAACACAAATCCGCAGT
651 CATTTAAAAATTCAAACGGATACTTTAGGTTATGTTTAAAATATTTGAGAACACAAATCCGCAGT
36734255 CTCTGAAATTCAGTCCAAAATAAAATTTTCGAAAACCCAAAACAAAACTCATACCACAGTTTTTA
716 CTCTGAAATTCAGTCCAAAATAAAATTTTCGAAAACCCAAAACAAAACTCATACCACAGTTTTTA
36734320 TAATTGTTTACGATAAAAAATGGCTCAACAAAAATAAAAACTGAGAAAAGAATCGATTAGCTCAT
781 TAATTGTTTACGATAAAAAATGGCTCAACAAAAATAAAAACTGAGAAAAGAATCGATTAGCTCAT
36734385 TTCAAAATATGTCACTTCAAGACCTCTGGTATATCGAGTCCAGCTTCAGTTATGAGAGTACCTGA
846 TTCAAAATATGTCACTTCAAGACCTCTGGTATATCGAGTCCAGCTTCAGTTATGAGAGTACCTGA
36734450 AAGGGAAAACTAATGGGGTGAGCTACACGAGCTCAGTGTGAGTCCGAAACTAAACG
911 AAGGGAAAACTAATGGGGTGAGCTACACGAGCTCAGTGTGAGTCCGAAACTAAACG
36734506 AATATTTATA-TATATTATTTTAATATTTAGTATTTTGTTTTCATTTATTAAAAATTTGATATGA
1 AATATTTATATTATATTATTTTAATATTTAGTATTTTGTTTTCATTTATTAAAAATTTGATATGA
36734570 GTTTTTTTATTGTCTAATAATAAATTTAGTTCTCTAATATTTAAATATTCTATCAATTTGATTCT
66 GTTTTTTTATTGTCTAATAATAAATTTAGTTCTCTAATATTTAAATATTCTATCAATTTGATTCT
36734635 AAACTTAAAAAGTTAACAAATCTTATCAAGAAACAACTTGACTCTCTCTCACTCTCGACAATACA
131 AAACTTAAAAAGTTAACAAATCTTATCAAGAAACAACTTGACTCTCTCTCACTCTCGACAATACA
36734700 CACCCACGGCCCTCTCATCAACCACTATACGCTATGCATTACCATCTTCAACACAACCTCATCAT
196 CACCCACGGCCCTCTCATCAACCACTATACGCTATGCATTACCATCTTCAACACAACCTCATCAT
36734765 CATCATTTTCTCTGACCACCTTTCTTTCGACCCAAAATCAATAGCCAAAAGTGGTTGAAACAAGC
261 CATCATTTTCTCTGACCACCTTTCTTTCGACCCAAAATCAATAGCCAAAAGTGGTTGAAACAAGC
36734830 ACAAACATCACTAACTCACCATTTCCCCATTTGCCCAATGTTATCACCACCATTTTCCCCTTTAA
326 ACAAACATCACTAACTCACCATTTCCCCATTTGCCCAATGTTATCACCACCATTTTCCCCTTTAA
36734895 CTCTTACGCACCACTCTTACCAACCATCTACTTGAGACCCGCTATGCACCAAGACTCACTTATTT
391 CTCTTACGCACCACTCTTACCAACCATCTACTTGAGACCCGCTATGCACCAAGACTCACTTATTT
36734960 CTCACCATCTAGCTTTTGACCCTTAACCCAAAATCAACCCAAAATTTTAACGCCCCAAAATCCAG
456 CTCACCATCTAGCTTTTGACCCTTAACCCAAAATCAACCCAAAATTTTAACGCCCCAAAATCCAG
36735025 TCTAGAAGTTTATACTGGATCTCGGAGGTCACATTGATCATCGAAGCTATCGTAGAAAAACTTTA
521 TCTAGAAGTTTATACTGGATCTCGGAGGTCACATTGATCATCGAAGCTATCGTAGAAAAACTTTA
36735090 CCAAACGTGCTATCCAAAAGTCTAGTTACAAACACACTGTGCCAAATTCAAATAAAACATTCAAT
586 CCAAACGTGCTATCCAAAAGTCTAGTTACAAACACACTGTGCCAAATTCAAATAAAACATTCAAT
36735155 CATTTAAAAATTCAAACGGATACTTTAGGTTATGTTTAAAATATTTGAGAACACAAATCCGCAGT
651 CATTTAAAAATTCAAACGGATACTTTAGGTTATGTTTAAAATATTTGAGAACACAAATCCGCAGT
36735220 CTCTGAAATTCAGTCCAAAATAAAATTTTCGAAAACCCAAAACAAAACTCATACCACAGTTTTTA
716 CTCTGAAATTCAGTCCAAAATAAAATTTTCGAAAACCCAAAACAAAACTCATACCACAGTTTTTA
36735285 TAATTGTTTACGATAAAAAATGGCTCAACAAAAATAAAAACTGAGAAAAGAATCGATTAGCTCAT
781 TAATTGTTTACGATAAAAAATGGCTCAACAAAAATAAAAACTGAGAAAAGAATCGATTAGCTCAT
36735350 TTCAAAATATGTCACTTCAAGACCTCTGGTATATCGAGTCCAGCTTCAGTTATGAGAGTACCTGA
846 TTCAAAATATGTCACTTCAAGACCTCTGGTATATCGAGTCCAGCTTCAGTTATGAGAGTACCTGA
36735415 AAGGGAAAACTAATGGGGTGAGCTACACGAGCTCAGTGTGAGTCCGAAACTAAACG
911 AAGGGAAAACTAATGGGGTGAGCTACACGAGCTCAGTGTGAGTCCGAAACTAAACG
36735471 TAAGAAGCAA
Statistics
Matches: 965, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
965 955 0.99
966 10 0.01
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (966 bp):
AATATTTATATTATATTATTTTAATATTTAGTATTTTGTTTTCATTTATTAAAAATTTGATATGA
GTTTTTTTATTGTCTAATAATAAATTTAGTTCTCTAATATTTAAATATTCTATCAATTTGATTCT
AAACTTAAAAAGTTAACAAATCTTATCAAGAAACAACTTGACTCTCTCTCACTCTCGACAATACA
CACCCACGGCCCTCTCATCAACCACTATACGCTATGCATTACCATCTTCAACACAACCTCATCAT
CATCATTTTCTCTGACCACCTTTCTTTCGACCCAAAATCAATAGCCAAAAGTGGTTGAAACAAGC
ACAAACATCACTAACTCACCATTTCCCCATTTGCCCAATGTTATCACCACCATTTTCCCCTTTAA
CTCTTACGCACCACTCTTACCAACCATCTACTTGAGACCCGCTATGCACCAAGACTCACTTATTT
CTCACCATCTAGCTTTTGACCCTTAACCCAAAATCAACCCAAAATTTTAACGCCCCAAAATCCAG
TCTAGAAGTTTATACTGGATCTCGGAGGTCACATTGATCATCGAAGCTATCGTAGAAAAACTTTA
CCAAACGTGCTATCCAAAAGTCTAGTTACAAACACACTGTGCCAAATTCAAATAAAACATTCAAT
CATTTAAAAATTCAAACGGATACTTTAGGTTATGTTTAAAATATTTGAGAACACAAATCCGCAGT
CTCTGAAATTCAGTCCAAAATAAAATTTTCGAAAACCCAAAACAAAACTCATACCACAGTTTTTA
TAATTGTTTACGATAAAAAATGGCTCAACAAAAATAAAAACTGAGAAAAGAATCGATTAGCTCAT
TTCAAAATATGTCACTTCAAGACCTCTGGTATATCGAGTCCAGCTTCAGTTATGAGAGTACCTGA
AAGGGAAAACTAATGGGGTGAGCTACACGAGCTCAGTGTGAGTCCGAAACTAAACG
Found at i:36737905 original size:9 final size:9
Alignment explanation
Indices: 36737891--36737955 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
36737881 AATTATTTGG
36737891 TATTTTTAA
1 TATTTTTAA
36737900 TATTTTTAAA
1 TATTTTT-AA
* *
36737910 AATTTCTAA
1 TATTTTTAA
36737919 TAATTTATT-A
1 T-ATTT-TTAA
36737929 TATTTTTATAA
1 TA-TTTT-TAA
*
36737940 TATTTATAA
1 TATTTTTAA
36737949 TATTTTT
1 TATTTTT
36737956 CGGCAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 20 0.45
10 20 0.45
11 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTTAA
Found at i:36737946 original size:20 final size:21
Alignment explanation
Indices: 36737916--36737955 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
36737906 TAAAAATTTC
*
36737916 TAATAATTTATTATATTTTTA
1 TAATAATTTATAATATTTTTA
36737937 TAAT-ATTTATAATATTTTT
1 TAATAATTTATAATATTTTT
36737956 CGGCAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATAATTTATAATATTTTTA
Found at i:36746714 original size:22 final size:21
Alignment explanation
Indices: 36746672--36746714 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36746662 TATAGTCATG
*
36746672 TATCGATACCAAATGCCAAAT
1 TATCGATACCAAATGCAAAAT
*
36746693 TATCGATACCTAAATTCAAAAT
1 TATCGATACC-AAATGCAAAAT
36746715 GGTAAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (21 bp):
TATCGATACCAAATGCAAAAT
Found at i:36760984 original size:45 final size:45
Alignment explanation
Indices: 36760886--36761682 Score: 684
Period size: 44 Copynumber: 17.8 Consensus size: 45
36760876 TCATAGCGAC
* * * * * **
36760886 TCTTATCCCCCTAAAGTTGCAGTGAAGCATATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
*
36760930 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * ** * * **
36760975 TCTTGTCTCCTTGAAGTTGTAGTGGAATAAATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* *
36761019 TTTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
36761064 TCTTAACTCCCTAAAGTTGCAGTGGAGCAAATTGAAGATAGTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * *
36761109 TCTTATCTCTCTAAAGTTGTAGTGGAACAGATT-AAAACT-CCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAA
* * **
36761153 TCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
** * * * **
36761198 TCTTATCTCCCTGAAGTTGCAGCAGAACAAATTGAATATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * **
36761243 TCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * * *
36761288 TCTTATTTCCCTGAAATTGCAGTAGAACAGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** *
36761332 TCTTATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
36761376 TCTTATCTCCC-GAAAATTACAGTGGAGCAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTG-AAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
*
36761420 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * ** * * *
36761465 TCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTTATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG-CA--AA
* * *
36761516 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
36761560 TC--ATCTCTCTGAAGTTGCAATGGAGTAGATTGAAGATA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
** * * * *
36761602 TCTTATCTCTTTAAAGTTGCAGTAGAGCAGATTAAAGCT-GCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
36761646 TCTAATCTCCCTAAAGTTGCAGTAGAGTAGATTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
36761683 CAACAAGCCC
Statistics
Matches: 614, Mismatches: 122, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
42 35 0.06
43 1 0.00
44 282 0.46
45 256 0.42
46 1 0.00
47 1 0.00
48 3 0.00
49 1 0.00
51 34 0.06
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
Found at i:36761017 original size:89 final size:89
Alignment explanation
Indices: 36760899--36761682 Score: 652
Period size: 89 Copynumber: 8.8 Consensus size: 89
36760889 TATCCCCCTA
* * * ** *
36760899 AAGTTGCAGTGAAGCATATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
1 AAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
*
36760964 AAGATAGCAAATCTTGTCTCCTTG
66 AAGATAGCAAATCTTATCTCCTTG
* ** * * ** * *
36760988 AAGTTGTAGTGGAATAAATTAAAGCCACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATTG
1 AAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
* * *
36761053 AAGATAGCAAATCTTAACTCCCTA
66 AAGATAGCAAATCTTATCTCCTTG
* * * * * *
36761077 AAGTTGCAGTGGAGCAAATTGAAGATAGTAAATCTTATCTCTCTAAAGTTGTAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *
36761142 -AAAACT-CCAAATCTTATCT-CTCTG
65 GAAGA-TAGCAAATCTTATCTCCT-TG
* ** ** * *
36761166 AAGTTGTAGTGGAGCAGATTGAAGATAGTGAATCTTATCTCCCTGAAGTTGCAGCAGAACAAATT
1 AAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* **
36761231 GAATATAGTGAATCTTATCT-CTCTG
65 GAAGATAGCAAATCTTATCTCCT-TG
* ** * * * *
36761256 AAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTATTTCCCTGAAATTGCAGTAGAACAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* * *
36761321 AAAGTTA-CAAGTCTTATCTCCTTG
65 GAAGATAGCAAATCTTATCTCCTTG
** * * *
36761345 AAGTTGCAGTGGAATAGATTGAAGTTACAAATCTTATCTCCC-GAAAATTACAGTGGAGCAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTG-AAGTTGCAGTGGAGCAGATT
* *
36761409 GAAGTTA-CAAATCTTATCTCCCTG
65 GAAGATAGCAAATCTTATCTCCTTG
* * * **
36761433 AAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* * * *
36761498 AAAGCTACAAGTTATGAATCTTATCTCCCTG
65 GAAG--A-TAG-CA--AATCTTATCTCCTTG
* * * * * *
36761529 AAATTGCAGTGGAGCAGATTAAAGCTACAAATC--ATCTCTCTGAAGTTGCAATGGAGTAGATTG
1 AAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
* * *
36761592 AAGATA-CAAGTCTTATCTCTTTA
66 AAGATAGCAAATCTTATCTCCTTG
* * * * * * * *
36761615 AAGTTGCAGTAGAGCAGATTAAAGCTGCAAATCTAATCTCCCTAAAGTTGCAGTAGAGTAGATTG
1 AAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
36761680 AAG
66 AAG
36761683 CAACAAGCCC
Statistics
Matches: 576, Mismatches: 101, Indels: 37
0.81 0.14 0.05
Matches are distributed among these distances:
86 41 0.07
87 1 0.00
88 104 0.18
89 238 0.41
90 116 0.20
91 1 0.00
92 1 0.00
93 27 0.05
94 1 0.00
95 6 0.01
96 40 0.07
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (89 bp):
AAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
AAGATAGCAAATCTTATCTCCTTG
Found at i:36761247 original size:179 final size:178
Alignment explanation
Indices: 36760886--36761664 Score: 673
Period size: 179 Copynumber: 4.4 Consensus size: 178
36760876 TCATAGCGAC
* * * * ** * * * *
36760886 TCTTATCCCCCTAAAGTTGCAGTGAAGCATATTAAAGCCA-CAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTAAAGTTGT
* * * * * * * * **
36760950 AATGGAGCAGATTGAAGA-TAGCAAATCTTGTCTCCTTGAAGTTGTAGTGGAATAAATTAAAGCC
66 AGTGGAACAGATT-AAAACTA-CAAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGAT
* * *
36761014 ACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGATAGCAAA
129 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAATATAGCAAA
* * * *
36761064 TCTTAACTCCCTAAAGTTGCAGTGGAGCAAATTGAAGATAGTAAATCTTATCTCTCTAAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTAAAGTTGT
* * *
36761129 AGTGGAACAGATTAAAACTCCAAATCTTATCT-CTCTGAAGTTGTAGTGGAGCAGATTGAAGATA
66 AGTGGAACAGATTAAAACTACAAATCTTATCTCCT-TGAAGTTGCAGTGGAACAGATTGAAGATA
** ** * **
36761193 GTGAATCTTATCTCCCTGAAGTTGCAGCAGAACAAATTGAATATAGTGAA
130 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAATATAGCAAA
* * * *
36761243 TCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTATTTCCCTGAAA-TTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCT-AAAGTTG
* * ** * * *
36761307 CAGTAGAACAGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGTTA
65 TAGTGGAACAGATTAAAACTACAAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGATA
* * *
36761372 CAAATCTTATCTCCC-GAAAATTACAGTGGAGCAGATTGAAGT-TA-CAAA
130 CAAATCTTATCTCCCTG-AAGTTGCAGTGGAGCAAATTGAA-TATAGCAAA
* *
36761420 TCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTAAAGTTG
* * * * *
36761484 TAGTGGAATAGATTAAAGCTACAAGTTATGAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATT
65 TAGTGGAACAGATTAAAACTAC-----A--AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATT
* * * * * * * *
36761549 AAAGCTACAAATC--ATCTCTCTGAAGTTGCAATGGAGTAGATTGAAGATA-CAAG
123 GAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAATATAGCAAA
** * * * * * *
36761602 TCTTATCTCTTTAAAGTTGCAGTAGAGCAGATTAAAGCT-GCAAATCTAATCTCCCTAAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTAAAGTTG
36761665 CAGTAGAGTA
Statistics
Matches: 489, Mismatches: 92, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
176 2 0.00
177 75 0.15
178 104 0.21
179 176 0.36
180 5 0.01
181 24 0.05
182 61 0.12
183 1 0.00
184 41 0.08
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (178 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTAAAGTTGT
AGTGGAACAGATTAAAACTACAAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGATAC
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAATATAGCAAA
Found at i:36764725 original size:22 final size:22
Alignment explanation
Indices: 36764700--36764747 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
36764690 CAACATTCAA
36764700 TTCAAT-AGTAAGAATTTCATGG
1 TTCAATCA-TAAGAATTTCATGG
*
36764722 TTCAATCATAAGCATTTCATGG
1 TTCAATCATAAGAATTTCATGG
36764744 TTCA
1 TTCA
36764748 CTATACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAATCATAAGAATTTCATGG
Found at i:36768979 original size:5 final size:5
Alignment explanation
Indices: 36768971--36769000 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
36768961 TTATTTTACC
36768971 TAATA TAATAA TAATA TAATA TAATA TAAT
1 TAATA TAAT-A TAATA TAATA TAATA TAAT
36769001 TTACAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:36770502 original size:13 final size:13
Alignment explanation
Indices: 36770484--36770511 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36770474 CCCATGGTAA
36770484 TCAGTATTTGGGG
1 TCAGTATTTGGGG
36770497 TCAGTATTTGGGG
1 TCAGTATTTGGGG
36770510 TC
1 TC
36770512 GAAATCTAGA
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:0.14, C:0.11, G:0.36, T:0.39
Consensus pattern (13 bp):
TCAGTATTTGGGG
Found at i:36775910 original size:21 final size:22
Alignment explanation
Indices: 36775861--36775912 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
36775851 ATTTTTAATG
* *
36775861 AAAAACTCAATTTATCACATTT
1 AAAAACTCAATTTATCAAAATT
* *
36775883 CAAAACTCGATTT-TCAAAATT
1 AAAAACTCAATTTATCAAAATT
36775904 AAAAACTCA
1 AAAAACTCA
36775913 TTCTTACAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAACTCAATTTATCAAAATT
Found at i:36778048 original size:18 final size:19
Alignment explanation
Indices: 36778002--36778038 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36777992 GAACAAAAAA
* *
36778002 AAAAAATTATAACAGAATT
1 AAAAAATAAAAACAGAATT
36778021 AAAAAATAAAAACAGAAT
1 AAAAAATAAAAACAGAAT
36778039 AAATTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAAATAAAAACAGAATT
Found at i:36779835 original size:23 final size:24
Alignment explanation
Indices: 36779795--36779843 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
36779785 TTGAAATATT
36779795 TTAATATAATTTTAATATAAAATA
1 TTAATATAATTTTAATATAAAATA
*
36779819 TTAATTTAA-TTTAATATAAAATA
1 TTAATATAATTTTAATATAAAATA
36779842 TT
1 TT
36779844 TTATTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAATATAATTTTAATATAAAATA
Found at i:36779849 original size:24 final size:24
Alignment explanation
Indices: 36779788--36779923 Score: 89
Period size: 24 Copynumber: 5.2 Consensus size: 24
36779778 AAAATATTTG
*
36779788 AAATATTTTAATATAATTTTAATATA
1 AAATATTTT-ATTTAA-TTTAATATA
*
36779814 AAATA-TTAATTTAATTTAATATA
1 AAATATTTTATTTAATTTAATATA
*
36779837 AAATATTTTATTTCAAAATATAATTTGAAATA
1 AAATATTTTATTT---AATTTAA--T---ATA
*
36779869 AAATATTTTATATAATTTAATATA
1 AAATATTTTATTTAATTTAATATA
*
36779893 AAA-ATAATTATATT-ATTTAATAATA
1 AAATAT-TTTAT-TTAATTTAAT-ATA
36779918 AAATAT
1 AAATAT
36779924 GATTAAATTA
Statistics
Matches: 89, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
23 16 0.18
24 28 0.31
25 9 0.10
26 7 0.08
27 7 0.08
29 7 0.08
32 15 0.17
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
AAATATTTTATTTAATTTAATATA
Found at i:36779935 original size:26 final size:25
Alignment explanation
Indices: 36779865--36779937 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 25
36779855 TATAATTTGA
* *
36779865 AATAAAATATTTTATATAATTTAAT
1 AATAAAATATATTATATTATTTAAT
36779890 -ATAAAA-ATAATTATATTATTTAAT
1 AATAAAATAT-ATTATATTATTTAAT
*
36779914 AATAAAATATGATTAAATTATTTA
1 AATAAAATAT-ATTATATTATTTA
36779938 TTTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 2 0.05
24 19 0.46
25 6 0.15
26 14 0.34
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (25 bp):
AATAAAATATATTATATTATTTAAT
Found at i:36780187 original size:16 final size:16
Alignment explanation
Indices: 36780152--36780190 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36780142 TGAATTACTA
* *
36780152 ATTACAGCTTTATTAT
1 ATTACAACTTTATTAC
*
36780168 ATTACAACTTTATTGC
1 ATTACAACTTTATTAC
36780184 ATTACAA
1 ATTACAA
36780191 TAAACCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (16 bp):
ATTACAACTTTATTAC
Found at i:36787200 original size:62 final size:59
Alignment explanation
Indices: 36787119--36787245 Score: 193
Period size: 62 Copynumber: 2.1 Consensus size: 59
36787109 ATAATAACAT
* *
36787119 TTTAAT-AGATTTAATATTAAATTTAATTTAATATTTATCTTGTTAAAAAATATTCTATTAA
1 TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTG---AAAAATATTATATTAA
*
36787180 TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAA
1 TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGAAAAATATTATATTAA
36787239 TTTAATA
1 TTTAATA
36787246 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
59 21 0.34
61 6 0.10
62 35 0.56
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (59 bp):
TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGAAAAATATTATATTAA
Found at i:36787209 original size:38 final size:37
Alignment explanation
Indices: 36787167--36787248 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
36787157 CTTGTTAAAA
*
36787167 AATATTCTATTAAT-TTAATAAGAT-TTAATATTAAATTT
1 AATATTATATTAATCTTAATAA-ATATT-ATATT-AATTT
* * *
36787205 AATATAATATTTATCTTGATAAATATTATATTAATTT
1 AATATTATATTAATCTTAATAAATATTATATTAATTT
36787242 AATATTA
1 AATATTA
36787249 AAGTGATTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
37 11 0.30
38 18 0.49
39 8 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (37 bp):
AATATTATATTAATCTTAATAAATATTATATTAATTT
Found at i:36788707 original size:12 final size:13
Alignment explanation
Indices: 36788675--36788707 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
36788665 AAATTATCCA
36788675 ACCCAACCTAATT
1 ACCCAACCTAATT
36788688 ACCCAACCTAATT
1 ACCCAACCTAATT
36788701 A-CCAACC
1 ACCCAACC
36788708 CAACCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.18
Consensus pattern (13 bp):
ACCCAACCTAATT
Found at i:36788803 original size:38 final size:39
Alignment explanation
Indices: 36788705--36788813 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
36788695 CTAATTACCA
*
36788705 ACCCAACCCAATAAAACTAAAACTAAAATCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
* *
36788744 ACCCAACCTAAGAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
*
36788783 A-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTA
36788814 ACTCTAAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
38 27 0.42
39 37 0.58
ACGTcount: A:0.52, C:0.28, G:0.03, T:0.17
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
Found at i:36788966 original size:17 final size:17
Alignment explanation
Indices: 36788946--36789008 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
36788936 TAATTTCAAG
36788946 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
36788963 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
36788981 AGACTTATGTAATGTTTTT
1 A-A-TTATGTAATGTTTTT
36789000 AATTATGTA
1 AATTATGTA
36789009 GTGATTCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 18 0.51
18 4 0.11
19 4 0.11
20 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:36788967 original size:37 final size:37
Alignment explanation
Indices: 36788926--36789017 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
36788916 CTTACATTTC
36788926 AATTATGT-GTTAATTTC-AAGAATTATGTAATGTTTTT
1 AATTATGTAG-TAA-TTCAAAGAATTATGTAATGTTTTT
* *
36788963 AATTATGTAGTGATTCAAAGACTTATGTAATGTTTTT
1 AATTATGTAGTAATTCAAAGAATTATGTAATGTTTTT
*
36789000 AATTATGTAGTGATTCAA
1 AATTATGTAGTAATTCAA
36789018 TTCGGGTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 3 0.06
37 47 0.92
38 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (37 bp):
AATTATGTAGTAATTCAAAGAATTATGTAATGTTTTT
Found at i:36790811 original size:23 final size:23
Alignment explanation
Indices: 36790785--36790835 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
36790775 TGCTTTTTAA
*
36790785 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
36790808 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
36790831 ATTTA
1 ATTTA
36790836 AGAAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:36790812 original size:13 final size:13
Alignment explanation
Indices: 36790794--36790835 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
36790784 AATTTTGAAT
36790794 TATTTAGTGATAA
1 TATTTAGTGATAA
36790807 TATTTAG-GAT--
1 TATTTAGTGATAA
36790817 TATTTAGTGATAA
1 TATTTAGTGATAA
36790830 TATTTA
1 TATTTA
36790836 AGAAAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:36804840 original size:44 final size:44
Alignment explanation
Indices: 36804783--36805539 Score: 606
Period size: 44 Copynumber: 17.2 Consensus size: 44
36804773 TAAAAAATAG
*
36804783 CAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGACAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGA-AA
* * * * **
36804827 CAGATCCTATCTTCATATATTGGTAGCGAAGTGGATCGAAGATG
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
** * * * *
36804871 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTATATCGAAGAAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
* * * * *
36804915 GCAAATCTAGTCTTCATGTATTGG-CGTGAAGTAAATCGAAGACAA
1 -CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGA-AA
* * * * **
36804960 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATG
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
** * * *
36805004 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
* * *
36805048 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 -CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGA-AA
* * * * *
36805093 CAAATCCTGTCTTCTTATATTGGTAG-GAAGTGGATCGAAG-AC
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
** * * * *
36805135 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
* * * * *
36805179 GTAGATATTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGAAA
1 -CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
* * *
36805223 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGATGATAA
1 -CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGA-AA
* * * * * *
36805268 CAAATCCTGTCTTCCTATATTGGTAG-GAGGTGGATCGAA-AATG
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAA-A
* * * *
36805311 CAGATCTTATCTTC-CATATTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAG-AAA
36805355 CAGATCTTGTCTTCATATATTGGT-GTGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGA-AA
* * * *
36805399 CAAATCCTGTCTTCCTATATTGGTAG-GAAGTTGATCGAAGAAA
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
** * *
36805442 GTGGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 -CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGA-AA
* * * * * * **
36805487 CAGATCATATTTTCCTGTATTGGTAG-GAAGTGGATCGAAGATG
1 CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
36805530 CAGATCTTGT
1 CAGATCTTGT
36805540 ATTCCCACAT
Statistics
Matches: 565, Mismatches: 125, Indels: 47
0.77 0.17 0.06
Matches are distributed among these distances:
42 31 0.05
43 47 0.08
44 385 0.68
45 102 0.18
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
CAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATCGAAGAAA
Found at i:36805199 original size:131 final size:133
Alignment explanation
Indices: 36804775--36805546 Score: 907
Period size: 131 Copynumber: 5.8 Consensus size: 133
36804765 GAGCAGGCTA
* * *
36804775 AAAAATAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGACAACAGATCCTATCTT
1 AAAAA-AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCCTGTCTT
*
36804840 CATATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAT
65 CATATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAG
36804905 ATCG
130 ATCG
* * * * *
36804909 AAGAAAGCAAATCTAGTCTTCATGTATTGGCGTGAAGTAAATCGAAGACAACAGATCCTGTCTTC
1 AAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCCTGTCTTC
*
36804974 CTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 ATATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
36805039 TCG
131 TCG
* * * *
36805042 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTC
1 AAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCCTGTCTTC
* *
36805107 TTATATTGGTAG-GAAGTGGATCGAAGA-CCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 ATATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
36805170 TCG
131 TCG
* * * * *
36805173 AAAAAAGTAGATATTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
1 AAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCCTGTCTTC
* * * * * * * * * * * * *
36805238 ATGTATTGG-CGTGAAGTAGATCGATGATAACAAATCCTGTCTTCCTATATTGGTAG-GAGGTGG
66 ATATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAG
36805301 ATCG
130 ATCG
* * * * *
36805305 -AAAATGCAGATCTTATCTTCCA--TATTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCT
1 AAAAAAGCAGATCTTGTCTT-CATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCCTGTCT
* * * * * * * *
36805367 TCATATATTGGT-GTGAAGTAGATCGAAGATAACAAATCCTGTCTTCCTATATTGGTAG-GAAGT
64 TCATATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGT
*
36805430 TGATCG
128 AGATCG
* ** * * * *
36805436 AAGAAAGTGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCATATTTTC
1 AAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCCTGTCTTC
* * *
36805501 CTGTATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTATTCCCA
66 ATATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCA
36805547 CATTGGCGAA
Statistics
Matches: 561, Mismatches: 67, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
130 6 0.01
131 240 0.43
132 92 0.16
133 219 0.39
134 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (133 bp):
AAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCCTGTCTTC
ATATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
TCG
Found at i:36805536 original size:175 final size:177
Alignment explanation
Indices: 36804783--36805539 Score: 698
Period size: 175 Copynumber: 4.3 Consensus size: 177
36804773 TAAAAAATAG
* * * * * * *
36804783 CAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGACAACAGATCCTATCTTCATATAT
1 CAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGA-AGCAGATCTTGTCTTCATATAT
* * ** * * * *
36804847 TGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTATATCGAA
65 TGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAA
* * * *
36804911 GAAAGCAAAT-CTAGTCTTCATGTATTGG-CGTGAAGTAAATCGAAGACAA
129 GAAAGCAAATCCT-GTCTTCATATATTGGTAG-GAAGTAGATCGAAGATAA
* * * * ** *
36804960 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACT
1 CAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAGCAGATCTTGTCTTCATATATT
* *
36805025 GGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
66 GGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA
* * * *
36805090 TAGCAAATCCTGTCTTCTTATATTGGTAGGAAGTGGATCGAAG--AC
131 AAGCAAATCCTGTCTTCATATATTGGTAGGAAGTAGATCGAAGATAA
* * * * * * * *
36805135 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAAGTAGATATTGTCTTCATGTAT
1 CAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCG-AAGAAGCAGATCTTGTCTTCATATAT
* * * * *
36805200 TAG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGATG
65 TGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAG
* * * * *
36805264 ATAA-CAAATCCTGTCTTCCTATATTGGTAGGAGGTGGATCGAAAAT-G
130 A-AAGCAAATCCTGTCTTCATATATTGGTAGGAAGTAGATCGAAGATAA
* *
36805311 CAGATCTTATCTTCC-ATATTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATAT
1 CAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAG-AAGCAGATCTTGTCTTCATATAT
* * * * * *
36805375 TGGT-GTGAAGTAGATCGAAGATAA-CAAATCCTGTCTTCCTATATTGGTAG-GAAGTTGATCGA
65 TGGTAGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGA
*** * * *
36805437 AGAAAGTGGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
128 AGAAAGCAAATCCTGTCTTCATATATTGGTAG-GAAGTAGATCGAAGATAA
* * * * *
36805487 CAGATCATATTTTCCTGTATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGT
1 CAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAGCAGATCTTGT
36805540 ATTCCCACAT
Statistics
Matches: 480, Mismatches: 84, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
174 5 0.01
175 262 0.55
176 64 0.13
177 110 0.23
178 39 0.08
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (177 bp):
CAGATCTTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAGCAGATCTTGTCTTCATATATT
GGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA
AAGCAAATCCTGTCTTCATATATTGGTAGGAAGTAGATCGAAGATAA
Found at i:36805646 original size:119 final size:120
Alignment explanation
Indices: 36805434--36805657 Score: 269
Period size: 119 Copynumber: 1.9 Consensus size: 120
36805424 GGAAGTTGAT
** * * *
36805434 CGAAGAAAGTGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCATATTT
1 CGAAGAAAGCAGATATTATCTTCATGTATTAGCGTGAAGTAGATCGAAGATAACAGATCATATTT
* * * *
36805499 TCCTGTATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTGTATTCCCACATTGG
66 TCCTATATTGGTAGGAAGTGAAACGAAGATGGCAAATCTTGTATTCCCACATTGG
* *
36805553 CGAAGAAAGCAGATATTATCTTCATGTATTAGCTTGAAGTAGATCGAAGATAACAGAT-ATGTCT
1 CGAAGAAAGCAGATATTATCTTCATGTATTAGCGTGAAGTAGATCGAAGATAACAGATCATAT-T
*
36805617 TT-TTATATTGGTAGTG-AG-GCAAACTGAAGATGGCAAATCTT
65 TTCCTATATTGGTAG-GAAGTG-AAAC-GAAGATGGCAAATCTT
36805658 ATCTCTCTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
117 1 0.01
118 17 0.19
119 62 0.70
120 8 0.09
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (120 bp):
CGAAGAAAGCAGATATTATCTTCATGTATTAGCGTGAAGTAGATCGAAGATAACAGATCATATTT
TCCTATATTGGTAGGAAGTGAAACGAAGATGGCAAATCTTGTATTCCCACATTGG
Found at i:36819390 original size:48 final size:48
Alignment explanation
Indices: 36819338--36819432 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
36819328 AAGTTATTGG
36819338 TGGCCTGCACACAATCCGTGCCACCCTTGTGTCACAACAGAATATCGA
1 TGGCCTGCACACAATCCGTGCCACCCTTGTGTCACAACAGAATATCGA
* * * *
36819386 TGGCCTGCACATAGTCCGTGCCACCCTTGTGTCATAACAGATTATCG
1 TGGCCTGCACACAATCCGTGCCACCCTTGTGTCACAACAGAATATCG
36819433 GTACGCATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (48 bp):
TGGCCTGCACACAATCCGTGCCACCCTTGTGTCACAACAGAATATCGA
Found at i:36821556 original size:25 final size:24
Alignment explanation
Indices: 36821497--36821556 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
36821487 GTACATATAG
36821497 GCTCATACGAGTGATAAACGGTAA
1 GCTCATACGAGTGATAAACGGTAA
* * *
36821521 GCTCTTCCGAGCTGA-ATATCGGTAA
1 GCTCATACGAG-TGATA-AACGGTAA
36821546 GCTCATACGAG
1 GCTCATACGAG
36821557 ATGTGGTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGTGATAAACGGTAA
Found at i:36828596 original size:18 final size:17
Alignment explanation
Indices: 36828560--36828601 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
36828550 AAATTATGCC
36828560 AAAA-ATAAAATAAAAT
1 AAAATATAAAATAAAAT
*
36828576 AAAATATAAAACTAAACT
1 AAAATATAAAA-TAAAAT
*
36828594 AAACTATA
1 AAAATATA
36828602 GTTACTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 12 0.55
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATATAAAATAAAAT
Found at i:36828833 original size:32 final size:34
Alignment explanation
Indices: 36828783--36828845 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
36828773 TAATATTTCA
*
36828783 AATATATATAATTAATAATT-TTTATAAAAAATT
1 AATATATATAATTAATAATTATTAATAAAAAATT
36828816 AATATA-ATAATCT-ATAATTATTAATAAAAA
1 AATATATATAAT-TAATAATTATTAATAAAAA
36828846 GTAAATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (34 bp):
AATATATATAATTAATAATTATTAATAAAAAATT
Done.