Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 285 of 349
Found at i:95299954 original size:21 final size:23
Alignment explanation
Indices: 95299910--95299959 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
95299900 TTTTCTCTCA
* *
95299910 TTTTCTCTCTTGCCAAACACCAT
1 TTTTCTCTCTTGCAAAACAACAT
95299933 TTTTC-CTCTT-CAAAACAACAT
1 TTTTCTCTCTTGCAAAACAACAT
95299954 TTTTCT
1 TTTTCT
95299960 TCATCACTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.58
22 5 0.21
23 5 0.21
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTCTCTCTTGCAAAACAACAT
Found at i:95310624 original size:29 final size:27
Alignment explanation
Indices: 95310606--95310675 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
95310596 ATATTAAGTC
95310606 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
95310633 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
95310661 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
95310676 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:95310669 original size:28 final size:28
Alignment explanation
Indices: 95310606--95310703 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
95310596 ATATTAAGTC
*
95310606 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
95310633 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
95310661 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
95310690 CGCACACTTAGTGC
1 CGCACACTTAGTGC
95310704 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:95315029 original size:30 final size:30
Alignment explanation
Indices: 95314993--95315054 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
95314983 CAAGTAGCCG
* *
95314993 AAGCTAGTTTAAATCGCACACTTAGTGTCA
1 AAGCTAGTTTAAATCACACACTTAGTGCCA
95315023 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTTAAATCACACACTTAGTGCCA
95315053 AA
1 AA
95315055 ACTTCTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCACACACTTAGTGCCA
Found at i:95322014 original size:13 final size:13
Alignment explanation
Indices: 95321996--95322022 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95321986 TTGAAGATGA
95321996 AGATCAATGAACG
1 AGATCAATGAACG
95322009 AGATCAATGAACG
1 AGATCAATGAACG
95322022 A
1 A
95322023 TAGAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (13 bp):
AGATCAATGAACG
Found at i:95322299 original size:67 final size:69
Alignment explanation
Indices: 95322221--95322348 Score: 215
Period size: 69 Copynumber: 1.9 Consensus size: 69
95322211 GAAATGAGCT
*
95322221 AACCATATGTTTTGAAG-AAGAAAAA-TGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGG
1 AACCATATGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGG
95322284 CAAC
66 CAAC
* *
95322288 AACCATGTGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGTGAGAAAATGAGAGAAAAAA
1 AACCATATGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAA
95322349 TTTTGTTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 16 0.29
68 7 0.12
69 33 0.59
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.20
Consensus pattern (69 bp):
AACCATATGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGG
CAAC
Found at i:95325279 original size:31 final size:31
Alignment explanation
Indices: 95325244--95325306 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
95325234 AATGTCATTT
*
95325244 TACAATTATCGTGCAAACCAATCATAAACTA
1 TACAATTATCGTGCAAAACAATCATAAACTA
95325275 TACAATTATCGTGCAAAACAATCATAAACTA
1 TACAATTATCGTGCAAAACAATCATAAACTA
95325306 T
1 T
95325307 CCTGTAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (31 bp):
TACAATTATCGTGCAAAACAATCATAAACTA
Found at i:95326847 original size:48 final size:48
Alignment explanation
Indices: 95326783--95327107 Score: 373
Period size: 48 Copynumber: 6.7 Consensus size: 48
95326773 GGTTATGTGT
*
95326783 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* ** * * * *
95326831 GAGCTAGTGTAAGACCATGTCAGGGACATGGCATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* * *
95326879 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCACTATTATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* * * * * *
95326927 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGCA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATG-A
* * *
95326976 -AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* * * * *
95327023 GAGCTAGCGTAAAACCATGTCTGGGACATGGCATCGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-TTAT-TATGA
**
95327073 GAGCCAGTGTAAGACCATGTTCAGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
95327108 TACATTTTAC
Statistics
Matches: 224, Mismatches: 49, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
48 188 0.84
49 3 0.01
50 33 0.15
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
Found at i:95326947 original size:96 final size:96
Alignment explanation
Indices: 95326783--95327107 Score: 483
Period size: 96 Copynumber: 3.4 Consensus size: 96
95326773 GGTTATGTGT
* *
95326783 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
95326848 TGTCAGGGACATGGCATCGGCCTCAATATGC
66 TGTCAGGGACATGGCATCGGCCTCAATATGC
* *
95326879 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCACTATTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
95326944 TGTCTA-GGACATGGCATCGGCCTCAATATGC
66 TGTC-AGGGACATGGCATCGGCCTCAATATGC
* * * * *
95326975 AAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCTAGCGTAAAACCA
1 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
* * * *
95327040 TGTCTGGGACATGGCATCGGCACTGATGTATGA
66 TGTCAGGGACATGGCATCGGC-CTCA-ATATGC
95327073 GAGCCAGTGTAAGACCATGTTCAGG-ACATGGCATC
1 GAGCCAGTGTAAGACCATGTTC-GGAACATGGCATC
95327108 TACATTTTAC
Statistics
Matches: 207, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
96 167 0.81
97 4 0.02
98 34 0.16
99 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
TGTCAGGGACATGGCATCGGCCTCAATATGC
Found at i:95330169 original size:16 final size:16
Alignment explanation
Indices: 95330148--95330181 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
95330138 ATAAAATAAA
95330148 GTAAACACAAGACAGT
1 GTAAACACAAGACAGT
95330164 GTAAACACAAGACAGT
1 GTAAACACAAGACAGT
95330180 GT
1 GT
95330182 GAGCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (16 bp):
GTAAACACAAGACAGT
Found at i:95330710 original size:19 final size:20
Alignment explanation
Indices: 95330677--95330715 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
95330667 ACACGTGTAA
95330677 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
95330697 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
95330716 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:95330822 original size:17 final size:17
Alignment explanation
Indices: 95330797--95330837 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
95330787 AGGAATTGAA
*
95330797 AAAGAAATAGAGAATAG
1 AAAGAAATAGAGAAAAG
* *
95330814 AACGAAATAGGGAAAAG
1 AAAGAAATAGAGAAAAG
95330831 AAAGAAA
1 AAAGAAA
95330838 GAAAAAGAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.07
Consensus pattern (17 bp):
AAAGAAATAGAGAAAAG
Found at i:95341245 original size:19 final size:19
Alignment explanation
Indices: 95341220--95341269 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
95341210 AATTGATGCC
*
95341220 TCATTTGCATT-CATTTCA
1 TCATTTGCATTACATTACA
95341238 TGCATTTGCATTACATTACA
1 T-CATTTGCATTACATTACA
*
95341258 TCATATGCATTA
1 TCATTTGCATTA
95341270 AAGACCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (19 bp):
TCATTTGCATTACATTACA
Found at i:95344413 original size:37 final size:37
Alignment explanation
Indices: 95344363--95344512 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
95344353 CTTTAGCTCA
* *
95344363 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
95344400 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
95344437 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
95344474 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
95344511 GA
1 GA
95344513 ATATATTTCC
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:95344813 original size:46 final size:47
Alignment explanation
Indices: 95344716--95344899 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
95344706 TACATATATT
* * * *
95344716 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
95344763 TCACATTGGCCATTCGGCCTTATCACACA-ATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
95344809 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
95344856 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
95344900 CACAATTATC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 42 0.34
47 82 0.66
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:95344833 original size:22 final size:22
Alignment explanation
Indices: 95344808--95344883 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
95344798 GCTCACATTC
95344808 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
95344830 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
95344854 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
95344877 ATCACAT
1 ATCACAT
95344884 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:95348793 original size:25 final size:25
Alignment explanation
Indices: 95348758--95348807 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
95348748 GGAATTCGCA
95348758 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCT-TAATCATTCG
* *
95348783 CACACATAGTGCTCTTATTCATTCG
1 CACACACAGTGCTCTTAATCATTCG
95348808 TATTTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (25 bp):
CACACACAGTGCTCTTAATCATTCG
Found at i:95349091 original size:40 final size:40
Alignment explanation
Indices: 95349036--95349382 Score: 630
Period size: 40 Copynumber: 8.8 Consensus size: 40
95349026 TCTTCGGGTT
* *
95349036 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349076 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* *
95349116 TAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349156 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349196 TAGCACGAATGCTCTTCGGG-CTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349235 TAGCACGAATGCTCTTCGGG-CTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349274 TAGCACGAATGCTCTTCGGGACTTAGCCCGG-TACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349313 TAGCACGAATGCTCTTCGGG-CTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
95349352 TAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGG
95349383 GTATACCACT
Statistics
Matches: 298, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
38 10 0.03
39 134 0.45
40 154 0.52
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
Found at i:95349309 original size:78 final size:80
Alignment explanation
Indices: 95349036--95349382 Score: 630
Period size: 78 Copynumber: 4.4 Consensus size: 80
95349026 TCTTCGGGTT
* *
95349036 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTA
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
95349101 GCCCGGATACATCAC
66 GCCCGGATACATCAC
* *
95349116 TAGCACGAATGCTCTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTA
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
95349181 GCCCGGATACATCAC
66 GCCCGGATACATCAC
95349196 TAGCACGAATGCTCTTCGGG-CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG-CTTA
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
95349259 GCCCGGATACATCAC
66 GCCCGGATACATCAC
95349274 TAGCACGAATGCTCTTCGGGACTTAGCCCGG-TACATCACTAGCACGAATGCTCTTCGGG-CTTA
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
95349337 GCCCGGATACATCAC
66 GCCCGGATACATCAC
95349352 TAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGG
95349383 GTATACCACT
Statistics
Matches: 263, Mismatches: 3, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
78 117 0.44
79 48 0.18
80 98 0.37
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (80 bp):
TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
GCCCGGATACATCAC
Found at i:95350721 original size:37 final size:37
Alignment explanation
Indices: 95350658--95350770 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
95350648 CTTTAGCTCA
* *
95350658 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
95350695 GACAAAATCT-CATCACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCA-CACGTAGTCATCGGGTCTTACCCG
*
95350732 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
95350769 GA
1 GA
95350771 ATATTTCCAA
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 2 0.03
37 67 0.94
38 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:95351034 original size:47 final size:47
Alignment explanation
Indices: 95350973--95351157 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
95350963 TACATATATT
* * * *
95350973 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
95351020 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
95351067 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
95351114 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
95351158 CACAATTATC
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:95351093 original size:22 final size:22
Alignment explanation
Indices: 95351066--95351141 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
95351056 GCTCACATTC
95351066 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
95351088 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
95351112 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
95351135 ATCACAT
1 ATCACAT
95351142 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:95359505 original size:177 final size:177
Alignment explanation
Indices: 95359209--95359999 Score: 999
Period size: 177 Copynumber: 4.5 Consensus size: 177
95359199 AGAAGCAGTA
* *
95359209 GTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * *
95359274 TAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTCCTGATGTA
66 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
** ** * *
95359339 GTAAGGAAGTAGACTAAAGATTGAAGATCTTATTTCCCTAAGTAGTT
131 ACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
* * * * *
95359386 GTGGAGTAGATCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGGGCAGGTTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * * *
95359451 TAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCCTGAGGTA
66 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
* * * * *
95359516 ATAAGGAAACAAACTGAAGATTGAAGATCTTAGCTCCCTAAGCAGTA
131 ACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
** * * * * * *
95359563 GTAAAGCAGATCGAAGGA-GGTGGATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAATCCT
1 GTGGAGCAGATCGAA-GATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA
* ** *
95359627 CCAGGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGATG
65 CCA-GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGG
95359692 TAACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
129 TAACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
*
95359741 GTGGAGCAGATCGAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
** * * * *
95359806 CAGATTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTGGTCTTATCTTCATGAGGTA
66 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
* * * * * *
95359871 GCAAAGAAGCAGACTGAAGATTAAAGATCCTATTTCCCTAAGTAGTT
131 ACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
* * * * * * * * *
95359918 TTGGAGCAAATCGAAGACGGTGAATCTTATCTCCATGTATTGGCCATCGAGTAGATTTAAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
*
95359983 CAGCCTTATCTCCCTGA
66 CAGCCTTATCTCTCTGA
95360000 AGTTGCAGTG
Statistics
Matches: 527, Mismatches: 84, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
177 373 0.71
178 154 0.29
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (177 bp):
GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTA
ACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
Found at i:95359855 original size:355 final size:354
Alignment explanation
Indices: 95359231--95359999 Score: 1099
Period size: 355 Copynumber: 2.2 Consensus size: 354
95359221 GAAGATGGCA
* *
95359231 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAG
** **
95359296 CAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTCCTGATGTAGTAAGGAAGTAGACTAAAGATT
66 CAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTCCTGATGTAACAAGGAAACAGACTAAAGATT
* *
95359361 GAAGATCTTATTTCCCTAAGTAGTTGTGGAGTAGATCAAAGATGGCGAATCTTATTTCCATGTAT
131 GAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATTTCCATGTAT
* * * *
95359426 CGGCAATGGGGCAGGTTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAA
196 CGGCAATGGAGCAGATTTTAGCCACCAGACTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAA
* * * * *
95359491 ATGGTGGTCTTATCTTCCTGAGGTAATAAGGAAACAAACTGAAGATTGAAGATCTTAGCTCCCTA
261 ATGGTGGTCTTATCTTCATGAGGTAACAAAGAAACAAACTGAAGATTAAAGATCCTAGCTCCCTA
*
95359556 AGCAGTAGTAAAGCAGATCGAAGGA-GGTG
326 AGCAGTAGTAAAGCAAATCGAA-GACGGTG
* * * * *
95359585 GATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAATCCTCCAGGCCTTATCTTTCTGAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCA-GCCTTATCTCTCTGAGGTA
* * *
95359650 GCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGATGTAACAAGGAAACAGACTGAAGAT
65 GCAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTCCTGATGTAACAAGGAAACAGACTAAAGAT
*
95359715 TGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCGAAGATGGCGAATCTTATTTCCATGTA
130 TGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATTTCCATGTA
* *
95359780 TCGGCAATGGAGCAGATTTTAGCCACCAGATTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAA
195 TCGGCAATGGAGCAGATTTTAGCCACCAGACTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAA
* * * * * **
95359845 GATTGTGGTCTTATCTTCATGAGGTAGCAAAGAAGCAGACTGAAGATTAAAGATCCTATTTCCCT
260 AATGGTGGTCTTATCTTCATGAGGTAACAAAGAAACAAACTGAAGATTAAAGATCCTAGCTCCCT
* ** **
95359910 AAGTAGTTTTGGAGCAAATCGAAGACGGTG
325 AAGCAGTAGTAAAGCAAATCGAAGACGGTG
* * * * *
95359940 AATCTTATCTCCATGTATTGGCCATCGAGTAGATTTAAGCCACCAGCCTTATCTCCCTGA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGA
95360000 AGTTGCAGTG
Statistics
Matches: 362, Mismatches: 51, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
354 54 0.15
355 308 0.85
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (354 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTGACGATCGTAGTCTTATCTTCCTGATGTAACAAGGAAACAGACTAAAGATT
GAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATTTCCATGTAT
CGGCAATGGAGCAGATTTTAGCCACCAGACTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAA
ATGGTGGTCTTATCTTCATGAGGTAACAAAGAAACAAACTGAAGATTAAAGATCCTAGCTCCCTA
AGCAGTAGTAAAGCAAATCGAAGACGGTG
Found at i:95360061 original size:177 final size:177
Alignment explanation
Indices: 95359209--95360169 Score: 625
Period size: 177 Copynumber: 5.5 Consensus size: 177
95359199 AGAAGCAGTA
* * * * * *
95359209 GTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCAC
* * * * * * * * *
95359274 TAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGACGAT-C-GTAGTCTTATCTTCCTGATG
66 CAGACTTATCTCCCTGAAGTAGCAAGAGAGCAGGTTCAAGATACAG--GCCTTATCTTCATGAAG
* * * * * * *
95359337 TAGTAAGGAAGTAGACTAAAGATTGAAGATCTTATTTCCCTAAGTAGTT
129 TAGCAAAGAAGCAGACTGAAGATTAAAGATCCTATCTCCCTAAGTAGTT
* * * * * * * * *
95359386 GTGGAGTAGATCAAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGGGCAGGTTTTAGCCAC
1 GTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCAC
* * * * * * * *** * * *
95359451 TAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGGTGGTCTTATCTTCCTGAGGTA
66 CAGACTTATCTCCCTGAAGTAGCAAGAGAGCAGGTTCAAGATACAGGCCTTATCTTCATGAAGTA
** * * * * * * * *
95359516 ATAAGGAAACAAACTGAAGATTGAAGATCTTAGCTCCCTAAGCAGTA
131 GCAAAGAAGCAGACTGAAGATTAAAGATCCTATCTCCCTAAGTAGTT
** * * * * * * *
95359563 GTAAAGCAGATCGAAGGA-GGTGGATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAATCCT
1 GTGGAGCAAATCGAA-GACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCA
* ** * *** ** * * *
95359627 CCAGGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTA-GTCTTATCTTCCTGAT
65 CCA-GACTTATCTCCCTGAAGTAGCAAGAGAGCAGGTTCAAGA-TACAGGCCTTATCTTCATGAA
* * * * *
95359691 GTAACAAGGAAACAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTT
128 GTAGCAAAGAAGCAGACTGAAGATTAAAGATCCTATCTCCCTAAGTAGTT
* * * * *
95359741 GTGGAGCAGATCGAAGATGGCGAATCTTATTTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCAC
* ** * * * *** * *
95359806 CAGATTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTGGTCTTATCTTCATGAGGTA
66 CAGACTTATCTCCCTGAAGTAGCAAGAGAGCAGGTTCAAGATACAGGCCTTATCTTCATGAAGTA
*
95359871 GCAAAGAAGCAGACTGAAGATTAAAGATCCTATTTCCCTAAGTAGTT
131 GCAAAGAAGCAGACTGAAGATTAAAGATCCTATCTCCCTAAGTAGTT
* * * * *
95359918 TTGGAGCAAATCGAAGACGGTGAATCTTATCTCCATGTATTGGCCATCGAGTAGATTTAAGCCAC
1 GTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCAC
* * * * *
95359983 CAGCCTTATCTCCCTGAAGTTGC-AGTGGAGCAGGTTCAAGATACAGGCCTTATTTTCCTGAAGT
66 CAGACTTATCTCCCTGAAGTAGCAAG-AGAGCAGGTTCAAGATACAGGCCTTATCTTCATGAAGT
*** ** * * * *
95360047 TTTAGTGGAGCAGACTGAAAATTATAGAT-CT-TAT-CC--AGTA---
130 AGCAAAGAAGCAGACTGAAGATTAAAGATCCTATCTCCCTAAGTAGTT
* * * * * * * * *
95360087 GTGGAACAGATCAAAGATGCCAAATCTTATCTCCATGTATCGGCAATAGAGTAGATTTTAGCCAC
1 GTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCAC
* * *
95360152 CAAACTTGTTTCCCTGAA
66 CAGACTTATCTCCCTGAA
95360170 ATTACAGTGG
Statistics
Matches: 654, Mismatches: 122, Indels: 24
0.82 0.15 0.03
Matches are distributed among these distances:
169 67 0.10
172 4 0.01
174 2 0.00
175 2 0.00
176 5 0.01
177 420 0.64
178 151 0.23
179 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (177 bp):
GTGGAGCAAATCGAAGACGGCGAATCTTATCTCCATGTATCGGCAATCGAGCAGATTTAAGCCAC
CAGACTTATCTCCCTGAAGTAGCAAGAGAGCAGGTTCAAGATACAGGCCTTATCTTCATGAAGTA
GCAAAGAAGCAGACTGAAGATTAAAGATCCTATCTCCCTAAGTAGTT
Found at i:95378376 original size:39 final size:40
Alignment explanation
Indices: 95378205--95378376 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
95378195 ATAACCAGGT
* * *
95378205 TAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
*
95378245 TAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* *
95378285 TAAGTCTCGAAGGCATTTGTGCAAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
*
95378325 TAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGC
*
95378364 TAAATCCCGAAGG
1 TAAGTCCCGAAGG
95378377 TACTTGGTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 17 0.14
40 101 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
Found at i:95386213 original size:40 final size:40
Alignment explanation
Indices: 95386155--95386372 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
95386145 CGGATGATAA
* *
95386155 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
95386195 CCTGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
95386235 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
95386275 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
95386315 CCGGGGTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
95386355 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
95386373 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:95390147 original size:23 final size:24
Alignment explanation
Indices: 95390101--95390147 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
95390091 CAGTGATCAC
*
95390101 ACGCCCGTGTAAACAGGTCATGTG
1 ACGCCCGTGTAAACAGGCCATGTG
* *
95390125 ACGCCCGTGT-CACAGGCCGTGTG
1 ACGCCCGTGTAAACAGGCCATGTG
95390148 GAAACAGGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (24 bp):
ACGCCCGTGTAAACAGGCCATGTG
Found at i:95394336 original size:16 final size:16
Alignment explanation
Indices: 95394315--95394366 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
95394305 GTAACGCCCT
95394315 AAAAATCTCGAAACCC
1 AAAAATCTCGAAACCC
*
95394331 AAAAATCCCGAAACCC
1 AAAAATCTCGAAACCC
*
95394347 AAAAATCTTGAAATCCC
1 AAAAATCTCGAAA-CCC
95394364 AAA
1 AAA
95394367 CTATCTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 26 0.81
17 6 0.19
ACGTcount: A:0.52, C:0.29, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAATCTCGAAACCC
Found at i:95395931 original size:29 final size:29
Alignment explanation
Indices: 95395898--95395999 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
95395888 TGAATATGAC
*
95395898 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
95395927 TGGGCCTAATGGGACATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
95395956 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
95395984 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
95396000 GATACAGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 16 0.25
29 47 0.75
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:95395970 original size:58 final size:57
Alignment explanation
Indices: 95395898--95396008 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
95395888 TGAATATGAC
* *
95395898 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGACATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGACAGATACAGGTGATT
* * * *
95395956 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGACAGATACAGGT
95396009 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGACAGATACAGGTGATT
Found at i:95397421 original size:5 final size:5
Alignment explanation
Indices: 95397381--95397405 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
95397371 ATATTTTTAA
95397381 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
95397406 ATTCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:95397571 original size:26 final size:26
Alignment explanation
Indices: 95397538--95397594 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
95397528 GTTAATTCAA
95397538 TAATTTTAATACTTTAGAATCATAAT
1 TAATTTTAATACTTTAGAATCATAAT
95397564 TAATTTTAATACTTTAGAATCATAAT
1 TAATTTTAATACTTTAGAATCATAAT
95397590 TAATT
1 TAATT
95397595 GTATTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (26 bp):
TAATTTTAATACTTTAGAATCATAAT
Found at i:95416393 original size:40 final size:40
Alignment explanation
Indices: 95416334--95416478 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
95416324 CTCGCACAAG
* * * * *
95416334 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
95416374 GCCTTTGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
95416414 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
95416455 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
95416479 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:95419144 original size:27 final size:27
Alignment explanation
Indices: 95419107--95419235 Score: 156
Period size: 27 Copynumber: 4.8 Consensus size: 27
95419097 CACCAGATAC
95419107 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
95419133 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
95419160 ATA-ATTGTGGCATAGCCACCAGGACAG
1 ATATA-TGTGGCAGAGCCACCAGAACAG
* *
95419187 ATATATGTGGTAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
95419214 ATA-ATTGTAGCATAGCCACCAG
1 ATATA-TGTGGCAGAGCCACCAG
95419236 GACGCTTCCT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.07
27 81 0.92
28 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:95419236 original size:54 final size:54
Alignment explanation
Indices: 95419097--95419238 Score: 225
Period size: 54 Copynumber: 2.7 Consensus size: 54
95419087 GTGACGAAGT
* * *
95419097 CACCAGAT-ACAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
95419149 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
95419203 CACCAGATCAGATAATTGTAGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
95419239 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 8 0.10
53 3 0.04
54 72 0.87
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:95423311 original size:17 final size:17
Alignment explanation
Indices: 95423280--95423312 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95423270 GTATTGATTT
95423280 TGACATTCTTATGTCAA
1 TGACATTCTTATGTCAA
95423297 TGACAATTCTT-TGTCA
1 TGAC-ATTCTTATGTCA
95423313 TCAATCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (17 bp):
TGACATTCTTATGTCAA
Found at i:95427830 original size:22 final size:22
Alignment explanation
Indices: 95427752--95427835 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 22
95427742 TCGAGCTATG
**
95427752 AACAGTAAGCTCCTCCTGAGCTA
1 AACAGTAAGCT-CTAATGAGCTA
*
95427775 ATTGACAGTAAGCTCTATTGAGCTGA
1 A---ACAGTAAGCTCTAATGAGCT-A
*
95427801 AACGGTAAGCTCTAATGAGCTA
1 AACAGTAAGCTCTAATGAGCTA
95427823 AACAGTAAGCTCT
1 AACAGTAAGCTCT
95427836 TGTGAGTTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
22 13 0.25
23 19 0.37
25 8 0.15
26 12 0.23
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (22 bp):
AACAGTAAGCTCTAATGAGCTA
Found at i:95427841 original size:22 final size:21
Alignment explanation
Indices: 95427736--95427841 Score: 77
Period size: 23 Copynumber: 4.5 Consensus size: 21
95427726 ATCATTTACT
95427736 GCTCTTTCGAGCTATGAACAGTAA
1 GCTCTTT-GAGCTA--AACAGTAA
*
95427760 GCTCCTCCTGAGCTAATTGACAGTAA
1 GCT-CT-TTGAGCTAA---ACAGTAA
*
95427786 GCTCTATTGAGCTGAAACGGTAA
1 GCTCT-TTGAGCT-AAACAGTAA
*
95427809 GCTCTAATGAGCTAAACAGTAA
1 GCTCT-TTGAGCTAAACAGTAA
95427831 GCTCTTGTGAG
1 GCTCTT-TGAG
95427842 TTGATATAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
22 17 0.25
23 19 0.28
24 3 0.04
25 16 0.24
26 13 0.19
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (21 bp):
GCTCTTTGAGCTAAACAGTAA
Found at i:95429216 original size:43 final size:42
Alignment explanation
Indices: 95429125--95429239 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
95429115 AGTACCATAC
* * * * * *
95429125 CAATGCTATATCCCAGATATGGTCTTACATGAAATCTCGTTT
1 CAATGCCATAGCCAAGATATGGTCTTACATCAAATCTCATGT
* *
95429167 CGATGCCAATAGCCAAGCTATGGTCTTACA-CAAAGTCTCATGT
1 CAATGCC-ATAGCCAAGATATGGTCTTACATCAAA-TCTCATGT
* *
95429210 CAATGCCATATCCCAGATATGGTCTTACAT
1 CAATGCCATAGCCAAGATATGGTCTTACAT
95429240 GTAATCTTAG
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
CAATGCCATAGCCAAGATATGGTCTTACATCAAATCTCATGT
Found at i:95443747 original size:40 final size:40
Alignment explanation
Indices: 95443640--95443842 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
95443630 CGGATGATAA
* * *
95443640 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
*
95443680 CCGGGCTAA-ACCCGAAGGCAATT-GTGCGAGTTA-TAATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACT-ATAT
*
95443719 CAGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
95443759 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
95443799 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
95443839 CCGG
1 CCGG
95443843 TTAAATTTCG
Statistics
Matches: 142, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 108 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:95451862 original size:40 final size:40
Alignment explanation
Indices: 95451755--95451957 Score: 279
Period size: 40 Copynumber: 5.1 Consensus size: 40
95451745 CGGATGATAA
* * *
95451755 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
*
95451795 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
95451834 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
95451874 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
95451914 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
95451954 CCGG
1 CCGG
95451958 TTAAATTTCG
Statistics
Matches: 148, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
39 35 0.24
40 113 0.76
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:95462852 original size:50 final size:49
Alignment explanation
Indices: 95462640--95462863 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 49
95462630 CCACATTATG
* * ** *
95462640 AGAGCTAGTGTAAAACCATGTTTGGGACATGGCATTGGCATTGAGA--TA
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CGAGATGTA
*
95462688 AGAGCTAATGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGATGT-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CGAGATGTA
* * *
95462735 A-AGCCAGTGTAA-AACATGTCTGGGACAT-GCATC-G-AC--TATG-A
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAGATGTA
* * * * * * *
95462776 AAAGTGTCAGTGTAAGACTATCTCTGGGACATGGCATCAGTACGGATATGTG
1 AGAG-CT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GAGATGTA
*
95462828 AGAGCTAGTGTAAGACCATGTCTGGGACATGACATC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
95462864 GGCCTCAATT
Statistics
Matches: 141, Mismatches: 20, Indels: 28
0.75 0.11 0.15
Matches are distributed among these distances:
41 4 0.03
42 2 0.01
43 1 0.01
44 8 0.06
45 15 0.11
46 45 0.32
47 15 0.11
48 16 0.11
50 27 0.19
51 5 0.04
52 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (49 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAGATGTA
Found at i:95465590 original size:50 final size:50
Alignment explanation
Indices: 95465466--95465707 Score: 274
Period size: 50 Copynumber: 4.8 Consensus size: 50
95465456 AGCCGAAGCT
* * * * *
95465466 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
95465515 ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
95465565 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * *
95465616 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
95465665 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
95465708 TACTCACAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 41 0.25
50 81 0.50
51 40 0.25
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:95467122 original size:37 final size:37
Alignment explanation
Indices: 95467022--95467123 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
95467012 TATACTACCC
*
95467022 GAATTTGGCGTGTTATT-GGATGGATTAGCTCTTACGA
1 GAATTTGGCGTGTT-TTCGGTTGGATTAGCTCTTACGA
* ** * * *
95467059 GCATTTGGTATGTTATCGATTGGATTAGCTCTTATGA
1 GAATTTGGCGTGTTTTCGGTTGGATTAGCTCTTACGA
*
95467096 GAATTTGGCGTGTTTTCGGTTAGATTAG
1 GAATTTGGCGTGTTTTCGGTTGGATTAG
95467124 TTCTATACTT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
36 1 0.02
37 50 0.98
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (37 bp):
GAATTTGGCGTGTTTTCGGTTGGATTAGCTCTTACGA
Found at i:95469526 original size:30 final size:30
Alignment explanation
Indices: 95469492--95469551 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
95469482 ATTGTGAAGA
95469492 ACAAATATCCATTGCCAAGGATTGATGATT
1 ACAAATATCCATTGCCAAGGATTGATGATT
95469522 ACAAATATCCATTGCCAAGGATTGATGATT
1 ACAAATATCCATTGCCAAGGATTGATGATT
95469552 TGTTCAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (30 bp):
ACAAATATCCATTGCCAAGGATTGATGATT
Found at i:95473402 original size:46 final size:46
Alignment explanation
Indices: 95473262--95473425 Score: 197
Period size: 46 Copynumber: 3.5 Consensus size: 46
95473252 TGTGCTACTA
* * *
95473262 TAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCCAGTG
* * * * *
95473308 TAAAACCATGTTTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAGTG
*
95473356 TAAGACATGTCTGGGACATACATCGGCCTCGAGATGTA-AGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGTG
95473402 TAAGACATGTCTGGGACATGCATC
1 TAAGACATGTCTGGGACATGCATC
95473426 ATCTACGAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
46 48 0.48
47 27 0.27
48 23 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCCAGTG
Found at i:95479142 original size:21 final size:21
Alignment explanation
Indices: 95479118--95479165 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
95479108 ATGTTTAAGT
95479118 TCCACACGGGCGCGTTGCCCA
1 TCCACACGGGCGCGTTGCCCA
95479139 TCCACACGGGCGCGTTGCCCA
1 TCCACACGGGCGCGTTGCCCA
95479160 TCCACA
1 TCCACA
95479166 TAGGCGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.44, G:0.25, T:0.15
Consensus pattern (21 bp):
TCCACACGGGCGCGTTGCCCA
Found at i:95479171 original size:21 final size:21
Alignment explanation
Indices: 95479118--95479171 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
95479108 ATGTTTAAGT
*
95479118 TCCACACGGGCGCGTTGCCCA
1 TCCACACAGGCGCGTTGCCCA
*
95479139 TCCACACGGGCGCGTTGCCCA
1 TCCACACAGGCGCGTTGCCCA
*
95479160 TCCACATAGGCG
1 TCCACACAGGCG
95479172 TGTGCCCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.41, G:0.28, T:0.15
Consensus pattern (21 bp):
TCCACACAGGCGCGTTGCCCA
Found at i:95481922 original size:47 final size:49
Alignment explanation
Indices: 95481853--95481977 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 49
95481843 GAACTTTACC
*
95481853 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCATAAGCG
* * * *
95481900 AACTCGGACTTAACTCAACGAGTTCGGA---CATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATAAGCG
95481946 AACTCGGACTCAACTCAACGAGTTCGGATGCC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC
95481978 CAAATATCCC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.42
47 27 0.41
49 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (49 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATAAGCG
Found at i:95481992 original size:46 final size:46
Alignment explanation
Indices: 95481853--95481992 Score: 119
Period size: 46 Copynumber: 3.0 Consensus size: 46
95481843 GAACTTTACC
* * * *
95481853 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCCAGTG
* * *
95481900 AACTCGGACTTAACTCAACGAGTTCGGA----CATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--CAGTG
*
95481946 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCCAGTG
95481992 A
1 A
95481993 CATGTCACTT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 33 0.45
47 27 0.37
48 4 0.05
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCCAGTG
Found at i:95484623 original size:21 final size:21
Alignment explanation
Indices: 95484597--95484640 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
95484587 TTCACTAACT
95484597 AAATCTTTGTATTACCCATTG
1 AAATCTTTGTATTACCCATTG
95484618 AAATCTTTGTATTACCCATTG
1 AAATCTTTGTATTACCCATTG
95484639 AA
1 AA
95484641 CGCTCGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
AAATCTTTGTATTACCCATTG
Found at i:95486010 original size:61 final size:61
Alignment explanation
Indices: 95485918--95486034 Score: 207
Period size: 61 Copynumber: 1.9 Consensus size: 61
95485908 TTTAAAAACC
*
95485918 CCCCAAATTAAAGTTCATAGCAATTTAACACCTTTAGCTAACAATTCAAGACTTTTTTAAA
1 CCCCAAATTAAAGTTCATAACAATTTAACACCTTTAGCTAACAATTCAAGACTTTTTTAAA
* *
95485979 CCCCAAATTAAAGTTCATAACAATTTAACACCTTTATCTAACAATTTAAGACTTTT
1 CCCCAAATTAAAGTTCATAACAATTTAACACCTTTAGCTAACAATTCAAGACTTTT
95486035 GTACTTTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (61 bp):
CCCCAAATTAAAGTTCATAACAATTTAACACCTTTAGCTAACAATTCAAGACTTTTTTAAA
Found at i:95493030 original size:26 final size:26
Alignment explanation
Indices: 95492992--95493041 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
95492982 TCTCATCCTT
95492992 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* *
95493018 ATTTTACCTCTAGTAAATTTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
95493042 GAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:95495272 original size:37 final size:37
Alignment explanation
Indices: 95495219--95495321 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
95495209 CGAATAGTCC
*
95495219 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
**
95495256 CCACACGTAGTCATCGGGTCTTACCCGGACATGATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
95495293 CCACACGTAGTCATTGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
95495322 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:95495520 original size:48 final size:48
Alignment explanation
Indices: 95495462--95496221 Score: 1367
Period size: 48 Copynumber: 15.8 Consensus size: 48
95495452 ATATACACAC
* *
95495462 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
95495510 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
95495558 ATCTCATATATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95495606 ATCTCATACATATTTCACATTAGCCAGTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95495654 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
95495702 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
95495750 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95495798 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95495846 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95495894 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
95495942 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95495990 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95496038 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
95496086 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
95496134 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
95496182 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
95496222 GCACATATAT
Statistics
Matches: 683, Mismatches: 29, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 683 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:95502750 original size:15 final size:15
Alignment explanation
Indices: 95502730--95502760 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
95502720 GAATTTAATG
95502730 AGACGGCAAGACTAA
1 AGACGGCAAGACTAA
95502745 AGACGGCAAGACTAA
1 AGACGGCAAGACTAA
95502760 A
1 A
95502761 TGCTCCAACA
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:0.48, C:0.19, G:0.26, T:0.06
Consensus pattern (15 bp):
AGACGGCAAGACTAA
Found at i:95504038 original size:2 final size:2
Alignment explanation
Indices: 95504033--95504058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95504023 TAAAACACAC
95504033 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
95504059 TATTATACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95510423 original size:68 final size:66
Alignment explanation
Indices: 95510351--95510522 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
95510341 CATCATGTGT
* * * *
95510351 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
95510414 TGTAG
62 TGTAG
** * *
95510419 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
95510484 AG
65 AG
* * * *
95510486 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
95510523 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:95510456 original size:64 final size:64
Alignment explanation
Indices: 95510375--95510557 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
95510365 AGACATTATG
* * *
95510375 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
95510439 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
95510504 AA
63 AA
* * *
95510506 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGT-TACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
95510558 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 17 0.17
63 1 0.01
64 25 0.26
66 21 0.21
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:95513747 original size:44 final size:45
Alignment explanation
Indices: 95513675--95513859 Score: 207
Period size: 44 Copynumber: 4.2 Consensus size: 45
95513665 GCTAATGTAC
* * * * *
95513675 TCCAATGTATATAATTTATAT-TACAAAGTTTGATCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
* * * * *
95513719 TCCAATGAAACTAATTGAAATGCA-AAAGTTTGTTTCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
* *
95513763 TCTAATTAATCTAATTTAAA-GTACAAAGTTGGTTCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
* *
95513807 TACAATGAATCTAATTTAAAT-TACAAAGTTGGTTCCAAGTTTGG
1 TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
*
95513851 TGCAATGAA
1 TCCAATGAA
95513860 CACAACTTGT
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.02
44 115 0.97
45 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (45 bp):
TCCAATGAATCTAATTTAAATGTACAAAGTTGGTTCCAAGTTTGT
Found at i:95515133 original size:40 final size:40
Alignment explanation
Indices: 95515101--95515491 Score: 604
Period size: 40 Copynumber: 9.8 Consensus size: 40
95515091 CCAGCATGAT
* * *
95515101 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
95515141 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
95515181 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
95515220 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
95515260 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
95515300 TGCTCTTCGGGACTTAGCCCGAATATATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
95515340 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
95515380 TGATCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
95515420 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
95515460 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
95515492 CTCAATTCTC
Statistics
Matches: 320, Mismatches: 30, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
39 38 0.12
40 282 0.88
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:95516750 original size:37 final size:37
Alignment explanation
Indices: 95516700--95516778 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
95516690 TTATTACGAA
* * *
95516700 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
95516737 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
95516774 GTCTT
1 GTCTT
95516779 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:95516974 original size:47 final size:47
Alignment explanation
Indices: 95516896--95517167 Score: 420
Period size: 47 Copynumber: 5.7 Consensus size: 47
95516886 CCCTTCGGGA
* * * * * *
95516896 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
95516943 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
95516990 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
95517037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
95517084 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
95517133 CTTATCACATATAAACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
95517168 AGAACCCTAA
Statistics
Matches: 210, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 162 0.77
49 47 0.22
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:95520979 original size:47 final size:47
Alignment explanation
Indices: 95520925--95521303 Score: 535
Period size: 47 Copynumber: 8.1 Consensus size: 47
95520915 TTAGGATTTT
** * * *
95520925 ATGTGATGAATGTGAATGTGTATATATGAGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
95520972 ATGTGATGAATGTGAACATGAATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
95521019 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
95521066 ATATGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
95521113 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
95521160 ATGTGATGAATGTGAATATGCATATATGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
95521207 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
95521254 ATGTGATGAACGCAGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATG-TGAACATGCATATATGTGATAAGGCCGAATGGCCA
95521301 ATG
1 ATG
95521304 CGAAATGTGT
Statistics
Matches: 300, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 297 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:95521166 original size:22 final size:22
Alignment explanation
Indices: 95521139--95521213 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
95521129 CATGCATATG
95521139 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * *
95521161 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
*
95521186 TGTGGTAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
95521208 TGTGAT
1 TGTGAT
95521214 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:95521188 original size:25 final size:25
Alignment explanation
Indices: 95521160--95521238 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
95521150 CGAATGGCCA
95521160 ATGTGATGAATGTGAATATGCATAT
1 ATGTGATGAATGTGAATATGCATAT
* * * * *
95521185 ATGTGGT-AAGGCCGAAT-GGC-CA-
1 ATGTGATGAATG-TGAATATGCATAT
*
95521207 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAATATGCATAT
95521232 ATGTGAT
1 ATGTGAT
95521239 AAGGCAGAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 9 0.24
23 6 0.16
24 6 0.16
25 17 0.45
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAATATGCATAT
Found at i:95521330 original size:46 final size:46
Alignment explanation
Indices: 95521277--95521367 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
95521267 AGAAGTGTAT
* **
95521277 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
* *
95521323 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATACGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATG
95521368 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATACGTATGAGATGG
Found at i:95521374 original size:141 final size:139
Alignment explanation
Indices: 95520925--95521352 Score: 448
Period size: 141 Copynumber: 3.0 Consensus size: 139
95520915 TTAGGATTTT
* ** * * * * * * *
95520925 ATGTGATGAATGTGAATGTGTATATATGAGGTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTAATGAACGAGAACA
* * * * * * * *
95520990 TGAATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGG
66 TGCATATATGTGATAAAGCCGAATGGCCAATGCGA-GAATGTG-ATATGCATATATGTGGTAAAG
*
95521055 CCGAATGGCCA
129 CCAAATGGCCA
* * *
95521066 ATATGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTAATGAATGTGAACA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTAATGAACGAGAACA
* * * *
95521131 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCATATATGTGGTAAGG
66 TGCATATATGTGATAAAGCCGAATGGCCAATGCGA-GAATGTG-ATATGCATATATGTGGTAAAG
*
95521196 CCGAATGGCCA
129 CCAAATGGCCA
* *
95521207 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGCAGAA-
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTAATGAACG-AGAAC
* * * * *
95521271 GTGTATATATGTGGTAAAGCCGAATGGCTAATGCGA-AATGTG-TATGAGATGGATATGTGGTAA
65 ATGCATATATGTGATAAAGCCGAATGGCCAATGCGAGAATGTGATATG-CAT--ATATGTGGTAA
*
95521334 AGCCAAATGGCTA
127 AGCCAAATGGCCA
95521347 ATGTGA
1 ATGTGA
95521353 GATACGTATG
Statistics
Matches: 254, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
137 4 0.02
138 2 0.01
139 6 0.02
140 27 0.11
141 212 0.83
142 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (139 bp):
ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTAATGAACGAGAACA
TGCATATATGTGATAAAGCCGAATGGCCAATGCGAGAATGTGATATGCATATATGTGGTAAAGCC
AAATGGCCA
Found at i:95524388 original size:19 final size:19
Alignment explanation
Indices: 95524364--95524407 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
95524354 CATTATTTTG
*
95524364 AAATAA-AAAAAAATTAGTA
1 AAATAAGAAAAAAATGA-TA
*
95524383 AAATAAGAAAAAGATGATA
1 AAATAAGAAAAAAATGATA
95524402 AAATAA
1 AAATAA
95524408 TGGGTGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (19 bp):
AAATAAGAAAAAAATGATA
Found at i:95530305 original size:150 final size:149
Alignment explanation
Indices: 95530010--95530287 Score: 346
Period size: 150 Copynumber: 1.9 Consensus size: 149
95530000 TCACCTTGCA
* *
95530010 CCACTACTCTTCGCCAACTTTCACCTTTGCATCACCACAATTAATCATTCTTTATTTTCTCCTTT
1 CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
* * ** * *
95530075 CCCTTTTCCTATTCTTTTCATTTTTTTCATTTCTTTTTTATTAAAAAAATTATCATCCCTCTTCA
66 CCCTGTTCATATTCTTTT-ATCCTCTTCATTTCTTTTTGATTAAAAAAATTATCATCCCTCTTCA
95530140 ATGCTTGTCAATTCATTATG
130 ATGCTTGTCAATTCATTATG
* ** * *
95530160 CCACTACTCTTCTCCAACTTTCAACTTTGCATCACCACTCTTAACCGTTCTTTCTTTTCTCCTTT
1 CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
* * * *
95530225 TCCTGTT-ATTTTCAATTTT-TCCTCTTCTTTTC-TTTTGATTAAAACAAATTGTCATCCCTCTT
66 CCCTGTTCATATTC--TTTTATCCTCTTCATTTCTTTTTGATTAAAA-AAATTATCATCCCTCTT
95530287 C
128 C
95530288 TGTTCTTTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
148 11 0.10
149 30 0.28
150 63 0.58
151 4 0.04
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (149 bp):
CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
CCCTGTTCATATTCTTTTATCCTCTTCATTTCTTTTTGATTAAAAAAATTATCATCCCTCTTCAA
TGCTTGTCAATTCATTATG
Found at i:95534416 original size:45 final size:45
Alignment explanation
Indices: 95534349--95534470 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
95534339 CGCACAGTAT
* *
95534349 TATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGATGAGAT-A
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
*
95534393 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 -TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
* *
95534439 TA-TCGGG-CTTTGAGCCTAGAAGGCGA-AATGCC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
95534471 ATTGAATGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
42 6 0.08
43 17 0.24
44 5 0.07
45 42 0.59
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
Found at i:95535036 original size:16 final size:18
Alignment explanation
Indices: 95535005--95535037 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
95534995 AACTCGTCAC
95535005 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
95535023 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
95535038 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:95536816 original size:17 final size:17
Alignment explanation
Indices: 95536786--95536832 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
95536776 AAAAATGATT
* *
95536786 TATTTATTTCTTTTTTC
1 TATTTTTTTATTTTTTC
95536803 TATTTTTTTA-TTTTTC
1 TATTTTTTTATTTTTTC
95536819 T-TTCTTTTTATTTT
1 TATT-TTTTTATTTT
95536833 CTACTCGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 13 0.50
17 11 0.42
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TATTTTTTTATTTTTTC
Found at i:95536834 original size:15 final size:16
Alignment explanation
Indices: 95536797--95536832 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
95536787 ATTTATTTCT
95536797 TTTTTCTATTTTTTTA
1 TTTTTCTATTTTTTTA
95536813 TTTTTCT-TTCTTTTTA
1 TTTTTCTATT-TTTTTA
95536829 TTTT
1 TTTT
95536833 CTACTCGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTATTTTTTTA
Found at i:95536917 original size:17 final size:17
Alignment explanation
Indices: 95536897--95536935 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
95536887 CTTCACAAAG
*
95536897 TTTTTCTTCACTTGATT
1 TTTTTCTTCACTCGATT
95536914 TTTTTCTTCACTCGATT
1 TTTTTCTTCACTCGATT
*
95536931 ATTTT
1 TTTTT
95536936 GACAGTGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.18, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTTCTTCACTCGATT
Found at i:95538670 original size:3 final size:3
Alignment explanation
Indices: 95538662--95538695 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
95538652 AATAAACACA
95538662 AAT AAT AAT AAT AAT AAT AAT AAT AAT AACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
95538696 TATGTAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:95543818 original size:21 final size:21
Alignment explanation
Indices: 95543792--95543838 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
95543782 ACGTGTACTG
95543792 TACTGGCAGCTCTACTGCAAT
1 TACTGGCAGCTCTACTGCAAT
* *
95543813 TACTGGCAGCTGTGCTGCAAT
1 TACTGGCAGCTCTACTGCAAT
95543834 TACTG
1 TACTG
95543839 AATAGTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
TACTGGCAGCTCTACTGCAAT
Found at i:95544038 original size:34 final size:34
Alignment explanation
Indices: 95543971--95544039 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
95543961 GCATTTGTTT
* *
95543971 CTGTTACTGTAATGGGCTAAGGCCCGCATTGATA
1 CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
* *
95544005 CTGTTATTGTAATGGGCTAAGGCCCATACTGATA
1 CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
95544039 C
1 C
95544040 AGGACTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (34 bp):
CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
Found at i:95547038 original size:13 final size:13
Alignment explanation
Indices: 95547020--95547046 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95547010 GCTCGGTAAG
95547020 GACACGCCCGTGT
1 GACACGCCCGTGT
95547033 GACACGCCCGTGT
1 GACACGCCCGTGT
95547046 G
1 G
95547047 CGATTACCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:95557419 original size:68 final size:64
Alignment explanation
Indices: 95557354--95557561 Score: 199
Period size: 67 Copynumber: 3.2 Consensus size: 64
95557344 CATCATGTGT
*
95557354 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
95557419 TAG
62 TAG
* * * * *
95557422 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATG
95557486 TAG
62 TAG
* * * * *
95557489 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG
95557551 TACAAGAGAGC
1 -ACAAGAGAGC
95557562 CGAACTCTAT
Statistics
Matches: 118, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 24 0.20
65 7 0.06
66 21 0.18
67 33 0.28
68 13 0.11
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:95561306 original size:32 final size:32
Alignment explanation
Indices: 95561224--95561313 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
95561214 GGGTTTGAAA
**
95561224 TTGAAATGGGCTAGGCCCAACTGATATTGGTT
1 TTGAAATGGGCTAGGCCCAACTGATATTAATT
* * * *
95561256 CTGATATGAGCTATGCCCAACTGATATTAATT
1 TTGAAATGGGCTAGGCCCAACTGATATTAATT
* *
95561288 TTGAGATGGGCTAGGCCCAATTGATA
1 TTGAAATGGGCTAGGCCCAACTGATA
95561314 CTGTGATGAG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (32 bp):
TTGAAATGGGCTAGGCCCAACTGATATTAATT
Found at i:95566292 original size:15 final size:15
Alignment explanation
Indices: 95566272--95566301 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95566262 ATTAAGAAAG
95566272 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
95566287 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
95566302 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:95566944 original size:43 final size:43
Alignment explanation
Indices: 95566896--95567050 Score: 224
Period size: 43 Copynumber: 3.6 Consensus size: 43
95566886 TATATGTTCT
95566896 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* *
95566939 TGTGTAAGACCACGTCTGGGACGTTAGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
95566982 CGTGTAGGGCC-CAGTCTGGGATAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTA
*
95567025 CATGTAAGACCACGTCTGGGACGTTG
1 CGTGTAAGACCACGTCTGGGACGTTG
95567051 ACATTGTATG
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 2 0.02
43 93 0.96
44 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:95569299 original size:27 final size:27
Alignment explanation
Indices: 95569240--95569300 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
95569230 AAACATATCA
* ** *
95569240 TAGGGGTATAATAGTCATTTTACCTTT
1 TAGGGGTATAATAGTCATTTCACAATG
95569267 TAGGGGTATAATAGTCATTTCATCAATG
1 TAGGGGTATAATAGTCATTTCA-CAATG
95569295 T-GGGGT
1 TAGGGGT
95569301 CTAAGTGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.39
Consensus pattern (27 bp):
TAGGGGTATAATAGTCATTTCACAATG
Found at i:95580067 original size:40 final size:40
Alignment explanation
Indices: 95580018--95580203 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
95580008 GCTACTTGCT
*
95580018 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
95580058 CGAAA-GCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 C-AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
95580098 CAAATGCCTTTGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
95580138 CAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
95580177 CAAATGCCTTCGGGACTTAGCCCGGTT
1 CAAATGCCTTCGGGACTTAGCCCGGTT
95580204 TCATCCGAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 35 0.27
40 90 0.70
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:95580117 original size:80 final size:79
Alignment explanation
Indices: 95580018--95580203 Score: 259
Period size: 79 Copynumber: 2.3 Consensus size: 79
95580008 GCTACTTGCT
*
95580018 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAACGAA-AGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGAAC-AATAGCCTTCGGG-CTTAGCCCG
* *
95580082 G-TTATAGTAACTCGCA
64 GAAT-TAGTAACTAGCA
* * * *
95580098 CAAATGCCTTTGGGACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGAACAATAGCCTTCGGGCTTAGCCCGGA
*
95580163 ATTAGTCACTAGCA
66 ATTAGTAACTAGCA
95580177 CAAATGCCTTCGGGACTTAGCCCGGTT
1 CAAATGCCTTCGGGACTTAGCCCGGTT
95580204 TCATCCGAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 47 0.50
80 47 0.50
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGAACAATAGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTAGCA
Found at i:95594065 original size:43 final size:43
Alignment explanation
Indices: 95594028--95594186 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
95594018 TATGTGTTCT
*
95594028 CGTGTAAGACCACGCCTGGGACATTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * * *
95594071 CATGTAAGACCACGTCTTGGACGTTGGCCTCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
** * * *
95594114 CGTGTAAGACCGTGTCTGGGAAAATGGCATCGATATGTAATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
* * * * * *
95594157 CATGTCAGACCATGTTTGGAACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
95594187 TGTATGATAT
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:95602728 original size:26 final size:26
Alignment explanation
Indices: 95602698--95602803 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95602688 TGAAATTCCC
95602698 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95602724 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
95602750 ATCATGAAACATTTACCT--CCCATT
1 ATCATGGAACATTTACCTAACCCATT
95602774 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95602800 ATCA
1 ATCA
95602804 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 23 0.30
26 53 0.70
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95602784 original size:50 final size:51
Alignment explanation
Indices: 95602698--95602803 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
95602688 TGAAATTCCC
*
95602698 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCT-ACCCATTATCATGGAACATTTACCTAACCCATT
95602750 ATCATGAAACATTTACCT-CCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTACCCATTATCATGGAACATTTACCTAACCCATT
95602800 ATCA
1 ATCA
95602804 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 36 0.68
52 17 0.32
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (51 bp):
ATCATGAAACATTTACCTACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:95606158 original size:20 final size:20
Alignment explanation
Indices: 95606133--95606184 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
95606123 AGTCATACAC
95606133 TAAAATCAAAT-ACATTAAAA
1 TAAAATCAAATAAC-TTAAAA
*
95606153 TAAAAT-TAATAACTTAAAA
1 TAAAATCAAATAACTTAAAA
95606172 -ATAAATCAAATAA
1 TA-AAATCAAATAA
95606185 AAATAACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 13 0.48
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATCAAATAACTTAAAA
Found at i:95606203 original size:26 final size:27
Alignment explanation
Indices: 95606160--95606210 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
95606150 AAATAAAATT
95606160 AATAACTTAAAAATAAA-TCAAATAAA
1 AATAACTTAAAAATAAATTCAAATAAA
*
95606186 AATAAC-TAAAATTCAAATTCAAATA
1 AATAACTTAAAAAT-AAATTCAAATA
95606211 TATAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 9 0.41
27 7 0.32
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (27 bp):
AATAACTTAAAAATAAATTCAAATAAA
Found at i:95610201 original size:27 final size:27
Alignment explanation
Indices: 95610143--95610201 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
95610133 TTTGGGCTAA
* *
95610143 GCCCAATTGATTCTGTTATGGGCTGTG
1 GCCCAAATGATTCTGTAATGGGCTGTG
* *
95610170 ACCCAAATGATAT-TGTAATGGGCTTTG
1 GCCCAAATGAT-TCTGTAATGGGCTGTG
95610197 GCCCA
1 GCCCA
95610202 CGTATGCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (27 bp):
GCCCAAATGATTCTGTAATGGGCTGTG
Found at i:95614167 original size:27 final size:27
Alignment explanation
Indices: 95614097--95614226 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
95614087 GGTCGTTAAG
*
95614097 ACCCCTAACTTGTAAAACTTACTGAAAT
1 ACCCCTAATTTGTAAAA-TTACTGAAAT
*** *
95614125 ACCACC-GGGTTATAAAATTA-TCGAAAT
1 ACC-CCTAATTTGTAAAATTACT-GAAAT
*
95614152 TCCCCTAATTTGTAAAATTACTGAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
* * *
95614179 ACCCCTGACTTGTAAAATTACTAAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
* *
95614206 ACCCCCATTTTGTAAAATTAC
1 ACCCCTAATTTGTAAAATTAC
95614227 CAAAACACCC
Statistics
Matches: 81, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.04
27 65 0.80
28 11 0.14
29 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
ACCCCTAATTTGTAAAATTACTGAAAT
Found at i:95614195 original size:54 final size:54
Alignment explanation
Indices: 95614097--95614226 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
95614087 GGTCGTTAAG
* ** *
95614097 ACCCCTAACTTGTAAAACTTACTGAAATACCACCGGGTTATAAAATTA-TCGAAAT
1 ACCCCTAATTTGTAAAA-TTACTGAAATACCACCGACTTATAAAATTACT-AAAAT
* *
95614152 TCCCCTAATTTGTAAAATTACTGAAATACC-CCTGACTTGTAAAATTACTAAAAT
1 ACCCCTAATTTGTAAAATTACTGAAATACCACC-GACTTATAAAATTACTAAAAT
* *
95614206 ACCCCCATTTTGTAAAATTAC
1 ACCCCTAATTTGTAAAATTAC
95614227 CAAAACACCC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.03
54 46 0.72
55 16 0.25
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
ACCCCTAATTTGTAAAATTACTGAAATACCACCGACTTATAAAATTACTAAAAT
Found at i:95614231 original size:27 final size:26
Alignment explanation
Indices: 95614159--95614236 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
95614149 AATTCCCCTA
** *
95614159 ATTTGTAAAATTACTGAAATACCCCTG
1 ATTTGTAAAATTACCAAAATACCCC-C
* *
95614186 ACTTGTAAAATTACTAAAATACCCCC
1 ATTTGTAAAATTACCAAAATACCCCC
*
95614212 ATTTTGTAAAATTACCAAAACACCC
1 A-TTTGTAAAATTACCAAAATACCC
95614237 TTTGTAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.29
Consensus pattern (26 bp):
ATTTGTAAAATTACCAAAATACCCCC
Found at i:95614861 original size:32 final size:31
Alignment explanation
Indices: 95614759--95614860 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 31
95614749 ATATTTACCC
* *
95614759 AAGGCTATGTGCCGATTATATTACCGTCACTG
1 AAGGCTATGTGCCAATTATAATACCGT-ACTG
* ** *
95614791 ATGGCTATGTGCCAAACATAATACAGTTACCT-
1 AAGGCTATGTGCCAATTATAATACCG-TA-CTG
* *
95614823 ATGGCTTTGTGCCAATTATAATACCGCTACTG
1 AAGGCTATGTGCCAATTATAATACCG-TACTG
95614855 AAGGCT
1 AAGGCT
95614861 TAGAGTAGCA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
31 2 0.04
32 50 0.91
33 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (31 bp):
AAGGCTATGTGCCAATTATAATACCGTACTG
Found at i:95616746 original size:43 final size:42
Alignment explanation
Indices: 95616653--95616799 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
95616643 GATTACCAAG
* * *
95616653 ATGTGATTACATGTAAGACCATGTGTAGGAAATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
* *
95616695 ATTGTGATTACGTGTAAGACCGTGTCTAGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
* * * * * * *
95616739 ATATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
*
95616782 ATGTGATAACATGTAAGA
1 ATGTGATTACATGTAAGA
95616800 TCATATCTGG
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 83 0.97
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
Found at i:95618412 original size:50 final size:50
Alignment explanation
Indices: 95618337--95618460 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
95618327 CTTAAGGTTT
*
95618337 GGCACTTGGTGTTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
1 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
** ** * *
95618387 GGCACTTGGTGCTGAGGTGTGTTACAAGAGGGATGTTAGCCTACGGGTTA
1 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
**
95618437 GGCACTTGGTGCCAAGGCATGTTA
1 GGCACTTGGTGCTGAGGCATGTTA
95618461 TCGATTGGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.26
Consensus pattern (50 bp):
GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
Found at i:95621008 original size:15 final size:15
Alignment explanation
Indices: 95620965--95621010 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
95620955 ACTTATTGCC
95620965 TATTTTTTTATATTA-
1 TATTTTTTTAT-TTAT
**
95620980 TATACTTTTA-TTAT
1 TATTTTTTTATTTAT
95620994 TATTTTTTTATTTAT
1 TATTTTTTTATTTAT
95621009 TA
1 TA
95621011 ACCCGTATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.12
14 8 0.32
15 14 0.56
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTTTATTTAT
Found at i:95623616 original size:15 final size:15
Alignment explanation
Indices: 95623598--95623639 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
95623588 CAATTTGGTT
95623598 TATTTTTATTTTTAC
1 TATTTTTATTTTTAC
*
95623613 TATTTTTATTTTAAC
1 TATTTTTATTTTTAC
*
95623628 T-TATTTATTTTT
1 TATTTTTATTTTT
95623640 GTGATTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTATTTTTAC
Found at i:95625889 original size:33 final size:32
Alignment explanation
Indices: 95625830--95625893 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
95625820 ACGAAGTCAC
* *
95625830 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
95625862 CAGATATATATATGTGTGGCGAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCGAAGCCACCAGA
95625894 TTGCAGTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:95638984 original size:18 final size:20
Alignment explanation
Indices: 95638961--95638997 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
95638951 TAAAACAGAG
95638961 AACAAA-AAACGGA-TAAGA
1 AACAAAGAAACGGAGTAAGA
95638979 AACAAAGAAACGGAGTAAG
1 AACAAAGAAACGGAGTAAG
95638998 CAATTTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.62, C:0.11, G:0.22, T:0.05
Consensus pattern (20 bp):
AACAAAGAAACGGAGTAAGA
Found at i:95639498 original size:39 final size:40
Alignment explanation
Indices: 95639341--95639564 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
95639331 GCTACTCATT
*
95639341 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
95639381 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
95639421 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
95639461 CCAAA-GCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
95639500 CAAATGCCTTC--GATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
95639540 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95639565 CATCATTCGA
Statistics
Matches: 163, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
37 1 0.01
38 4 0.02
39 48 0.29
40 102 0.63
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:95639558 original size:79 final size:78
Alignment explanation
Indices: 95639341--95639564 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
95639331 GCTACTCATT
* * * * *
95639341 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
95639406 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
95639421 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAAAGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
95639485 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
** * *
95639500 CAAATGCCTTC-GATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCGG
95639564 A
64 A
95639565 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
77 2 0.02
78 28 0.22
79 48 0.38
80 45 0.35
81 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:95640801 original size:56 final size:56
Alignment explanation
Indices: 95640741--95640860 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
95640731 TATTAGTTTA
95640741 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
95640797 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
95640853 TTGCCCAT
1 TTGCCCAT
95640861 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:95644982 original size:127 final size:123
Alignment explanation
Indices: 95644755--95644982 Score: 318
Period size: 127 Copynumber: 1.8 Consensus size: 123
95644745 TAGAATAAAT
95644755 GTTTTTAATTAAAAAAATGATAATTATTAATATATAATTATATCTATTATAACATATATTAATTA
1 GTTTTTAATTAAAAAAATGATAATTATTAATATATAATTATATCTATTATAACATATATTAATTA
* * *
95644820 TTATCAACTTTATATAGAGTTAGGATTAGTGTTAATTTCATCATTTTTTATTTGATAA
66 TTATCAACTTTACATAGAATTAAGATTAGTGTTAATTTCATCATTTTTTATTTGATAA
*
95644878 GTTTTTAA-TAATAATAAGATGATAATCT-TTAATATATAATTATATCTATTATAATTTATATAT
1 GTTTTTAATTAA-AA-AA-ATGATAAT-TATTAATATATAATTATATCTATTATAA--CATATAT
* *
95644941 TAATTTTTATCAA-TTTAGCATAGAATTAAGATTAGTTTTAAT
60 TAATTATTATCAACTTTA-CATAGAATTAAGATTAGTGTTAAT
95644983 CATATCTCAT
Statistics
Matches: 92, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
122 3 0.03
123 10 0.11
124 2 0.02
125 34 0.37
126 5 0.05
127 38 0.41
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (123 bp):
GTTTTTAATTAAAAAAATGATAATTATTAATATATAATTATATCTATTATAACATATATTAATTA
TTATCAACTTTACATAGAATTAAGATTAGTGTTAATTTCATCATTTTTTATTTGATAA
Found at i:95645028 original size:17 final size:18
Alignment explanation
Indices: 95645002--95645035 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95644992 TTTTTGTTTA
95645002 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
95645019 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
95645036 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:95660621 original size:40 final size:40
Alignment explanation
Indices: 95660522--95660745 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
95660512 TGGATGATAA
* * * * **
95660522 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
* *
95660562 CCGGGC-AAGTCCCGAAGGCATTTGTTCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
95660601 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
**
95660641 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
* * *
95660681 CTGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-AAAT
*
95660721 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
95660746 AGCGAGTAGC
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.20
40 129 0.79
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
Found at i:95667087 original size:13 final size:13
Alignment explanation
Indices: 95667069--95667093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95667059 GGTTTCTTTA
95667069 TTAAACTAATTAT
1 TTAAACTAATTAT
95667082 TTAAACTAATTA
1 TTAAACTAATTA
95667094 AATAATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:95670019 original size:16 final size:15
Alignment explanation
Indices: 95669993--95670059 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 15
95669983 TCTTTTAAAG
95669993 AAAAT-AATAAAATT
1 AAAATAAATAAAATT
* *
95670007 GAAATGAAATAAAATCA
1 AAAAT-AAATAAAAT-T
*
95670024 AAAAAAAATAAAA-T
1 AAAATAAATAAAATT
95670038 AAAATAAATAAAA-T
1 AAAATAAATAAAATT
95670052 AAAATAAA
1 AAAATAAA
95670060 AATAAGAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
14 25 0.57
16 16 0.36
17 3 0.07
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAAATAAAATT
Found at i:95670032 original size:35 final size:34
Alignment explanation
Indices: 95669993--95670076 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
95669983 TCTTTTAAAG
*
95669993 AAAAT-AATAAAATTGAAATGAAATAAAATCAAAAA-
1 AAAATAAATAAAA-T-AAATAAAATAAAAT-AAAAAT
95670028 AAAATAAAATAAAATAAATAAAATAAAATAAAAAT
1 AAAAT-AAATAAAATAAATAAAATAAAATAAAAAT
95670063 AAGAATAAATAAAA
1 AA-AATAAATAAAA
95670077 AAAAATAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
34 5 0.11
35 28 0.64
36 4 0.09
37 7 0.16
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (34 bp):
AAAATAAATAAAATAAATAAAATAAAATAAAAAT
Found at i:95670037 original size:26 final size:24
Alignment explanation
Indices: 95670008--95670083 Score: 98
Period size: 26 Copynumber: 3.0 Consensus size: 24
95669998 AATAAAATTG
*
95670008 AAATGAAATAAAATCAAAAAAAAATA
1 AAATAAAAT-AAAT-AAAAAAAAATA
*
95670034 AAATAAAATAAATAAAATAAAATAA
1 AAATAAAATAAATAAAAAAAAAT-A
95670059 AAATAAGAATAAATAAAAAAAAATA
1 AAATAA-AATAAATAAAAAAAAATA
95670084 GAAGATTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.20
25 12 0.27
26 24 0.53
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (24 bp):
AAATAAAATAAATAAAAAAAAATA
Found at i:95670082 original size:10 final size:10
Alignment explanation
Indices: 95670017--95670083 Score: 73
Period size: 10 Copynumber: 6.6 Consensus size: 10
95670007 GAAATGAAAT
95670017 AAAATCAAAAA
1 AAAAT-AAAAA
*
95670028 AAAATAAAAT
1 AAAATAAAAA
*
95670038 AAAAT-AAAT
1 AAAATAAAAA
95670047 AAAATAAAATA
1 AAAATAAAA-A
*
95670058 AAAATAAGAA
1 AAAATAAAAA
*
95670068 TAAATAAAAA
1 AAAATAAAAA
95670078 AAAATA
1 AAAATA
95670084 GAAGATTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
9 9 0.19
10 26 0.54
11 13 0.27
ACGTcount: A:0.81, C:0.01, G:0.01, T:0.16
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:95671899 original size:46 final size:45
Alignment explanation
Indices: 95671844--95672009 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 45
95671834 TGGTTGAGCA
95671844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTAAGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTAAGGATGCGAATG
* * *
95671890 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTAAGGATGCGAA-T--G
* *
95671935 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTAAGGATGCGAATG
* *
95671983 CCCGAGCTCGTTGAGTTGA-TCC-AGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
95672010 GCTTATGGGC
Statistics
Matches: 101, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 7 0.07
45 4 0.04
46 46 0.46
47 29 0.29
48 1 0.01
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTAAGGATGCGAATG
Found at i:95672000 original size:93 final size:91
Alignment explanation
Indices: 95671841--95672010 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 91
95671831 GGATGGTTGA
* * *
95671841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTAAGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGCCCGAACTCGTTGAGT
95671906 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGA-TCC-AGTTCGTGAGATGTAACTAG
* *
95671934 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGCCCGAACTCGTTGAGT
95671999 TGATCCAGTTCG
66 TGATCCAGTTCG
95672011 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 6 0.08
92 3 0.04
93 63 0.88
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGCCCGAACTCGTTGAGT
TGATCCAGTTCGTGAGATGTAACTAG
Found at i:95678628 original size:40 final size:40
Alignment explanation
Indices: 95678573--95678801 Score: 413
Period size: 40 Copynumber: 5.7 Consensus size: 40
95678563 ATGAGCATTG
95678573 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
95678613 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
95678653 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
95678693 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
95678733 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
95678773 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
95678802 ATGTGTTTGC
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:95687297 original size:40 final size:40
Alignment explanation
Indices: 95687242--95687469 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
95687232 GAGCATTGGA
95687242 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
95687282 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
95687322 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
95687362 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
95687402 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
95687442 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
95687470 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:95692149 original size:6 final size:6
Alignment explanation
Indices: 95692111--95692189 Score: 79
Period size: 6 Copynumber: 12.8 Consensus size: 6
95692101 TTGAAATGAG
* * * *
95692111 AATAAA AATCAA AAGAAA AAGAAA AATAAA AATAAA AATAAA TAAAATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA -AATA-AA
*
95692161 AATAAA AATAAG AATAAA TAA-AAA AATAA
1 AATAAA AATAAA AATAAA -AATAAA AATAA
95692190 GAAGATTCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
5 2 0.03
6 49 0.80
7 8 0.13
8 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:95692155 original size:16 final size:16
Alignment explanation
Indices: 95692132--95692184 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
95692122 AAAGAAAAAG
95692132 AAAAATAAAAATAAA-
1 AAAAATAAAAATAAAT
95692147 AATAAAT-AAAATAAAAT
1 AA-AAATAAAAAT-AAAT
*
95692164 AAAAATAAGAATAAAT
1 AAAAATAAAAATAAAT
95692180 AAAAA
1 AAAAA
95692185 AATAAGAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 7 0.21
16 20 0.61
17 6 0.18
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Done.