Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 41 of 295
Found at i:12030162 original size:13 final size:13
Alignment explanation
Indices: 12030144--12030169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12030134 GAATATTGCA
12030144 TGAAAAATTTTAT
1 TGAAAAATTTTAT
12030157 TGAAAAATTTTAT
1 TGAAAAATTTTAT
12030170 CAATTATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TGAAAAATTTTAT
Found at i:12031359 original size:34 final size:33
Alignment explanation
Indices: 12031321--12031384 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
12031311 GTATTGAAGG
* * *
12031321 AAAGGTATACTTTGTGTATACCACTTGAAAAGAA
1 AAAGGTACACTATATGTATA-CACTTGAAAAGAA
*
12031355 AAAGGTACACTATATGTGTACACTTGAAAA
1 AAAGGTACACTATATGTATACACTTGAAAA
12031385 TGTTATATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 10 0.38
34 16 0.62
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (33 bp):
AAAGGTACACTATATGTATACACTTGAAAAGAA
Found at i:12033584 original size:34 final size:34
Alignment explanation
Indices: 12033545--12033611 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
12033535 AAAATGAGTG
12033545 TGTTCGATTAAGCCAATATGCTAGTGAATGGGTT
1 TGTTCGATTAAGCCAATATGCTAGTGAATGGGTT
*
12033579 TGTTCGGTTAAGCCAATATGCTAGTGAATGGGT
1 TGTTCGATTAAGCCAATATGCTAGTGAATGGGT
12033612 CTAAACAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.34
Consensus pattern (34 bp):
TGTTCGATTAAGCCAATATGCTAGTGAATGGGTT
Found at i:12052815 original size:55 final size:55
Alignment explanation
Indices: 12052730--12052848 Score: 220
Period size: 55 Copynumber: 2.1 Consensus size: 55
12052720 ACAAGGGATG
12052730 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGC-AAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
12052786 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
12052841 ATGGGCAA
1 ATGGGCAA
12052849 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 56 0.90
56 6 0.10
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (55 bp):
ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:12054061 original size:40 final size:40
Alignment explanation
Indices: 12053977--12054162 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
12053967 TCGAATGATG
* * * *
12053977 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
12054017 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
12054057 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12054097 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
12054138 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
12054163 AACCAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:12054180 original size:80 final size:79
Alignment explanation
Indices: 12054033--12054195 Score: 204
Period size: 80 Copynumber: 2.1 Consensus size: 79
12054023 CTAAGATCCA
* ** *
12054033 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACCAGTTACTAAAT
*
12054098 CCGGGTTAAGTCCCG
66 CC-GGTTAAATCCCG
* * *
12054113 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACCAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAGTCCCGAAGGCATTTGAACCAGTTA-CTAA
*
12054176 ATCCGGTTAAATTCCG
64 ATCCGGTTAAATCCCG
12054192 AAGG
1 AAGG
12054196 TACGTGATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 18 0.25
80 54 0.75
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACCAGTTACTAAAT
CCGGTTAAATCCCG
Found at i:12055948 original size:16 final size:16
Alignment explanation
Indices: 12055912--12055952 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
12055902 AAAAAATTAA
*
12055912 AAATAGATAGATAAATG
1 AAATAGATA-AAAAATG
12055929 -AATAGATAAAAAATG
1 AAATAGATAAAAAATG
12055944 AAATA-ATAA
1 AAATAGATAA
12055953 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATAGATAAAAAATG
Found at i:12056332 original size:13 final size:14
Alignment explanation
Indices: 12056303--12056334 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12056293 AAATGAAAGT
*
12056303 AAAATTACAAGGAA
1 AAAATTAAAAGGAA
12056317 AAAATTAAAAGGAA
1 AAAATTAAAAGGAA
12056331 AAAA
1 AAAA
12056335 AATAGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAATTAAAAGGAA
Found at i:12059780 original size:21 final size:21
Alignment explanation
Indices: 12059754--12059795 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12059744 GAAGAAGAAG
12059754 CCCTTTTT-AGCCATTTTTTAA
1 CCCTTTTTGA-CCATTTTTTAA
*
12059775 CCCTTTTTGACCCTTTTTTAA
1 CCCTTTTTGACCATTTTTTAA
12059796 AGTAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.26, G:0.05, T:0.52
Consensus pattern (21 bp):
CCCTTTTTGACCATTTTTTAA
Found at i:12065907 original size:29 final size:30
Alignment explanation
Indices: 12065873--12065930 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
12065863 ATTTTATCAT
* *
12065873 AAATTAACTTATAAT-TTTAATATTTTAAA
1 AAATTAAATTAAAATATTTAATATTTTAAA
*
12065902 AAATTAAATTAAAATATTTAATTTTTTAA
1 AAATTAAATTAAAATATTTAATATTTTAA
12065931 GAGTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATTAAATTAAAATATTTAATATTTTAAA
Found at i:12066817 original size:21 final size:21
Alignment explanation
Indices: 12066788--12066834 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
12066778 GAAGCGCAGT
*
12066788 ATTTCTTTTTTAAA-ACGA-A
1 ATTTTTTTTTTAAATACGAGA
12066807 AGTTTTTTTTTTAAATACGAGA
1 A-TTTTTTTTTTAAATACGAGA
12066829 ATTTTT
1 ATTTTT
12066835 GAAAACACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 9 0.38
22 2 0.08
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (21 bp):
ATTTTTTTTTTAAATACGAGA
Found at i:12066833 original size:16 final size:16
Alignment explanation
Indices: 12066814--12066885 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
12066804 GAAAGTTTTT
*
12066814 TTTTTAAATACGAGAA
1 TTTTTAAACACGAGAA
12066830 TTTTTGAAAACACGAGAA
1 TTTTT--AAACACGAGAA
*
12066848 TTTGTAAACACGA-ATA
1 TTTTTAAACACGAGA-A
* *
12066864 TTTTAGAAACACGAAAA
1 TTTT-TAAACACGAGAA
12066881 TTTTT
1 TTTTT
12066886 GGAAAAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
15 1 0.02
16 17 0.37
17 13 0.28
18 15 0.33
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (16 bp):
TTTTTAAACACGAGAA
Found at i:12066833 original size:18 final size:18
Alignment explanation
Indices: 12066823--12067250 Score: 95
Period size: 17 Copynumber: 24.0 Consensus size: 18
12066813 TTTTTTAAAT
12066823 ACGAGAATTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
*
12066841 ACGAGAA--TTTGTAAAC
1 ACGAGAATTTTTGAAAAC
*
12066857 ACGA-ATATTTTAG-AAAC
1 ACGAGA-ATTTTTGAAAAC
* *
12066874 ACGAAAATTTTTGGAAAAAA
1 ACGAGAATTTTT-G-AAAAC
*
12066894 ACGA-AATTTTCTTAAAAC
1 ACGAGAATTTT-TGAAAAC
* *
12066912 ACGACATTTTTTTTG-AAAC
1 ACGAGA--ATTTTTGAAAAC
*
12066931 ACGGGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* * *
12066948 AAGACATTTTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
*
12066966 A--A-AATTTTTTCTTAAAA-
1 ACGAGAA--TTTT-TGAAAAC
* *
12066983 A--A-AAATTTT--AAAT
1 ACGAGAATTTTTGAAAAC
12066996 ACGAGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
*
12067013 ACGAAAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* *
12067030 ACGGAAATATTTTTTTTTAAAAC
1 AC-GAGA-A---TTTTTGAAAAC
* *
12067053 ACGA-ATTTTTTTTTTTAAAAAC
1 ACGAGA----AT-TTTTGAAAAC
* *
12067075 AAGAAAATTTTTG-AAAC
1 ACGAGAATTTTTGAAAAC
*
12067092 ACTAGAA-TTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
12067109 ACGA-AGATTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
*
12067126 ATGAGAATTTTT-AAAAGC
1 ACGAGAATTTTTGAAAA-C
* * *
12067144 ACGAGGATTATTGAAAGC
1 ACGAGAATTTTTGAAAAC
* *
12067162 ACGA-AGATTTAT-AAAAA
1 ACGAGA-ATTTTTGAAAAC
* *
12067179 ACGACAATTTTTG-AAAT
1 ACGAGAATTTTTGAAAAC
*
12067196 ACGAGAAATTTTT-TAAAC
1 ACGAG-AATTTTTGAAAAC
* * **
12067214 GCGAAAATTTTTTTCAAAC
1 ACGAGAA-TTTTTGAAAAC
* *
12067233 ACGAAAACTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
12067251 GCGAAAATTC
Statistics
Matches: 311, Mismatches: 51, Indels: 96
0.68 0.11 0.21
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 1 0.00
15 6 0.02
16 30 0.10
17 104 0.33
18 93 0.30
19 30 0.10
20 9 0.03
21 6 0.02
22 19 0.06
23 8 0.03
24 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (18 bp):
ACGAGAATTTTTGAAAAC
Found at i:12066972 original size:16 final size:18
Alignment explanation
Indices: 12066938--12066975 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12066928 AACACGGGAA
12066938 TTTTTAAAACAAGACATT
1 TTTTTAAAACAAGACATT
*
12066956 TTTTTGAAACAA-A-ATT
1 TTTTTAAAACAAGACATT
12066972 TTTT
1 TTTT
12066976 CTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTTAAAACAAGACATT
Found at i:12066981 original size:36 final size:37
Alignment explanation
Indices: 12066899--12066982 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
12066889 AAAAAACGAA
* ***
12066899 ATTTTCTTAAAACACGACATTTTTTTTGAAACACGGG
1 ATTTTCTTAAAACAAGACATTTTTTTTGAAACAAAAG
* *
12066936 AATTT-TTAAAACAAGACA-TTTTTTTGAAACAAAAT
1 ATTTTCTTAAAACAAGACATTTTTTTTGAAACAAAAG
*
12066971 TTTTTCTTAAAA
1 ATTTTCTTAAAA
12066983 AAAAATTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
35 16 0.42
36 18 0.47
37 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (37 bp):
ATTTTCTTAAAACAAGACATTTTTTTTGAAACAAAAG
Found at i:12067021 original size:17 final size:17
Alignment explanation
Indices: 12066983--12067259 Score: 133
Period size: 17 Copynumber: 15.4 Consensus size: 17
12066973 TTTCTTAAAA
* *
12066983 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
12066999 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
12067016 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
12067034 AAATATTTTTTTTTAAAACACG
1 AAA-A----TTTTTAAAACACG
** *
12067056 AATTTTTTTTTTTAAAAACAAG
1 AA----AATTTTT-AAAACACG
* *
12067078 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
12067095 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
12067112 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
12067129 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
12067147 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
12067165 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
12067182 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
12067199 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
12067217 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
12067236 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
12067254 AAAATT
1 AAAATT
12067260 CGAAAATTTC
Statistics
Matches: 196, Mismatches: 48, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
16 7 0.04
17 86 0.44
18 53 0.27
19 21 0.11
21 5 0.03
22 12 0.06
23 12 0.06
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:12067047 original size:23 final size:21
Alignment explanation
Indices: 12067020--12067086 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
12067010 AACACGAAAA
12067020 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-G-AATATTTT
*
12067043 TTTTTAAAACACGAATTTTTT
1 TTTTTAAAACACGAATATTTT
* *
12067064 TTTTTAAAAACAAGAAAATTTT
1 TTTTT-AAAACACGAATATTTT
12067086 T
1 T
12067087 GAAACACTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
21 12 0.31
22 15 0.38
23 12 0.31
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (21 bp):
TTTTTAAAACACGAATATTTT
Found at i:12067075 original size:22 final size:23
Alignment explanation
Indices: 12067020--12067072 Score: 83
Period size: 21 Copynumber: 2.4 Consensus size: 23
12067010 AACACGAAAA
12067020 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACACGGAAATATTTT
*
12067043 TTTTTAAAACAC-G-AATTTTTT
1 TTTTTAAAACACGGAAATATTTT
12067064 TTTTTAAAA
1 TTTTTAAAA
12067073 ACAAGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 16 0.55
22 1 0.03
23 12 0.41
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (23 bp):
TTTTTAAAACACGGAAATATTTT
Found at i:12067104 original size:16 final size:16
Alignment explanation
Indices: 12067083--12067136 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
12067073 ACAAGAAAAT
12067083 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
12067099 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
12067117 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
12067133 TTTT
1 TTTT
12067137 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:12067119 original size:34 final size:34
Alignment explanation
Indices: 12067065--12067194 Score: 115
Period size: 35 Copynumber: 3.8 Consensus size: 34
12067055 GAATTTTTTT
* *
12067065 TTTTAAAAACAAGAAAATTTTTGAAACACT-AGAA
1 TTTTAAAAACACGAAGATTTTTGAAACA-TGAGAA
*
12067099 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTAAAAACACGAAGATTTTTGAAACATGAGAA
* * * *
12067133 TTTTTAAAAGCACGAGGATTATTGAAAGCACGA-AGA
1 -TTTTAAAAACACGAAGATTTTTGAAA-CATGAGA-A
12067169 TTTATAAAAA-ACGACA-ATTTTTGAAA
1 TTT-TAAAAACACGA-AGATTTTTGAAA
12067195 TACGAGAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
33 1 0.01
34 29 0.37
35 39 0.49
36 10 0.13
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (34 bp):
TTTTAAAAACACGAAGATTTTTGAAACATGAGAA
Found at i:12067226 original size:19 final size:19
Alignment explanation
Indices: 12067204--12067259 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
12067194 ATACGAGAAA
12067204 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
12067222 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
12067240 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
12067259 T
1 T
12067260 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:12067303 original size:18 final size:17
Alignment explanation
Indices: 12067254--12067304 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
12067244 TGAAAACGCG
12067254 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
12067271 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
12067289 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
12067305 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:12067816 original size:8 final size:8
Alignment explanation
Indices: 12067798--12067862 Score: 82
Period size: 8 Copynumber: 8.4 Consensus size: 8
12067788 ATTGAACCCC
12067798 CTTTTTCTT
1 CTTTTT-TT
12067807 CTTTTTTT
1 CTTTTTTT
12067815 CTTTTTTT
1 CTTTTTTT
12067823 C-TTTTTT
1 CTTTTTTT
*
12067830 CCTTTTTT
1 CTTTTTTT
12067838 C-TTTTTT
1 CTTTTTTT
12067845 C-TTTTTT
1 CTTTTTTT
*
12067852 CTTCTTTT
1 CTTTTTTT
12067860 CTT
1 CTT
12067863 CCTTTTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
7 21 0.40
8 26 0.49
9 6 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:12067829 original size:15 final size:15
Alignment explanation
Indices: 12067798--12067875 Score: 88
Period size: 15 Copynumber: 5.1 Consensus size: 15
12067788 ATTGAACCCC
12067798 CTTTTTCTTCTTTTTTT
1 CTTTTT-TTC-TTTTTT
12067815 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
*
12067830 CCTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
12067845 C-TTTTTTCTTCTTTT
1 CTTTTTTTCTT-TTTT
**
12067860 CTTCCTTT-TTTTTT
1 CTTTTTTTCTTTTTT
12067874 CT
1 CT
12067876 GCTGGGCTGC
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
14 15 0.27
15 28 0.50
16 7 0.12
17 6 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:12067863 original size:8 final size:7
Alignment explanation
Indices: 12067809--12067875 Score: 82
Period size: 7 Copynumber: 9.1 Consensus size: 7
12067799 TTTTTCTTCT
12067809 TTTTTTC
1 TTTTTTC
12067816 TTTTTTTC
1 -TTTTTTC
12067824 TTTTTTCC
1 TTTTTT-C
12067832 TTTTTTC
1 TTTTTTC
12067839 TTTTTTC
1 TTTTTTC
12067846 TTTTTTC
1 TTTTTTC
12067853 TTCTTTTC
1 TT-TTTTC
*
12067861 TTCCTTT-
1 TT-TTTTC
12067868 TTTTTTC
1 TTTTTTC
12067875 T
1 T
12067876 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
6 3 0.06
7 26 0.48
8 25 0.46
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:12067871 original size:22 final size:21
Alignment explanation
Indices: 12067800--12067875 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 21
12067790 TGAACCCCCT
12067800 TTTTCTTCTTTTTTTCTTTTTTTC
1 TTTT-TTC-TTTTTTC-TTTTTTC
12067824 TTTTTTCCTTTTTTCTTTTTTC
1 TTTTTT-CTTTTTTCTTTTTTC
*
12067846 TTTTTTCTTCTTTTCTTCCTTT-
1 TTTTTTCTT-TTTTCTT-TTTTC
12067868 TTTTTTCT
1 TTTTTTCT
12067876 GCTGGGCTGC
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 3 0.06
22 28 0.58
23 12 0.25
24 5 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTTTTTTC
Found at i:12068034 original size:16 final size:16
Alignment explanation
Indices: 12068010--12068040 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12068000 CCCTTCTTTT
*
12068010 TTTGCTTTTTTTTTGC
1 TTTGATTTTTTTTTGC
12068026 TTTGATTTTTTTTTG
1 TTTGATTTTTTTTTG
12068041 GGGCTTGTTT
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:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTGATTTTTTTTTGC
Found at i:12068169 original size:3 final size:3
Alignment explanation
Indices: 12068163--12068208 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
12068153 TTTTCTTTCT
*
12068163 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
12068209 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:12068192 original size:10 final size:10
Alignment explanation
Indices: 12068177--12068205 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
12068167 TCTTCCTCTT
12068177 TTCTTCTTCC
1 TTCTTCTTCC
12068187 TTCTTCTTCC
1 TTCTTCTTCC
12068197 TTCTTCTTC
1 TTCTTCTTC
12068206 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:12068193 original size:13 final size:13
Alignment explanation
Indices: 12068163--12068208 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
12068153 TTTTCTTTCT
12068163 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
12068175 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
12068187 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
12068200 TTCTTCTTC
1 TTCTTCTTC
12068209 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:12068299 original size:10 final size:10
Alignment explanation
Indices: 12068264--12068313 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
12068254 ACGCCGGTAC
12068264 TCTT-TCTTT
1 TCTTCTCTTT
* *
12068273 TCTTCTCCTC
1 TCTTCTCTTT
12068283 T-TTCTCTTT
1 TCTTCTCTTT
12068292 TCTTCTCTTT
1 TCTTCTCTTT
*
12068302 TCTTCTTTTT
1 TCTTCTCTTT
12068312 TC
1 TC
12068314 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:12068311 original size:19 final size:19
Alignment explanation
Indices: 12068268--12068310 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12068258 CGGTACTCTT
12068268 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
12068287 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
12068304 TTCTTTT
1 -TCTTTT
12068311 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:12068592 original size:29 final size:29
Alignment explanation
Indices: 12068559--12068675 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
12068549 TGTAATTTTT
*
12068559 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
12068588 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
12068618 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
12068647 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
12068676 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:12068614 original size:30 final size:30
Alignment explanation
Indices: 12068574--12068675 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
12068564 ATTTAGGATT
*
12068574 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
12068604 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
12068634 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
12068664 AAAATGCAATTT
1 AAAATGAAATTT
12068676 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:12068699 original size:17 final size:18
Alignment explanation
Indices: 12068673--12068709 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
12068663 CAAAATGCAA
12068673 TTTTTATTTTTT-AAATT
1 TTTTTATTTTTTGAAATT
*
12068690 TTTTTTTTTTTTGAAATT
1 TTTTTATTTTTTGAAATT
12068708 TT
1 TT
12068710 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTGAAATT
Found at i:12068700 original size:18 final size:18
Alignment explanation
Indices: 12068673--12068709 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12068663 CAAAATGCAA
*
12068673 TTTTTATTTTTTAAATTT
1 TTTTTATTTTTGAAATTT
*
12068691 TTTTTTTTTTTGAAATTT
1 TTTTTATTTTTGAAATTT
12068709 T
1 T
12068710 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTGAAATTT
Found at i:12069170 original size:53 final size:54
Alignment explanation
Indices: 12068951--12069200 Score: 368
Period size: 50 Copynumber: 4.7 Consensus size: 54
12068941 CACGTGAGCC
* *
12068951 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
12069006 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
12069056 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
12069110 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* * *
12069163 AATGCTCAACTCACCTCTTGCAATTTGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
12069201 TTTTTTTGAA
Statistics
Matches: 180, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
50 48 0.27
52 1 0.01
53 48 0.27
54 39 0.22
55 38 0.21
56 6 0.03
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:12069241 original size:13 final size:14
Alignment explanation
Indices: 12069213--12069245 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
12069203 TTTTTGAAAC
12069213 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
12069227 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
12069240 ACAGAA
1 ACAGAA
12069246 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:12069253 original size:14 final size:14
Alignment explanation
Indices: 12069206--12069253 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
12069196 TTTTTTTTTT
*
12069206 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
12069220 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
12069234 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
12069247 TTGAAAA
1 TTGAAAA
12069254 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:12069444 original size:73 final size:72
Alignment explanation
Indices: 12069325--12069484 Score: 252
Period size: 73 Copynumber: 2.2 Consensus size: 72
12069315 TAGAATTAGT
*
12069325 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
12069389 AAGTTTTG
66 AA-TTTTG
* * *
12069397 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 -AAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT
12069462 GAATTTTG
65 GAATTTTG
12069470 AAA-CAGAAATTGAAA
1 AAAGCAGAAATTGAAA
12069485 TTACTCTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
71 12 0.15
72 3 0.04
73 65 0.79
74 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (72 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
AATTTTG
Found at i:12069617 original size:166 final size:167
Alignment explanation
Indices: 12069335--12069651 Score: 566
Period size: 166 Copynumber: 1.9 Consensus size: 167
12069325 AAAGCAGAAA
*
12069335 TTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTTTTGAAA
1 TTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTTTTGAAA
*
12069400 AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
66 AGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
12069465 TTTTGAAACAGAAATTGAAATTACTCTTTTATATTTT
131 TTTTGAAACAGAAATTGAAATTACTCTTTTATATTTT
* * *
12069502 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTG-A
1 TTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTTTTGAA
12069565 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
65 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
12069630 ATTTTGAAACAGAAATTGAAAT
130 ATTTTGAAACAGAAATTGAAAT
12069652 ACCTCAACGT
Statistics
Matches: 144, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
166 87 0.60
167 55 0.38
168 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (167 bp):
TTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTTTTGAAA
AGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAACAGAAATTGAAATTACTCTTTTATATTTT
Found at i:12069909 original size:210 final size:210
Alignment explanation
Indices: 12069502--12070689 Score: 1879
Period size: 210 Copynumber: 5.7 Consensus size: 210
12069492 TTTATATTTT
12069502 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12069567 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
66 -CAGAAATTG-AAATACCTC-ACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
12069632 TTTG-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
127 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGA
12069695 GTTGAATTTTGAAAGCAGAAA
191 GTTGAATTTTGAAA-CAGAAA
12069716 TTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12069780 CAGAAATTGAAATACCTCACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
66 CAGAAATTGAAATACCTCACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
12069845 AAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
131 AAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
12069910 ATTTTGAAAACAGAAA
196 ATTTTG-AAACAGAAA
12069926 TTGAAATTACCTC-ACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AA
12069989 ACAGAAATTGAAATACCTCACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
65 ACAGAAATTGAAATACCTCACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
12070054 GAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
130 GAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12070119 AA-TTTGAAACAG-AA
195 AATTTTGAAACAGAAA
12070133 -TGAAA-T--CTC-A-G-G---T----CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12070184 CAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
66 CAGAAATTGAAATACCTC-ACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
12070249 TG-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
129 TGAAAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGT
12070313 TGAA-TTTGAAACAGAAA
193 TGAATTTTGAAACAGAAA
12070330 TTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AA
*
12070394 ACAGAAATTGAAATTACCTCACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
65 ACAGAAATTGAAA-TACCTCACGTGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
12070459 TTTAAAACAGAAATTAAAATTACCTC-ACGTGTCTGAGGCTCAACTCATTTCTCGCAATATAAGT
128 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGT
12070523 TGAATTTTGAAAACAGAAA
193 TGAATTTTG-AAACAGAAA
* * * *
12070542 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGA
* ** *
12070607 CAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-
64 -AACAGAAATTGAAA-TACCTCA-CGTGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
12070671 ATTTTGAAAAACATAAATT
125 ATTTTG-AAAACAGAAATT
12070690 AAAAGGCTTA
Statistics
Matches: 925, Mismatches: 15, Indels: 66
0.92 0.01 0.07
Matches are distributed among these distances:
194 21 0.02
195 72 0.08
196 85 0.09
197 2 0.00
198 6 0.01
199 1 0.00
200 3 0.00
201 2 0.00
202 2 0.00
203 5 0.01
205 1 0.00
206 6 0.01
207 2 0.00
208 6 0.01
209 84 0.09
210 284 0.31
211 102 0.11
212 52 0.06
213 105 0.11
214 7 0.01
215 29 0.03
216 48 0.05
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (210 bp):
TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
CAGAAATTGAAATACCTCACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
AAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAACAGAAA
Found at i:12070150 original size:71 final size:69
Alignment explanation
Indices: 12069502--12070679 Score: 1813
Period size: 71 Copynumber: 16.9 Consensus size: 69
12069492 TTTATATTTT
12069502 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAA-TACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12069567 GCAGAAA
64 -CAGAAA
12069574 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTG-AAATACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12069639 CAGAAA
64 CAGAAA
12069645 TTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAG
1 TTGAAATACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA-
12069710 CAGAAA
64 CAGAAA
12069716 TTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAC
1 TTGAAATACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAC
12069781 AGAAA
65 AGAAA
12069786 TTGAAATACCTC-ACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
1 TTGAAATACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAC
12069850 AGAAA
65 AGAAA
12069855 TTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
1 TTGAAA-TACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAA
12069920 CAGAAA
64 CAGAAA
12069926 TTGAAATTACCTC-ACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
1 TTGAAA-TACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAA
12069990 CAGAAA
64 CAGAAA
12069996 TTGAAATACCTC-ACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
1 TTGAAATACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAC
12070060 AGAAA
65 AGAAA
12070065 TTGAAATTACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAAAC
1 TTGAAA-TACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAC
12070129 AG-AA
65 AGAAA
12070133 -TGAAAT--CTC-A-G-G--T----CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACA
1 TTGAAATACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACA
12070186 GAAA
66 GAAA
12070190 TTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAC
1 TTGAAATACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAC
12070255 AGAAA
65 AGAAA
12070260 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAAA
1 TTGAAA-TACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12070324 CAGAAA
64 CAGAAA
12070330 TTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
1 TTGAAATACCTCAACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAA
12070395 CAGAAA
64 CAGAAA
* *
12070401 TTGAAATTACCTC-ACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAAA
1 TTGAAA-TACCTCAACGTGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA
12070465 ACAGAAA
63 ACAGAAA
* *
12070472 TTAAAATTACCTC-ACGTGTCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAA
1 TTGAAA-TACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAA
12070536 CAGAAA
64 CAGAAA
* * *
12070542 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAA
1 TTGAAA-TACCTCAACGTGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGA
12070607 CAACAGAAA
62 -AACAGAAA
* * ** *
12070616 TTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAA
1 TTGAAA-TACCTCAACGTGT-CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
12070680 AACATAAATT
Statistics
Matches: 1055, Mismatches: 17, Indels: 70
0.92 0.01 0.06
Matches are distributed among these distances:
55 30 0.03
56 10 0.01
57 2 0.00
58 6 0.01
59 1 0.00
60 3 0.00
61 2 0.00
62 2 0.00
63 2 0.00
64 3 0.00
66 2 0.00
67 5 0.00
68 42 0.04
69 151 0.14
70 288 0.27
71 333 0.32
72 106 0.10
73 4 0.00
74 63 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (69 bp):
TTGAAATACCTCAACGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACA
GAAA
Found at i:12070791 original size:121 final size:123
Alignment explanation
Indices: 12070566--12070842 Score: 360
Period size: 121 Copynumber: 2.2 Consensus size: 123
12070556 GCGTGTCCTG
** * * * *
12070566 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA---ATTTAACAACAGAAACTAAAAATACCTCAG
* *
12070631 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAA
62 CGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
* * **
12070693 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAA-AACATAAACTAAAAATACCTTGGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAACAACAGAAACTAAAAATACCTCAGCGTG
* *
12070757 CCCT-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
66 CCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
**
12070814 AGGCTCAACTCACCTCTCGTGATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
12070843 TGATTTTCTT
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
121 76 0.57
122 25 0.19
123 5 0.04
126 2 0.02
127 25 0.19
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAACAACAGAAACTAAAAATACCTCAGCGTG
CCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
Found at i:12083745 original size:7 final size:7
Alignment explanation
Indices: 12083735--12083774 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
12083725 GGTAAAAAAA
12083735 TTATTTT
1 TTATTTT
12083742 TTATTTT
1 TTATTTT
12083749 TTATTTCT
1 TTATTT-T
12083757 TGTATTTT
1 T-TATTTT
12083765 TTATATTT
1 TTAT-TTT
12083773 TT
1 TT
12083775 TAATATTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.53
8 9 0.30
9 5 0.17
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (7 bp):
TTATTTT
Found at i:12083764 original size:16 final size:14
Alignment explanation
Indices: 12083735--12083774 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
12083725 GGTAAAAAAA
12083735 TTATTTTTTATTTT
1 TTATTTTTTATTTT
12083749 TTATTTCTTGTATTTT
1 TTATTT-TT-TATTTT
12083765 TTATATTTTT
1 TTAT-TTTTT
12083775 TAATATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.26
15 3 0.13
16 12 0.52
17 2 0.09
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (14 bp):
TTATTTTTTATTTT
Found at i:12083783 original size:24 final size:24
Alignment explanation
Indices: 12083738--12083785 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12083728 AAAAAAATTA
* *
12083738 TTTTTTATTTTTTATTTCTTGTAT
1 TTTTTTATTTTTTATATATTGTAT
12083762 TTTTTATATTTTTTA-ATATTGTAT
1 TTTTT-TATTTTTTATATATTGTAT
12083786 ATATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTTTATTTTTTATATATTGTAT
Found at i:12094807 original size:54 final size:53
Alignment explanation
Indices: 12094670--12094863 Score: 269
Period size: 54 Copynumber: 3.8 Consensus size: 53
12094660 NNNNNNNNNN
* *
12094670 TCTCGCAATATGAGTTGATTTTGAAAAATAG--A--AAAAGGCT-AAATCA-C
1 TCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
* *
12094717 TCTCGCAATATGAGTTG-GTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
12094769 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
1 TCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
12094823 TCTCGCAAT-TGAGTTGATTTTTTGAAAAACAGAAATTAAAA
1 TCTCGCAATATGAGTTGA--TTTTGAAAAACAGAAATTAAAA
12094864 AAACAGAAAT
Statistics
Matches: 134, Mismatches: 4, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
46 12 0.09
47 17 0.13
48 1 0.01
50 8 0.06
51 5 0.04
52 18 0.13
53 8 0.06
54 65 0.49
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (53 bp):
TCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
Found at i:12094867 original size:15 final size:15
Alignment explanation
Indices: 12094847--12094886 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
12094837 TGATTTTTTG
12094847 AAAAACAGAAATTAA
1 AAAAACAGAAATTAA
*
12094862 AAAAACAGAAATTGA
1 AAAAACAGAAATTAA
12094877 AAAAACAGAA
1 AAAAACAGAA
12094887 TTGAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAACAGAAATTAA
Found at i:12094879 original size:14 final size:14
Alignment explanation
Indices: 12094844--12094893 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
12094834 AGTTGATTTT
12094844 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
12094858 TTAAAAAAACAGAAA
1 TT-GAAAAACAGAAA
12094873 TTGAAAAAACAG-AA
1 TTG-AAAAACAGAAA
12094887 TTGAAAA
1 TTGAAAA
12094894 TTACCTCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 4 0.12
14 7 0.22
15 21 0.66
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:12095073 original size:72 final size:72
Alignment explanation
Indices: 12094878--12096455 Score: 2433
Period size: 72 Copynumber: 22.2 Consensus size: 72
12094868 AGAAATTGAA
12094878 AAAACAG-AATTGAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12094942 GAATTTTG
65 GAATTTTG
12094950 AAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 -AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
12095015 TGAATTTTG
64 TGAATTTTG
12095024 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095089 AATTTTG
66 AATTTTG
*
12095096 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095161 AATTTTG
66 AATTTTG
*
12095168 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12095233 GAATTTTG
65 GAATTTTG
*
12095241 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095306 AATTTTG
66 AATTTTG
*
12095313 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12095378 GAA-TTTG
65 GAATTTTG
*
12095385 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC-ATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12095449 GAATTTTG
65 GAATTTTG
* *
12095457 AAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095522 AATTTTG
66 AATTTTG
*
12095529 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG-TG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095593 AATTTTG
66 AATTTTG
*
12095600 AAAAGCAGAAATTGAAAATACCTCAGCGTG-C-TGAGGCT-AACT-ATTTCT-G-AATA--AGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12095657 GAATTTTG
65 GAATTTTG
* *
12095665 -AAACAGAAATTG--AATA-CTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095726 AATTTTG
66 AATTTTG
*
12095733 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095798 AATTTTG
66 AATTTTG
*
12095805 AGAAGCAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12095869 GAATTTTG
65 GAATTTTG
*
12095877 -AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095941 AA-TTTG
66 AATTTTG
12095947 AGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 A-AAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
12096012 TGAATTTTG
64 TGAATTTTG
* *
12096021 AAAACAGAAATTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12096086 AATTTTG
66 AATTTTG
*
12096093 AAAACAGAAATTGAAATTACCTC-ACGT-TC-TGA-GCTC-ACTCATTTC-CGCAATATGAGTT-
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12096151 AATTTTG
66 AATTTTG
* *
12096158 AAAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
12096222 ATTTTTT
66 AATTTTG
* * *
12096229 AACAACAGAAATT-AAAATTA-CTC-AGGTGTCCTGAGGCTC-ACTCATTTCTCGCAATA-AAGT
1 AA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
12096289 TGAA-TTTG
64 TGAATTTTG
* *
12096297 AAAACAG-AATTGAAATTACCTC-ACGTGTCCTGA-GCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
12096359 ATTTTTTT
66 A-ATTTTG
* * ** *
12096367 AACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
12096431 TG-ATTTTG
64 TGAATTTTG
*
12096439 AAAAACATAAATT-AAAA
1 -AAAACAGAAATTGAAAA
12096456 GGCTTAACTC
Statistics
Matches: 1411, Mismatches: 46, Indels: 97
0.91 0.03 0.06
Matches are distributed among these distances:
60 9 0.01
61 5 0.00
62 7 0.00
63 13 0.01
64 19 0.01
65 33 0.02
66 33 0.02
67 51 0.04
68 37 0.03
69 34 0.02
70 59 0.04
71 164 0.12
72 617 0.44
73 232 0.16
74 89 0.06
75 9 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTG
Found at i:12095240 original size:145 final size:144
Alignment explanation
Indices: 12094878--12096455 Score: 2456
Period size: 145 Copynumber: 11.1 Consensus size: 144
12094868 AGAAATTGAA
12094878 AAAACAG-AATTGAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
12094942 GAATTTTGAAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
65 GAATTTTG-AAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
12095007 ATATGAGTTGAATTTTG
128 ATATGAGTTGAATTTTG
12095024 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095089 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
12095154 TGAGTTGAATTTTG
131 TGAGTTGAATTTTG
*
12095168 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
12095233 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
12095298 ATGAGTTGAATTTTG
130 ATGAGTTGAATTTTG
*
12095313 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* *
12095378 GAA-TTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC-A
65 GAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
12095441 TATGAGTTGAATTTTG
129 TATGAGTTGAATTTTG
* *
12095457 AAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12095522 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
12095587 TGAG-TGAATTTTG
131 TGAGTTGAATTTTG
*
12095600 AAAAGCAGAAATTGAAAATACCTCAGCGTG-C-TGAGGCT-AACT-ATTTCT-G-AATA--AGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* *
12095657 GAATTTTG-AAACAGAAATTG-AA-TA-CTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
12095718 ATGAGTTGAATTTTG
130 ATGAGTTGAATTTTG
*
12095733 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
12095798 AATTTTGAGAAGCAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 AATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
12095862 ATGAGTTGAATTTTG
130 ATGAGTTGAATTTTG
*
12095877 -AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
12095941 AA-TTTGAGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 AATTTTGA-AAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
12096005 TATGAGTTGAATTTTG
129 TATGAGTTGAATTTTG
* *
12096021 AAAACAGAAATTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
12096086 AATTTTGAAAACAGAAATTGAAATTACCTC-ACGT-TC-TGA-GCTC-ACTCATTTC-CGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
12096145 TGAGTT-AATTTTG
131 TGAGTTGAATTTTG
* *
12096158 AAAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * * *
12096222 ATTTTTTAACAACAGAAATTAAAATTA-CTC-AGGTGTCCTGAGGCTC-ACTCATTTCTCGCAAT
66 AATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
12096284 A-AAGTTGAA-TTTG
130 ATGAGTTGAATTTTG
* *
12096297 AAAACAG-AATTGAAATTACCTC-ACGTGTCCTGA-GCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * * * ** *
12096359 ATTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAA
66 A-ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
12096424 TATGAGTTG-ATTTTG
129 TATGAGTTGAATTTTG
*
12096439 AAAAACATAAATT-AAAA
1 -AAAACAGAAATTGAAAA
12096456 GGCTTAACTC
Statistics
Matches: 1353, Mismatches: 41, Indels: 79
0.92 0.03 0.05
Matches are distributed among these distances:
132 63 0.05
133 16 0.01
134 9 0.01
135 16 0.01
136 78 0.06
137 69 0.05
138 65 0.05
139 49 0.04
140 45 0.03
141 22 0.02
142 37 0.03
143 223 0.16
144 252 0.19
145 333 0.25
146 67 0.05
147 9 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (144 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTG
Found at i:12095964 original size:492 final size:497
Alignment explanation
Indices: 12094880--12096455 Score: 2509
Period size: 492 Copynumber: 3.2 Consensus size: 497
12094870 AAATTGAAAA
12094880 AACAG-AATTGAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AACAGAAATTG-AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
12094944 ATTTTGAAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 ATTTTG-AAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
12095009 ATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
129 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
12095074 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
194 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC-ACGTG-C-TGAGGCT-AAC
* *
12095139 TCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGA
255 TCATTTCT-GCAATA-GAGTTGAATTTTGA-AA-CAGAAATTG-AAATACCTCAGCGTGTCCTGA
12095204 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGT
315 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGT
12095269 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATAC
380 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTG-AAATAC
*
12095334 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAG
444 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAC
*
12095387 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC-ATATGAGTTGA
1 AA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
12095451 ATTTTGAAAA-CATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
65 ATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
12095515 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
130 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
*
12095580 CGCAATATGAG-TGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCTGAGGCTAACT-A
195 CGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA-CGTGCTGAGGCTAACTCA
12095643 TTTCTG-AATA-AGTTGAATTTTGAAACAGAAATTG-AATA-CTCAGCGTGTCCTGAGGCTCAAC
258 TTTCTGCAATAGAGTTGAATTTTGAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAAC
12095704 TCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAG
323 TCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAG
12095769 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAATACCTCAACGTG
388 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAATACCTCAACGTG
12095834 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-
453 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAC
12095878 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
12095943 -TTTGAGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 TTTTGA-AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
*
12096007 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCATTTCT
130 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
* *
12096072 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCACGTTCTGA-GCTCACTCATT
195 CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCACGTGCTGAGGCTAACTCATT
*
12096136 TCCGCAATATGAGTT-AATTTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAAC
260 TCTGCAATA-GAGTTGAATTTTG-AAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAAC
* * * * *
12096200 TCATTTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTAAAATTA-CTC-AGGTGTCCTGA
323 TCATTTCTCGCAATATGAGTTGAATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGA
* *
12096263 GGCTC-ACTCATTTCTCGCAATA-AAGTTGAA-TTTGA-AAACAG-AATTGAAATTACCTC-ACG
387 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAA-TACCTCAACG
* * *
12096322 TGTCCTGA-GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAC
451 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAC
* * * ** *
12096370 AACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-A
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
* *
12096434 TTTTGAAAAACATAAATT-AAAA
66 TTTTGAAAAGCAGAAATTGAAAA
12096456 GGCTTAACTC
Statistics
Matches: 1014, Mismatches: 33, Indels: 61
0.92 0.03 0.06
Matches are distributed among these distances:
489 30 0.03
490 82 0.08
491 110 0.11
492 358 0.35
493 31 0.03
494 33 0.03
495 27 0.03
496 57 0.06
497 29 0.03
499 4 0.00
500 1 0.00
501 6 0.01
502 4 0.00
503 7 0.01
504 15 0.01
505 149 0.15
506 4 0.00
507 19 0.02
508 43 0.04
509 5 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (497 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCACGTGCTGAGGCTAACTCATTT
CTGCAATAGAGTTGAATTTTGAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
CAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAATACCTCAACGTGTCT
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAC
Found at i:12096554 original size:120 final size:123
Alignment explanation
Indices: 12096364--12096603 Score: 344
Period size: 120 Copynumber: 2.0 Consensus size: 123
12096354 AGTTGATTTT
* *
12096364 TTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTTAACAACAGAAACTAAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGA
* *
12096429 GTTGA-TTTTGAAAAACATAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
66 GTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCA-CTCTCGCAATATGAGTCAA
* ** * *
12096487 TTTAA-AACATAAACTAAAA-TACCTTGGCGTGCCCT-AGGCTCAACTCACTTCTCGCAATATGA
1 TTTAACAACAGAAACTAAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGA
**
12096549 GTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACTCTCGTGATATGAGT
66 GTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACTCTCGCAATATGAGT
12096604 TGATTTTCTT
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
120 44 0.42
121 44 0.42
122 12 0.11
123 5 0.05
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (123 bp):
TTTAACAACAGAAACTAAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGA
GTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACTCTCGCAATATGAGTCAA
Found at i:12104800 original size:22 final size:21
Alignment explanation
Indices: 12104747--12104801 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
12104737 AATTTTGAAG
12104747 CACGAAA-TTTTTTTTTAAAA
1 CACGAAATTTTTTTTTTAAAA
* *
12104767 AAGGAAAGTTTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTTTAAAA
12104789 CACGAGAATTTTT
1 CACGA-AATTTTT
12104802 AAACACGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 5 0.18
22 21 0.75
23 2 0.07
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (21 bp):
CACGAAATTTTTTTTTTAAAA
Found at i:12104814 original size:16 final size:17
Alignment explanation
Indices: 12104780--12104840 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
12104770 GAAAGTTTTT
12104780 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
12104797 TTTTT-AAACACG-GAAA
1 TTTTTAAAACACGAG-AA
** *
12104813 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
12104830 CTTTTGAAAAC
1 -TTTTTAAAAC
12104841 GCGAAAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 1 0.03
16 12 0.34
17 14 0.40
18 8 0.23
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.28
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:12104893 original size:18 final size:17
Alignment explanation
Indices: 12104844--12104894 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
12104834 TGAAAACGCG
12104844 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
12104861 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
12104879 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
12104895 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:12105406 original size:8 final size:8
Alignment explanation
Indices: 12105388--12105453 Score: 84
Period size: 7 Copynumber: 8.4 Consensus size: 8
12105378 ATTGAACCCC
12105388 CTTTTTCTT
1 CTTTTT-TT
12105397 CTTTTTTT
1 CTTTTTTT
12105405 CTTTTTTT
1 CTTTTTTT
12105413 C-TTTTTT
1 CTTTTTTT
*
12105420 CCTTTTTT
1 CTTTTTTT
12105428 C-TTTTTT
1 CTTTTTTT
12105435 C-TTTTTT
1 CTTTTTTT
12105442 CTTCTTTTT
1 CTT-TTTTT
12105451 CTT
1 CTT
12105454 CCTTCTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.39
8 19 0.35
9 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:12105411 original size:7 final size:7
Alignment explanation
Indices: 12105399--12105466 Score: 82
Period size: 7 Copynumber: 9.1 Consensus size: 7
12105389 TTTTTCTTCT
12105399 TTTTTTC
1 TTTTTTC
12105406 TTTTTTTC
1 -TTTTTTC
12105414 TTTTTTCC
1 TTTTTT-C
12105422 TTTTTTC
1 TTTTTTC
12105429 TTTTTTC
1 TTTTTTC
12105436 TTTTTTC
1 TTTTTTC
12105443 TTCTTTTTC
1 -T-TTTTTC
**
12105452 TTCCTTC
1 TTTTTTC
12105459 TTTTTTC
1 TTTTTTC
12105466 T
1 T
12105467 GCTGGGCTGC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
7 31 0.58
8 16 0.30
9 6 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:12105414 original size:16 final size:15
Alignment explanation
Indices: 12105390--12105464 Score: 89
Period size: 16 Copynumber: 4.9 Consensus size: 15
12105380 TGAACCCCCT
12105390 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
12105406 TTTTTTTCTTTTTTCC
1 -TTTTTTCTTTTTTTC
12105422 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
12105436 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
12105452 TTCCTTCTTTTTT
1 TTTTTTCTTTTTT
12105465 CTGCTGGGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.25
15 12 0.23
16 23 0.44
17 4 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:12105429 original size:23 final size:22
Alignment explanation
Indices: 12105395--12105466 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
12105385 CCCCTTTTTC
12105395 TTCTTTTTTTCTTTTTTTCTTTT
1 TTCTTTTTTTC-TTTTTTCTTTT
*
12105418 TTCCTTTTTTCTTTTTTCTTTT
1 TTCTTTTTTTCTTTTTTCTTTT
**
12105440 TTCTTCTTTTTCTTCCTTCTTTT
1 TTCTT-TTTTTCTTTTTTCTTTT
12105463 TTCT
1 TTCT
12105467 GCTGGGCTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.34
23 29 0.66
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTCTTTTTTTCTTTTTTCTTTT
Found at i:12105466 original size:14 final size:14
Alignment explanation
Indices: 12105399--12105466 Score: 82
Period size: 15 Copynumber: 4.6 Consensus size: 14
12105389 TTTTTCTTCT
12105399 TTTTTTCTTTTTTTC
1 TTTTTTC-TTTTTTC
12105414 TTTTTTCCTTTTTTC
1 TTTTTT-CTTTTTTC
12105429 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
**
12105443 TTCTTTTTCTTCCTTC
1 -T-TTTTTCTTTTTTC
12105459 TTTTTTCT
1 TTTTTTCT
12105467 GCTGGGCTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.31
15 21 0.44
16 12 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:12105756 original size:3 final size:3
Alignment explanation
Indices: 12105750--12105795 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
12105740 TTTTCTTTCT
*
12105750 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
12105796 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:12105763 original size:13 final size:13
Alignment explanation
Indices: 12105747--12105795 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
12105737 TTTTTTTCTT
12105747 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
12105760 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
12105773 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
12105784 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
12105796 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:12105779 original size:10 final size:10
Alignment explanation
Indices: 12105764--12105792 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
12105754 TCTTCCTCTT
12105764 TTCTTCTTCC
1 TTCTTCTTCC
12105774 TTCTTCTTCC
1 TTCTTCTTCC
12105784 TTCTTCTTC
1 TTCTTCTTC
12105793 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:12105886 original size:10 final size:10
Alignment explanation
Indices: 12105851--12105900 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
12105841 ACGCCGGTAC
12105851 TCTT-TCTTT
1 TCTTCTCTTT
* *
12105860 TCTTCTCCTC
1 TCTTCTCTTT
12105870 T-TTCTCTTT
1 TCTTCTCTTT
12105879 TCTTCTCTTT
1 TCTTCTCTTT
*
12105889 TCTTCTTTTT
1 TCTTCTCTTT
12105899 TC
1 TC
12105901 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:12105898 original size:19 final size:19
Alignment explanation
Indices: 12105855--12105897 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12105845 CGGTACTCTT
12105855 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
12105874 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
12105891 TTCTTTT
1 -TCTTTT
12105898 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:12106180 original size:29 final size:29
Alignment explanation
Indices: 12106147--12106263 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
12106137 TGTAATTTTT
*
12106147 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
12106176 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
12106206 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
12106235 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
12106264 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:12106202 original size:30 final size:30
Alignment explanation
Indices: 12106162--12106263 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
12106152 ATTTAGGATT
*
12106162 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
12106192 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
12106222 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
12106252 AAAATGCAATTT
1 AAAATGAAATTT
12106264 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:12107569 original size:31 final size:31
Alignment explanation
Indices: 12107534--12107592 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
12107524 TCAATTTTGG
*
12107534 TCAATTTTAATATTTATATTATTTGAATTTA
1 TCAATTTTAATATATATATTATTTGAATTTA
* * *
12107565 TCAATTTTAGTCTATATATTTTTTGAAT
1 TCAATTTTAATATATATATTATTTGAAT
12107593 ATTAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (31 bp):
TCAATTTTAATATATATATTATTTGAATTTA
Found at i:12107602 original size:31 final size:30
Alignment explanation
Indices: 12107548--12107610 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
12107538 TTTTAATATT
*
12107548 TATATTATTTGAATTTATCAATTTTAGTCTA
1 TATATTATTTGAATTTATAAATTTTAGT-TA
*
12107579 TATATTTTTTGAATATTA-AAATTTTAGTTA
1 TATATTATTTGAAT-TTATAAATTTTAGTTA
12107609 TA
1 TA
12107611 AATCAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 22 0.76
32 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (30 bp):
TATATTATTTGAATTTATAAATTTTAGTTA
Found at i:12111361 original size:13 final size:15
Alignment explanation
Indices: 12111331--12111361 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12111321 TTCCAGATTT
12111331 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
12111346 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
12111361 T
1 T
12111362 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:12111447 original size:15 final size:14
Alignment explanation
Indices: 12111405--12111454 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
12111395 ATAATTTTGA
*
12111405 ATGCAAATGATGTG
1 ATGCAAATGATGAG
12111419 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
12111434 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
12111448 ATGCAAA
1 ATGCAAA
12111455 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:12114414 original size:37 final size:37
Alignment explanation
Indices: 12114364--12114442 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12114354 TTATTACGAA
* * *
12114364 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
12114401 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
12114438 GTCTT
1 GTCTT
12114443 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:12114639 original size:47 final size:47
Alignment explanation
Indices: 12114561--12114984 Score: 704
Period size: 47 Copynumber: 8.9 Consensus size: 47
12114551 CCCTTCGGGA
* * * * * *
12114561 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
12114608 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12114655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12114702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12114749 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12114798 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12114847 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12114894 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12114941 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
12114985 CGCCATACTA
Statistics
Matches: 358, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
47 264 0.74
49 94 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12118965 original size:22 final size:22
Alignment explanation
Indices: 12118914--12118974 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
12118904 ATAAGTAAAT
* *
12118914 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
12118935 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
12118957 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
12118975 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:12119074 original size:3 final size:3
Alignment explanation
Indices: 12119066--12119230 Score: 52
Period size: 3 Copynumber: 54.7 Consensus size: 3
12119056 AAAGTAGTGC
* * *
12119066 TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA TAA TGAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA
* * * * *
12119111 TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA TAA GTAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * * * * * * *
12119156 CAA TGA TAAA TTA TAA TAA TAG TGA TGA TAA TAA CAG TAA CAA TAG
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
12119202 TAG TAA TAA T-A TAT TAG TAA TACA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA
12119231 GAGTAGTAAA
Statistics
Matches: 118, Mismatches: 33, Indels: 22
0.68 0.19 0.13
Matches are distributed among these distances:
2 9 0.08
3 95 0.81
4 14 0.12
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12119324 original size:16 final size:16
Alignment explanation
Indices: 12119295--12119332 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12119285 TATACGTATG
*
12119295 AAAA-ATAATGATAGT
1 AAAATATAATAATAGT
12119310 AAAATATAATAATAGT
1 AAAATATAATAATAGT
12119326 AATAATA
1 AA-AATA
12119333 ATGGAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (16 bp):
AAAATATAATAATAGT
Found at i:12120090 original size:24 final size:25
Alignment explanation
Indices: 12120040--12120102 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
12120030 AAAAAAAGAG
* *
12120040 AAAAATCCCCTCTTGAATCTCAAAAA
1 AAAAATCTCTTCTTGAATCTC-AAAA
12120066 AAAAATCTCTTCTTGAATCTC-AAA
1 AAAAATCTCTTCTTGAATCTCAAAA
12120090 AAAAATCTCTTCT
1 AAAAATCTCTTCT
12120103 CTCCAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 16 0.46
26 19 0.54
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (25 bp):
AAAAATCTCTTCTTGAATCTCAAAA
Found at i:12120351 original size:14 final size:13
Alignment explanation
Indices: 12120332--12120378 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
12120322 TGATTAAGGG
12120332 TTTCTTTTTCTTTT
1 TTTCTTTTT-TTTT
12120346 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
* *
12120359 TGT-TTTTTGTTT
1 TTTCTTTTTTTTT
*
12120371 TTTGTTTT
1 TTTCTTTT
12120379 GGGTATTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 10 0.34
13 10 0.34
14 9 0.31
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:12120353 original size:7 final size:7
Alignment explanation
Indices: 12120336--12120378 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
12120326 TAAGGGTTTC
*
12120336 TTTTTCT
1 TTTTTGT
12120343 TTTTT-T
1 TTTTTGT
*
12120349 CTTTT-T
1 TTTTTGT
12120355 TTTTTGT
1 TTTTTGT
12120362 TTTTTGT
1 TTTTTGT
12120369 TTTTTGT
1 TTTTTGT
12120376 TTT
1 TTT
12120379 GGGTATTGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:12120896 original size:17 final size:17
Alignment explanation
Indices: 12120874--12120911 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
12120864 AACATGCCTA
12120874 TGTTAATAAAATCTGG-T
1 TGTTAATAAAAT-TGGAT
12120891 TGTTAATAAAATTGGAT
1 TGTTAATAAAATTGGAT
12120908 TGTT
1 TGTT
12120912 TTCCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (17 bp):
TGTTAATAAAATTGGAT
Found at i:12125314 original size:62 final size:62
Alignment explanation
Indices: 12125227--12125448 Score: 255
Period size: 62 Copynumber: 3.6 Consensus size: 62
12125217 TTTAAGTATC
* * * *
12125227 AACAGTAAGTCACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTTTTATACTATG
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTGTGTGGTTTTATACCATG
* * * * *
12125289 AACAATGAGTTACACGGCCTAGGCACACGCCCGTGTCCCTGACTGTGTAGTTTTATACCATG
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTGTGTGGTTTTATACCATG
* * * * * * * *
12125351 AACAGTAAGTTGCATGGCTTGGGCACAAGCCTATGTTCCTGGCTATGTGGTTTTATACCATG
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTGTGTGGTTTTATACCATG
* * * *
12125413 AACAGTGAGTTACACAGTCTGGGCACATGCCCGTGT
1 AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGT
12125449 GGGTTTATAC
Statistics
Matches: 129, Mismatches: 31, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 129 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (62 bp):
AACAGTGAGTTACACGGCCTGGGCACACGCCTGTGTCCCTGGCTGTGTGGTTTTATACCATG
Found at i:12125400 original size:124 final size:125
Alignment explanation
Indices: 12125183--12125449 Score: 322
Period size: 124 Copynumber: 2.1 Consensus size: 125
12125173 CCACACGACT
* * * **
12125183 TAGGCACACACCCATGTGCCTTGACTGTGTAGATTTTAAGTATCAACAGTAAGTCACACGGCCTG
1 TAGGCACACGCCCGTGTGCCCTGACTGTGTAGATTTTAACCATCAACAGTAAGTCACACGGCCTG
* * * * *
12125248 GGCACACGCCTGTGTCCCTGGCCGTGTGGTTTTATACTATGAACAATGAGTTACACGGCC
66 GGCACAAGCCTATGTCCCTGGCCATGTGGTTTTATACCATGAACAATGAGTTACACAGCC
* ** * *
12125308 TAGGCACACGCCCGTGT-CCCTGACTGTGTAG-TTTTATACCATGAACAGTAAGTTGCATGGCTT
1 TAGGCACACGCCCGTGTGCCCTGACTGTGTAGATTTTA-ACCATCAACAGTAAGTCACACGGCCT
* * * *
12125371 GGGCACAAGCCTATGTTCCTGGCTATGTGGTTTTATACCATGAACAGTGAGTTACACAGTC
65 GGGCACAAGCCTATGTCCCTGGCCATGTGGTTTTATACCATGAACAATGAGTTACACAGCC
* *
12125432 TGGGCACATGCCCGTGTG
1 TAGGCACACGCCCGTGTG
12125450 GGTTTATACC
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
123 5 0.04
124 99 0.83
125 15 0.13
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (125 bp):
TAGGCACACGCCCGTGTGCCCTGACTGTGTAGATTTTAACCATCAACAGTAAGTCACACGGCCTG
GGCACAAGCCTATGTCCCTGGCCATGTGGTTTTATACCATGAACAATGAGTTACACAGCC
Found at i:12127126 original size:32 final size:32
Alignment explanation
Indices: 12127090--12127155 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
12127080 CATAATTAAG
12127090 AACAAGTTTAAATATTTATCATACGATTCAGA
1 AACAAGTTTAAATATTTATCATACGATTCAGA
12127122 AACAAGTTTAAATATTTATCATACGATTCAGA
1 AACAAGTTTAAATATTTATCATACGATTCAGA
12127154 AA
1 AA
12127156 ATAATAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (32 bp):
AACAAGTTTAAATATTTATCATACGATTCAGA
Found at i:12127507 original size:13 final size:13
Alignment explanation
Indices: 12127486--12127518 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12127476 GCTCGGTAGG
*
12127486 GACATGCTCGTGT
1 GACACGCTCGTGT
12127499 GACACGCTCGTGT
1 GACACGCTCGTGT
12127512 GACACGC
1 GACACGC
12127519 CCATGTGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.21
Consensus pattern (13 bp):
GACACGCTCGTGT
Found at i:12130265 original size:34 final size:34
Alignment explanation
Indices: 12130227--12130295 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
12130217 AAGTCGAAGG
12130227 AAAATAGAGAAGTTGACAAGTATAAGGCGCGCTT
1 AAAATAGAGAAGTTGACAAGTATAAGGCGCGCTT
12130261 AAAATAGAGAAGTTGACAAGTATAAGGCGCGCTT
1 AAAATAGAGAAGTTGACAAGTATAAGGCGCGCTT
12130295 A
1 A
12130296 GTGGCCAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (34 bp):
AAAATAGAGAAGTTGACAAGTATAAGGCGCGCTT
Found at i:12131684 original size:17 final size:18
Alignment explanation
Indices: 12131644--12131685 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
12131634 TTTAAAGGAG
12131644 GGATTGTTAATAAAATCT
1 GGATTGTTAATAAAATCT
12131662 GG-TTGTTAATAAAATC-
1 GGATTGTTAATAAAATCT
12131678 GGATTGTT
1 GGATTGTT
12131686 TTCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (18 bp):
GGATTGTTAATAAAATCT
Found at i:12133022 original size:16 final size:17
Alignment explanation
Indices: 12133003--12133036 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12132993 TATTAATCAA
12133003 TATAAAT-TTTAAAATT
1 TATAAATGTTTAAAATT
*
12133019 TATAAATGTTTATAATT
1 TATAAATGTTTAAAATT
12133036 T
1 T
12133037 TTTAACATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATAAATGTTTAAAATT
Found at i:12140345 original size:3 final size:3
Alignment explanation
Indices: 12140339--12140365 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12140329 GAGCAGCATC
12140339 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
12140366 TCCATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12142475 original size:14 final size:13
Alignment explanation
Indices: 12142450--12142474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12142440 TGTTTACTTT
12142450 ATGCTTTTTTTTC
1 ATGCTTTTTTTTC
12142463 ATGCTTTTTTTT
1 ATGCTTTTTTTT
12142475 TGTATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (13 bp):
ATGCTTTTTTTTC
Found at i:12142855 original size:35 final size:35
Alignment explanation
Indices: 12142816--12142887 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
12142806 AAAATGCCAC
* * *
12142816 ATCATTATCTCTTAATGGAGTTAGCAAAAAATTAA
1 ATCATTATCTCTTAACGGAGTCAACAAAAAATTAA
*
12142851 ATCATTCTCTCTTAACGGAGTCAACAAAAAATTAA
1 ATCATTATCTCTTAACGGAGTCAACAAAAAATTAA
12142886 AT
1 AT
12142888 TATTTAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (35 bp):
ATCATTATCTCTTAACGGAGTCAACAAAAAATTAA
Found at i:12145663 original size:3 final size:3
Alignment explanation
Indices: 12145657--12145697 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
12145647 TAGAAAAATA
* * *
12145657 AAT AAT AAT AAC AAT AAT AAT AAT GAG AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12145698 CAAAATGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:12145675 original size:15 final size:15
Alignment explanation
Indices: 12145657--12145700 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
12145647 TAGAAAAATA
12145657 AATAATAATAACAAT
1 AATAATAATAACAAT
* *
12145672 AATAATAATGAGAAT
1 AATAATAATAACAAT
12145687 AATAATAATAACAA
1 AATAATAATAACAA
12145701 AATGTGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:12145783 original size:4 final size:4
Alignment explanation
Indices: 12145768--12145801 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
12145758 GGAATCAATG
* *
12145768 AATA ACTA AATA AATA AACA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
12145802 AACTTTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:12148723 original size:15 final size:16
Alignment explanation
Indices: 12148696--12148726 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12148686 TTTTAAATTA
12148696 TTTGGAAACTTTATAT
1 TTTGGAAACTTTATAT
12148712 TTTGGAAA-TTTATAT
1 TTTGGAAACTTTATAT
12148727 CTTTTTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (16 bp):
TTTGGAAACTTTATAT
Found at i:12150186 original size:26 final size:26
Alignment explanation
Indices: 12150156--12150209 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
12150146 TAATAACAAT
*
12150156 AAGTTGTTCTATTAGGAA-TAAAAAAA
1 AAGTTGTTCTATTA-AAATTAAAAAAA
12150182 AAGTTGTTCTATTAAAATTAAAAAAA
1 AAGTTGTTCTATTAAAATTAAAAAAA
12150208 AA
1 AA
12150210 AACAATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.31
Consensus pattern (26 bp):
AAGTTGTTCTATTAAAATTAAAAAAA
Found at i:12153496 original size:44 final size:44
Alignment explanation
Indices: 12153407--12153531 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 44
12153397 TCGTCCTAAC
* * * *
12153407 CCACTACAACTTCAGGG-GTATAGGAATTGTTGCTTTGATCCACT
1 CCACTACAACTTCAGGGAG-ATAAGACTTGTAGCTTTCATCCACT
* * * * *
12153451 CCACTATAATTTTAGGGAGATAAGATTTGTAGCTTTCATCTACT
1 CCACTACAACTTCAGGGAGATAAGACTTGTAGCTTTCATCCACT
* *
12153495 CCACTGCAACTTCAGGGAGATGAGACTTGTAG-TTTCA
1 CCACTACAACTTCAGGGAGATAAGACTTGTAGCTTTCA
12153532 ATTTGCTCCA
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
43 5 0.08
44 60 0.91
45 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
CCACTACAACTTCAGGGAGATAAGACTTGTAGCTTTCATCCACT
Found at i:12153597 original size:52 final size:52
Alignment explanation
Indices: 12153493--12153597 Score: 115
Period size: 52 Copynumber: 2.0 Consensus size: 52
12153483 CTTTCATCTA
* *
12153493 CTCCACTGCAACTTCAGGGAGATGAGACTTGTAGTTTCAATTTGCTCCACTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAGTTTCAATCTGCTCCACTG
* * * * *
12153545 CTCCACT-CTAACTTCGGGGAGATAATATTTGTAGCTTT-AATCTGTTCTACTG
1 CTCCACTGC-AACTTCAGGGAGATAAGACTTGTAG-TTTCAATCTGCTCCACTG
12153597 C
1 C
12153598 AATTTCAGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
51 1 0.02
52 40 0.91
53 3 0.07
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (52 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAGTTTCAATCTGCTCCACTG
Found at i:12153693 original size:44 final size:44
Alignment explanation
Indices: 12153643--12153759 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
12153633 ACTGCATTAC
*
12153643 AACTTTAGGGAGATAAGATTTGTAACTTCAA-CTTGCTACACTGA
1 AACTTTAGGGAGATAAGGTTTGTAACTTCAATC-TGCTACACTGA
* *
12153687 AACTTTAGGGAGATAAGGTTTGT--CGTTCTAATCTGCTCCACTGC
1 AACTTTAGGGAGATAAGGTTTGTAAC-TTC-AATCTGCTACACTGA
*
12153731 AACTTCAGGGAGATAAGGTTTGTAA-TTCA
1 AACTTTAGGGAGATAAGGTTTGTAACTTCA
12153760 TAGCCTTAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
42 1 0.02
43 4 0.06
44 58 0.91
45 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
AACTTTAGGGAGATAAGGTTTGTAACTTCAATCTGCTACACTGA
Found at i:12163271 original size:19 final size:20
Alignment explanation
Indices: 12163247--12163285 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
12163237 TTATAAAACT
*
12163247 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
12163266 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
12163286 GATACAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:12170339 original size:6 final size:6
Alignment explanation
Indices: 12170328--12170364 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
12170318 AGAAGTTGTG
12170328 ATAATT ATAATT AT-A-T ATAATT ATAATTT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAA-TT ATAATT AT
12170365 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 17 0.61
7 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:12170367 original size:16 final size:16
Alignment explanation
Indices: 12170328--12170359 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12170318 AGAAGTTGTG
12170328 ATAATTATAATTATAT
1 ATAATTATAATTATAT
12170344 ATAATTATAATT-TAT
1 ATAATTATAATTATAT
12170359 A
1 A
12170360 ATTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATTATAATTATAT
Found at i:12174128 original size:19 final size:21
Alignment explanation
Indices: 12174097--12174135 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12174087 AGGCCCATAC
12174097 CAAAACTAAAATAA-AAAATG
1 CAAAACTAAAATAACAAAATG
12174117 CAAAAC-AAAATAACAAAAT
1 CAAAACTAAAATAACAAAAT
12174136 AAAATCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.13
Consensus pattern (21 bp):
CAAAACTAAAATAACAAAATG
Found at i:12175610 original size:25 final size:25
Alignment explanation
Indices: 12175582--12175637 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
12175572 TGATTTTGTG
*
12175582 TTATTTTATATAAATTCTTTTAAAT
1 TTATTTTATATAAATTCTTTTAAAC
* *
12175607 TTATTATATATATATTCTTTTAAAC
1 TTATTTTATATAAATTCTTTTAAAC
12175632 TTATTT
1 TTATTT
12175638 ATGTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTTTATATAAATTCTTTTAAAC
Found at i:12181246 original size:50 final size:50
Alignment explanation
Indices: 12181171--12181447 Score: 473
Period size: 50 Copynumber: 5.5 Consensus size: 50
12181161 CCATGGCAAC
* *
12181171 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
12181221 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
12181271 AGGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
12181321 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
12181371 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
12181422 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
12181448 CTGATCAATG
Statistics
Matches: 216, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
50 193 0.89
51 23 0.11
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:12181465 original size:31 final size:31
Alignment explanation
Indices: 12181427--12181485 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
12181417 ATGGCAAGTA
12181427 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
12181458 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
12181486 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:12181493 original size:46 final size:46
Alignment explanation
Indices: 12181440--12181531 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
12181430 AGTGGTAGCT
* * *
12181440 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAACTCCGGCTACCTGATCA
* * *
12181486 TCGGCTACTTGATTAGTGAAAAATGGTAACTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAACTCCGGCTACCTGATCA
12181532 GTGAATAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAACTCCGGCTACCTGATCA
Found at i:12181553 original size:31 final size:31
Alignment explanation
Indices: 12181486--12181555 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
12181476 TACCTGATCA
* * *
12181486 TCGGCTACTTGATTAGTGAAAAATGGTAACT
1 TCGGCTACCTGATCAGTGAAAAATGATAACT
* * * *
12181517 CCGGCTACCTGATCAGTGAATAGTGATAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAACT
12181548 TCGGCTAC
1 TCGGCTAC
12181556 AAGTGACAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (31 bp):
TCGGCTACCTGATCAGTGAAAAATGATAACT
Found at i:12184617 original size:16 final size:16
Alignment explanation
Indices: 12184596--12184639 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
12184586 TCTTGAGGCC
*
12184596 TTAAAAAAATTAAAAA
1 TTAAAAAAAATAAAAA
12184612 TTAAAAAAAATAAAAA
1 TTAAAAAAAATAAAAA
12184628 TTCAAACAAAAA
1 TT-AAA-AAAAA
12184640 ATCAATCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 17 0.68
17 3 0.12
18 5 0.20
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
TTAAAAAAAATAAAAA
Found at i:12185949 original size:64 final size:64
Alignment explanation
Indices: 12185761--12185950 Score: 299
Period size: 64 Copynumber: 3.0 Consensus size: 64
12185751 TCATTCATAA
* *
12185761 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCTTAATTATTTGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* ** * *
12185825 CACATCTAGTTAGGAACATTTGATTCATTTCGATCATAGTGTCCTGATTAGTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
12185889 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGTCATAAGC
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC
12185951 GTAGATACAT
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 112 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:12186179 original size:19 final size:20
Alignment explanation
Indices: 12186155--12186193 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
12186145 TTATAAAACT
*
12186155 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
12186174 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
12186194 GATACAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:12193241 original size:6 final size:6
Alignment explanation
Indices: 12193230--12193266 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
12193220 AGAAGTTGTG
12193230 ATAATT ATAATT AT-A-T ATAATT ATAATTT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAA-TT ATAATT AT
12193267 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 17 0.61
7 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:12193269 original size:16 final size:16
Alignment explanation
Indices: 12193230--12193261 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12193220 AGAAGTTGTG
12193230 ATAATTATAATTATAT
1 ATAATTATAATTATAT
12193246 ATAATTATAATT-TAT
1 ATAATTATAATTATAT
12193261 A
1 A
12193262 ATTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATTATAATTATAT
Found at i:12196994 original size:19 final size:21
Alignment explanation
Indices: 12196963--12197001 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12196953 AGGCCCATAC
12196963 CAAAACTAAAATAA-AAAATG
1 CAAAACTAAAATAACAAAATG
12196983 CAAAAC-AAAATAACAAAAT
1 CAAAACTAAAATAACAAAAT
12197002 AAAATCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.13
Consensus pattern (21 bp):
CAAAACTAAAATAACAAAATG
Found at i:12197477 original size:19 final size:18
Alignment explanation
Indices: 12197449--12197484 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12197439 TTAAATCTCA
12197449 TTTTTCTTTTCATTTTGC
1 TTTTTCTTTTCATTTTGC
*
12197467 TTTTATCTTTTGATTTTG
1 TTTT-TCTTTTCATTTTG
12197485 TTATTGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTCTTTTCATTTTGC
Found at i:12198466 original size:25 final size:25
Alignment explanation
Indices: 12198432--12198495 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
12198422 TGATTTCGTG
* *
12198432 TTATTTTATATAAATTCTTTTAAAT
1 TTATTATATATAAATTCTTTTAAAC
*
12198457 TTATTATATATATATTCTTTTAAAC
1 TTATTATATATAAATTCTTTTAAAC
*
12198482 TTATTTATGTATAA
1 TTA-TTATATATAA
12198496 TTTGTTTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 25 0.76
26 8 0.24
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATTATATATAAATTCTTTTAAAC
Found at i:12204093 original size:50 final size:50
Alignment explanation
Indices: 12204018--12204294 Score: 473
Period size: 50 Copynumber: 5.5 Consensus size: 50
12204008 CCATGGCAAC
* *
12204018 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
12204068 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
12204118 ATGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
12204168 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
12204218 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
12204269 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
12204295 CTGATCAATG
Statistics
Matches: 216, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
50 193 0.89
51 23 0.11
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:12204312 original size:31 final size:31
Alignment explanation
Indices: 12204274--12204332 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
12204264 ATGGCAAGTA
12204274 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
12204305 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
12204333 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:12204340 original size:46 final size:46
Alignment explanation
Indices: 12204287--12204378 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
12204277 AGTGGTAGCT
* * *
12204287 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAACTCCGGCTACCTGATCA
* * *
12204333 TCGGCTACTTGATTAGTGAAAAATGGTAACTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAACTCCGGCTACCTGATCA
12204379 GTGAATAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAACTCCGGCTACCTGATCA
Done.