Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 186 of 427
Found at i:51295048 original size:13 final size:13
Alignment explanation
Indices: 51295030--51295054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51295020 TGACGCCATA
51295030 TCTTCTCCTTTCT
1 TCTTCTCCTTTCT
51295043 TCTTCTCCTTTC
1 TCTTCTCCTTTC
51295055 GTTTTTCTAT
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
TCTTCTCCTTTCT
Found at i:51295679 original size:17 final size:19
Alignment explanation
Indices: 51295651--51295687 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51295641 TAGACTGATT
51295651 TGGGTCGTGTGGG-CCACA
1 TGGGTCGTGTGGGTCCACA
51295669 TGGGT-GTGTGGGTCCACA
1 TGGGTCGTGTGGGTCCACA
51295687 T
1 T
51295688 TAATAGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.11, C:0.19, G:0.43, T:0.27
Consensus pattern (19 bp):
TGGGTCGTGTGGGTCCACA
Found at i:51297173 original size:17 final size:17
Alignment explanation
Indices: 51297151--51297185 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51297141 GTATACTAAA
*
51297151 ACTGTAGTAAAACCGAT
1 ACTGTAGCAAAACCGAT
*
51297168 ACTGTAGCAAAACTGAT
1 ACTGTAGCAAAACCGAT
51297185 A
1 A
51297186 GAGACTGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (17 bp):
ACTGTAGCAAAACCGAT
Found at i:51304913 original size:37 final size:37
Alignment explanation
Indices: 51304863--51304935 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
51304853 ATGTGATGTT
51304863 GTATCATGTGATTAATGCTTAAATTTTATTATGAATA
1 GTATCATGTGATTAATGCTTAAATTTTATTATGAATA
51304900 GTATCATGTGATTAATGCTTAAATTTTATTATGAAT
1 GTATCATGTGATTAATGCTTAAATTTTATTATGAAT
51304936 TATGCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (37 bp):
GTATCATGTGATTAATGCTTAAATTTTATTATGAATA
Found at i:51305513 original size:2 final size:2
Alignment explanation
Indices: 51305506--51305533 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51305496 TGTGGTAAGA
51305506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51305534 GAAGAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51312097 original size:47 final size:46
Alignment explanation
Indices: 51312006--51312170 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 46
51311996 CCTCGAGACG
* * *
51312006 TAAGCCAGTGTAAGA-CATGTCTTGGACAT-GCGTT-GGCTACGAGATGA
1 TAAGCCAGTGTAAGACCGTGTC-TGGACATGGC-TTCGACT-TGAGAT-A
* * * *
51312053 T-AGTCAGTGCAAGACCATGTCTGAGACATGGCTTTGACTTGAGATA
1 TAAGCCAGTGTAAGACCGTGTCTG-GACATGGCTTCGACTTGAGATA
51312099 TAAGCCAGTGTAAGACCGTGTCTGGAACATGGCTTCGACTTGAGATA
1 TAAGCCAGTGTAAGACCGTGTCTGG-ACATGGCTTCGACTTGAGATA
51312146 TAAGCCAGTGTAAGACCGTGTCTGG
1 TAAGCCAGTGTAAGACCGTGTCTGG
51312171 GACACGGCAT
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
46 16 0.15
47 83 0.80
48 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
TAAGCCAGTGTAAGACCGTGTCTGGACATGGCTTCGACTTGAGATA
Found at i:51318493 original size:22 final size:22
Alignment explanation
Indices: 51318451--51318493 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51318441 GACTATGCGA
*
51318451 TCTGAGCTCATGAGTTTTGTGG
1 TCTGAGCTCATGAGTTATGTGG
51318473 TCTGAGCTCATGA-TATATGTG
1 TCTGAGCTCATGAGT-TATGTG
51318494 AGACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:51318899 original size:2 final size:2
Alignment explanation
Indices: 51318892--51318923 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
51318882 TGTGGTAAGA
51318892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51318924 GAAGAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51326001 original size:22 final size:22
Alignment explanation
Indices: 51325973--51326016 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
51325963 GACTATAGGA
**
51325973 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAAATATGTGG
51325995 TCTGAGCTCATGAAATATGTGG
1 TCTGAGCTCATGAAATATGTGG
51326017 CACATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (22 bp):
TCTGAGCTCATGAAATATGTGG
Found at i:51326419 original size:2 final size:2
Alignment explanation
Indices: 51326412--51326439 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51326402 TGTGGTAAGA
51326412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51326440 GAAGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51333466 original size:20 final size:20
Alignment explanation
Indices: 51333437--51333481 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51333427 AGCACATGTG
* *
51333437 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
51333457 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
51333477 TTCAT
1 TTCAT
51333482 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:51336293 original size:40 final size:40
Alignment explanation
Indices: 51336244--51336371 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
51336234 TCTTCGGAAT
* *
51336244 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
51336283 TTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
51336323 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
51336363 TTAGCCCGG
1 TTAGCCCGG
51336372 GTATCATTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:51346116 original size:67 final size:68
Alignment explanation
Indices: 51346043--51346193 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
51346033 CATCATGTGT
* * * *
51346043 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGT-GCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
51346105 TGTAG
64 TGTAG
* * *
51346110 ACAAGAGAGCTAC-AG-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
51346173 GTAG
65 GTAG
51346177 ACAAGAGAGCTACAAGA
1 ACAAGAGAGCTACAAGA
51346194 TAAATTGGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
63 12 0.17
64 14 0.20
65 1 0.01
66 4 0.06
67 38 0.54
68 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:51348632 original size:16 final size:16
Alignment explanation
Indices: 51348599--51348640 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
51348589 GTAGATCGGC
*
51348599 AAAAGCCG-AATGCTG
1 AAAAGCCGAAATGCCG
*
51348614 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
51348630 AAAAGCCGAAA
1 AAAAGCCGAAA
51348641 GTTTAGCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.48, C:0.19, G:0.24, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:51348904 original size:28 final size:28
Alignment explanation
Indices: 51348873--51348996 Score: 137
Period size: 28 Copynumber: 4.4 Consensus size: 28
51348863 TTTGGGCTGG
*
51348873 ATGGGCCATGTGAATGAGATTGGGCCTA
1 ATGGGCCATATGAATGAGATTGGGCCTA
* *
51348901 ATGGGCCATATGAATGTGAATT-GGCCTG
1 ATGGGCCATATGAATGAG-ATTGGGCCTA
51348929 ATGGGCCATATGAACGTGA-ATTGGGCC-A
1 ATGGGCCATATGAA--TGAGATTGGGCCTA
* *
51348957 GATGGGCCAGATAAATGAGATTGGGCCTA
1 -ATGGGCCATATGAATGAGATTGGGCCTA
*
51348986 GTGGGCCATAT
1 ATGGGCCATAT
51348997 ACATTTAGGT
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
27 3 0.04
28 55 0.69
29 20 0.25
30 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (28 bp):
ATGGGCCATATGAATGAGATTGGGCCTA
Found at i:51348917 original size:57 final size:54
Alignment explanation
Indices: 51348852--51348996 Score: 143
Period size: 57 Copynumber: 2.6 Consensus size: 54
51348842 GTGAGCATGA
*
51348852 ATATAATGTGATTTGGGCTGGATGGGCCATGTGAA-TGAGATTGGGCCTA-ATGGGCC
1 ATATAATGTGA-TTGGGCT-GATGGGCCATATGAACTGA-ATTGGGCC-AGATGGGCC
*
51348908 ATATGAATGTGAATTGGCCTGATGGGCCATATGAACGTGAATTGGGCCAGATGGGCC
1 ATAT-AATGTG-ATTGGGCTGATGGGCCATATGAAC-TGAATTGGGCCAGATGGGCC
* *
51348965 AGATAAATGAGATTGGGCCT-AGTGGGCCATAT
1 ATAT-AATGTGATTGGG-CTGA-TGGGCCATAT
51348997 ACATTTAGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
56 25 0.33
57 47 0.62
58 4 0.05
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (54 bp):
ATATAATGTGATTGGGCTGATGGGCCATATGAACTGAATTGGGCCAGATGGGCC
Found at i:51355127 original size:40 final size:40
Alignment explanation
Indices: 51355029--51355176 Score: 156
Period size: 40 Copynumber: 3.7 Consensus size: 40
51355019 TCGAATGGTG
* * *
51355029 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAA
* *
51355070 TCCGGG-TCAACTCCCGAAGGCATTTGTGTGAGTTACCAAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGTGAGTTA-CTAAA
* * * *
51355111 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
* *
51355150 TCCGGGCTAATTCCCGAAGGCAATTGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGT
51355177 ACGAATCACT
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
39 4 0.04
40 55 0.62
41 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
Found at i:51359042 original size:40 final size:40
Alignment explanation
Indices: 51358942--51359121 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
51358932 TTGAATGGTG
* * *
51358942 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
51358983 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
51359023 ACCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
51359063 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51359104 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
51359122 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 88 0.76
41 28 0.24
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51359090 original size:80 final size:81
Alignment explanation
Indices: 51358943--51359121 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 81
51358933 TGAATGGTGT
* *
51358943 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
51359008 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * * * *
51359024 CCGGGTTAAGTCCTGAAGGCATTTGTGC-GAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* * * *
51359087 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
*
51359104 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
51359122 ACAATCGAGC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 56 0.68
81 25 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:51359142 original size:40 final size:40
Alignment explanation
Indices: 51359064--51359147 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
51359054 GTTATTAAAT
* * *
51359064 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
51359104 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
51359144 CCGG
1 CCGG
51359148 TTAAATTTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:51359482 original size:8 final size:8
Alignment explanation
Indices: 51359469--51359496 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
51359459 TGCTTACTCC
51359469 GTTTCTTT
1 GTTTCTTT
51359477 GTTTCTTT
1 GTTTCTTT
51359485 GTTTCTTT
1 GTTTCTTT
51359493 GTTT
1 GTTT
51359497 TATAGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.14, T:0.75
Consensus pattern (8 bp):
GTTTCTTT
Found at i:51366525 original size:11 final size:12
Alignment explanation
Indices: 51366509--51366537 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
51366499 TAAACACCAA
51366509 TTATTTTTA-CT
1 TTATTTTTATCT
51366520 TTATTTTTATCT
1 TTATTTTTATCT
51366532 TTATTT
1 TTATTT
51366538 ATATGTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTATCT
Found at i:51381673 original size:12 final size:12
Alignment explanation
Indices: 51381656--51381680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51381646 TGGCAACCGG
51381656 AGCACTAACACC
1 AGCACTAACACC
51381668 AGCACTAACACC
1 AGCACTAACACC
51381680 A
1 A
51381681 CTAACTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.40, G:0.08, T:0.08
Consensus pattern (12 bp):
AGCACTAACACC
Found at i:51382199 original size:42 final size:42
Alignment explanation
Indices: 51382140--51382235 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
51382130 CAAATTGATC
* *
51382140 CACACGGGTGTGTGACACGGTCGTGTGGCCCAACACGGGTCT
1 CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
51382182 CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
1 CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
*
51382224 CACACGGCCGTG
1 CACACGGGCGTG
51382236 CCCCTTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.17, C:0.32, G:0.35, T:0.16
Consensus pattern (42 bp):
CACACGGGCGTGTGACACGGCCGTGTGGCCCAACACGGGTCT
Found at i:51382421 original size:19 final size:19
Alignment explanation
Indices: 51382397--51382433 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
51382387 TTTCTTTTTC
51382397 TTTCTTT-CTCTCTTCTTTA
1 TTTCTTTCCTC-CTTCTTTA
51382416 TTTCTTTCCTCCTTCTTT
1 TTTCTTTCCTCCTTCTTT
51382434 CCCTTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTTTCCTCCTTCTTTA
Found at i:51384225 original size:11 final size:11
Alignment explanation
Indices: 51384209--51384252 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
51384199 TTAGTCCATC
51384209 TATTTTATTTT
1 TATTTTATTTT
51384220 TATTTTTATTTT
1 TA-TTTTATTTT
* *
51384232 CATTTTATCTT
1 TATTTTATTTT
*
51384243 TCTTTTATTT
1 TATTTTATTT
51384253 ATTTTTGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:51384231 original size:17 final size:17
Alignment explanation
Indices: 51384209--51384252 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
51384199 TTAGTCCATC
*
51384209 TATTTTATTTTTATTTT
1 TATTTTATTTTTATCTT
51384226 TATTTTCA-TTTTATCTT
1 TATTTT-ATTTTTATCTT
*
51384243 TCTTTTATTT
1 TATTTTATTT
51384253 ATTTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTTTATCTT
Found at i:51384244 original size:12 final size:11
Alignment explanation
Indices: 51384210--51384252 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
51384200 TAGTCCATCT
*
51384210 ATTTTATTTTT
1 ATTTTATTTTC
51384221 ATTTTTATTTTC
1 A-TTTTATTTTC
51384233 ATTTTATCTTTC
1 ATTTTAT-TTTC
51384245 -TTTTATTT
1 ATTTTATTT
51384253 ATTTTTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 13 0.45
12 14 0.48
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:51387958 original size:71 final size:71
Alignment explanation
Indices: 51387874--51388037 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
51387864 CGATTTGTCT
51387874 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
51387939 CTTTCA
66 CTTTCA
* *
51387945 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
51388010 CTTTCA
66 CTTTCA
51388016 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51388038 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:51388075 original size:71 final size:70
Alignment explanation
Indices: 51387874--51388071 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
51387864 CGATTTGTCT
* * * * *
51387874 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
51387939 CTTTCA
65 CTTTCA
* * * *
51387945 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
51388010 CTTTCA
65 CTTTCA
* *
51388016 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
51388072 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51396701 original size:40 final size:40
Alignment explanation
Indices: 51396652--51396819 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
51396642 TCTTCGGAAT
* * *
51396652 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
51396691 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
51396731 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
51396771 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
51396811 TTAGCCCGG
1 TTAGCCCGG
51396820 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:51405052 original size:40 final size:40
Alignment explanation
Indices: 51404950--51405109 Score: 171
Period size: 40 Copynumber: 4.0 Consensus size: 40
51404940 GAATTTAGCC
* * * * *
51404950 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCA
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *** *
51404990 GATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *
51405030 GATATAACAACTCGCACGAATGCCTT-GGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* *
51405069 GATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 GATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
51405109 G
1 G
51405110 GTATCATTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
39 34 0.35
40 64 0.65
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:51409644 original size:31 final size:31
Alignment explanation
Indices: 51409604--51409766 Score: 256
Period size: 31 Copynumber: 5.3 Consensus size: 31
51409594 TTTCCACAAA
*
51409604 TCAT-AATCATATCATTGGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
*
51409634 TCATAAATCATATCACTGGGTCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
51409665 TCATAAATCATATCACTGGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
* *
51409696 TCATAAATCATATCACTGGGCCAAAGCCATT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
*
51409727 TCATAAATCATATCACTGGGCCGGAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
*
51409758 ACTATAAAT
1 TC-ATAAAT
51409767 GGTATGGCCC
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
30 4 0.03
31 112 0.92
32 6 0.05
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (31 bp):
TCATAAATCATATCACTGGGCCGAAGCCTTT
Found at i:51409828 original size:42 final size:42
Alignment explanation
Indices: 51409781--51409872 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
51409771 TGGCCCTTAG
* *
51409781 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGTAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
51409823 GCCCATTTCAATATCACATGTAATGTTAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
51409865 GCCCATTT
1 GCCCATTT
51409873 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:51410089 original size:25 final size:25
Alignment explanation
Indices: 51410020--51410089 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
51410010 CTCTTTTAAT
* *
51410020 AATTGGGGCAAAGCCGTTTCTGATA
1 AATTGGGGCAAAGCCCTTTTTGATA
* * *
51410045 AACTGGGGCAAAGCCTTTTTTGGTA
1 AATTGGGGCAAAGCCCTTTTTGATA
*
51410070 AATTGGGGCAGAGCCCTTTT
1 AATTGGGGCAAAGCCCTTTT
51410090 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (25 bp):
AATTGGGGCAAAGCCCTTTTTGATA
Found at i:51410143 original size:16 final size:16
Alignment explanation
Indices: 51410122--51410152 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51410112 CCCATATCCC
51410122 ATGCAATATGTCATGT
1 ATGCAATATGTCATGT
51410138 ATGCAATATGTCATG
1 ATGCAATATGTCATG
51410153 ACCATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
ATGCAATATGTCATGT
Found at i:51411121 original size:56 final size:53
Alignment explanation
Indices: 51411001--51411175 Score: 158
Period size: 54 Copynumber: 3.2 Consensus size: 53
51410991 TACAAGGGTG
* * * *
51411001 TTTTGGTAAATCT-ACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTCACAAA-CAAGGGTATTTCTGTAATTTTGTAAA-CAGTGGTA
* * * *
51411055 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTCACAAA--CAAGGGTATTTCTGTAATTTTGTAAA-CAGTGGTA
* **
51411111 TTTTGGTAA-TTTCACAAACCAGTGGTATTTCTGTAATTTTACAAACTAGTGGTA
1 TTTTGGTAATTTTCACAAACAAG-GGTATTTCTGTAATTTTGTAAAC-AGTGGTA
51411165 TTTTGGTAATT
1 TTTTGGTAATT
51411176 CTATCCTATA
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
53 4 0.04
54 43 0.44
55 14 0.14
56 37 0.38
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (53 bp):
TTTTGGTAATTTTCACAAACAAGGGTATTTCTGTAATTTTGTAAACAGTGGTA
Found at i:51411154 original size:27 final size:27
Alignment explanation
Indices: 51411013--51411175 Score: 127
Period size: 27 Copynumber: 6.0 Consensus size: 27
51411003 TTGGTAAATC
*
51411013 TACAAACCAAG-GGTATTTCAGTAATTT
1 TACAAACC-AGTGGTATTTCTGTAATTT
** * *
51411040 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAGTGGTATTTCTGTAA-TTT
* *
51411068 TAGAAAGTCAAG-GGTATTTCTGTAATTT
1 TACAAA--CCAGTGGTATTTCTGTAATTT
** * *
51411096 TGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAACCAGTGGTATTTCT-GTAATTT
*
51411123 CACAAACCAGTGGTATTTCTGTAATTT
1 TACAAACCAGTGGTATTTCTGTAATTT
*
51411150 TACAAACTAGTGGTATTT-TGGTAATT
1 TACAAACCAGTGGTATTTCT-GTAATT
51411176 CTATCCTATA
Statistics
Matches: 107, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
26 5 0.05
27 73 0.68
28 15 0.14
29 12 0.11
30 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAGTGGTATTTCTGTAATTT
Found at i:51411231 original size:27 final size:25
Alignment explanation
Indices: 51411197--51411403 Score: 182
Period size: 27 Copynumber: 7.7 Consensus size: 25
51411187 GGGTATTTCA
* *
51411197 GTAATTTGACAATCGAGGGTAAAACG
1 GTAATTTTA-AATCGAGGGTAAAATG
*
51411223 GTAATTTTGTAAA-CTTAGGGTAAAATG
1 GTAA-TTT-TAAATC-GAGGGTAAAATG
*
51411250 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAA-TTT-TAAATCGAGGGTAAAATG
*
51411277 ATAATTCTTAAATCGAGGGTAAAATG
1 GTAATT-TTAAATCGAGGGTAAAATG
**
51411303 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATT-T-TAAATCGAGGGTAAAATG
*
51411330 GTAATTTTGTAAATCGAGGGTGAAATG
1 GTAA-TTT-TAAATCGAGGGTAAAATG
*
51411357 GTAATTCTATAAATCGAAGGTAAAATG
1 GTAATT-T-TAAATCGAGGGTAAAATG
*
51411384 GTAATTCTACAAATCGAGGG
1 GTAATT-T-TAAATCGAGGG
51411404 CATTTCAGTA
Statistics
Matches: 154, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
26 33 0.21
27 117 0.76
28 4 0.03
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (25 bp):
GTAATTTTAAATCGAGGGTAAAATG
Found at i:51411271 original size:54 final size:54
Alignment explanation
Indices: 51411207--51411403 Score: 263
Period size: 54 Copynumber: 3.7 Consensus size: 54
51411197 GTAATTTGAC
* * *
51411207 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
* *
51411261 AATCGAGGGTAAAACGATAATTCT-TAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* *
51411314 AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * **
51411368 AATCGAAGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
51411404 CATTTCAGTA
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 45 0.36
54 81 0.64
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:51411271 original size:80 final size:80
Alignment explanation
Indices: 51411198--51411403 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
51411188 GGTATTTCAG
* * * **
51411198 TAATT-TGACAATCGAGGGTAAAACGGTAATTTTGTAAA-CTTAGGGTAAAATGGTAATTTTGTA
1 TAATTCTGA-AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTTTGTA
51411261 AATCGAGGGTAAAACGA
64 AATCGAGGGTAAAACGA
* *
51411278 TAATTCTTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAA
1 TAATTCTGAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAA
* * *
51411343 TCGAGGGTGAAATGG
66 TCGAGGGTAAAACGA
* * * *
51411358 TAATTCTATAAATCGAAGGTAAAATGGTAATTCTACAAATCGAGGG
1 TAATTCT-GAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
51411404 CATTTCAGTA
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 72 0.65
81 39 0.35
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (80 bp):
TAATTCTGAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAA
TCGAGGGTAAAACGA
Found at i:51411413 original size:81 final size:80
Alignment explanation
Indices: 51411250--51411423 Score: 249
Period size: 81 Copynumber: 2.2 Consensus size: 80
51411240 GGGTAAAATG
* *
51411250 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTTAAATCGAGGGTAAAATGGTAATTCTATAA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTTAAATCGAAGGTAAAATGGTAATTCTACAA
*
51411315 ATCGAGGGTAAAACA
66 ATCGAGGGCAAAACA
* * *
51411330 GTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAAGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCT-TAAATCGAAGGTAAAATGGTAATTCTACA
***
51411395 AATCGAGGGCATTTCA
65 AATCGAGGGCAAAACA
*
51411411 GTAATTTGGTAAA
1 GTAATTTTGTAAA
51411424 CTAAAGTATT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 32 0.39
81 51 0.61
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (80 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTTAAATCGAAGGTAAAATGGTAATTCTACAA
ATCGAGGGCAAAACA
Found at i:51413655 original size:24 final size:25
Alignment explanation
Indices: 51413627--51413703 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 25
51413617 GTCTTGACAT
51413627 ATACT-GGCGAAGCCTTTCCATATC
1 ATACTGGGCGAAGCCTTTCCATATC
*
51413651 ATACTGGGCGAAGCCTTTTCATAAATC
1 ATACTGGGCGAAGCCTTTCCAT--ATC
*
51413678 ATATCATGGGCCGAAGCCTTTTCATA
1 ATA-C-TGGG-CGAAGCCTTTCCATA
51413704 AATCATATCA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
24 5 0.11
25 15 0.33
27 6 0.13
28 2 0.04
29 4 0.09
30 14 0.30
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
ATACTGGGCGAAGCCTTTCCATATC
Found at i:51413663 original size:25 final size:25
Alignment explanation
Indices: 51413627--51413734 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 25
51413617 GTCTTGACAT
*
51413627 ATACT-GGCGAAGCCTTTCCATATC
1 ATACTGGGCGAAGCCTTTTCATATC
51413651 ATACTGGGCGAAGCCTTTTCATAAATC
1 ATACTGGGCGAAGCCTTTTCAT--ATC
51413678 ATATCATGGGCCGAAGCCTTTTCATAAATC
1 ATA-C-TGGG-CGAAGCCTTTTCAT--ATC
51413708 ATATCACTGGGCCGAAGCCTTTTCATA
1 --AT-ACTGGG-CGAAGCCTTTTCATA
51413735 AATCATATCA
Statistics
Matches: 74, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
24 5 0.07
25 15 0.20
27 6 0.08
28 1 0.01
29 5 0.07
30 19 0.26
31 19 0.26
32 3 0.04
33 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
ATACTGGGCGAAGCCTTTTCATATC
Found at i:51413722 original size:31 final size:31
Alignment explanation
Indices: 51413653--51413759 Score: 193
Period size: 30 Copynumber: 3.5 Consensus size: 31
51413643 TCCATATCAT
51413653 ACTGGG-CGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
51413683 A-TGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
51413713 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
51413744 ACT-GGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
51413760 ACTGTAAGGT
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
29 4 0.05
30 39 0.52
31 32 0.43
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:51413840 original size:42 final size:42
Alignment explanation
Indices: 51413781--51413872 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
51413771 TGGCCCTTAG
*
51413781 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
51413823 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
51413865 GCCCATTT
1 GCCCATTT
51413873 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:51414076 original size:25 final size:24
Alignment explanation
Indices: 51414007--51414088 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
51413997 CTGGAGGCCT
*
51414007 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
51414031 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
51414055 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-GATAAACTGGGGCAA
51414080 AGCCCTTTT
1 AGCCCTTTT
51414089 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.13
24 24 0.45
25 22 0.42
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:51414925 original size:27 final size:27
Alignment explanation
Indices: 51414895--51414959 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
51414885 GGGCATATTC
51414895 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
51414922 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
51414949 GTCTTTTTACC
1 GTCATTTTACC
51414960 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:51415177 original size:26 final size:26
Alignment explanation
Indices: 51414992--51415223 Score: 164
Period size: 27 Copynumber: 8.6 Consensus size: 26
51414982 TCATCCTACA
* * *
51414992 AGGGTGTTTTGGTAAATCTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
** **
51415018 AAGGGTATTTCAGTAATTTTGTAAACC
1 -AGGGTATTTTGGTAATTTTACAAACC
* * * *
51415045 AATGGTATTTCT-ATAATTTTTAGAAAGTCA
1 -AGGGTATTT-TGGTAA-TTTTACAAA--CC
** *
51415075 AGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAATTTTACAAACC
**
51415101 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTACAAA-CC
* *
51415129 AGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
*
51415155 AGTGGTA-TTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACC
*
51415181 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACC
51415208 AGGGTATTTTGGTAAT
1 AGGGTATTTTGGTAAT
51415224 CTATCCTACA
Statistics
Matches: 166, Mismatches: 29, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
26 40 0.24
27 96 0.58
28 16 0.10
29 13 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:51415189 original size:53 final size:54
Alignment explanation
Indices: 51414998--51415256 Score: 197
Period size: 53 Copynumber: 4.8 Consensus size: 54
51414988 TACAAGGGTG
* * * * ** *
51414998 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACCAGTGGTA
* * * * * ** * *
51415052 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AGGGGTATTTCAGTAATTTTACAAACCAGTGGTA
* * *
51415108 TTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAG-GGGTATTTCAGTAATTTTACAAACCAGTGGTA
** *
51415162 -TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACCAGTGGTA
* ** *
51415214 TTTTGGTAA-TCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 TTTTGGTAATTTTA-CAAACTAGGGGTATTTCAGTAATTTTACAA
51415257 TCGAGGGTAA
Statistics
Matches: 167, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
52 28 0.17
53 52 0.31
54 35 0.21
55 16 0.10
56 36 0.22
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACCAGTGGTA
Found at i:51415289 original size:27 final size:27
Alignment explanation
Indices: 51415255--51415370 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 27
51415245 GTAATTTCAC
51415255 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
51415282 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
51415309 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
51415336 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
51415363 AATCGAGG
1 AATCGAGG
51415371 AAATGTAAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
26 1 0.01
27 80 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:51415320 original size:54 final size:54
Alignment explanation
Indices: 51415255--51415436 Score: 186
Period size: 54 Copynumber: 3.1 Consensus size: 54
51415245 GTAATTTCAC
* * * *
51415255 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTCTATA
51415309 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* *
51415363 AATCGAGGAAATGTAAATCGAGGGTAAATTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAC
1 AATCGAGG----GTAAA---ACGG-----TAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
51415428 A
54 A
51415429 AATCGAGG
1 AATCGAGG
51415437 CATTTCAGTA
Statistics
Matches: 109, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
54 56 0.51
55 1 0.01
58 5 0.05
61 3 0.03
66 44 0.40
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:51415404 original size:24 final size:26
Alignment explanation
Indices: 51415376--51415436 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 26
51415366 CGAGGAAATG
51415376 TAAATCGAGGGT-AAAT-TAATTCTA
1 TAAATCGAGGGTAAAATGTAATTCTA
51415400 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAAT-GTAATTCTA
*
51415427 CAAATCGAGG
1 TAAATCGAGG
51415437 CATTTCAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 12 0.36
25 4 0.12
27 17 0.52
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (26 bp):
TAAATCGAGGGTAAAATGTAATTCTA
Found at i:51415408 original size:66 final size:68
Alignment explanation
Indices: 51415305--51415436 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 68
51415295 ATGGTAATTT
*
51415305 TGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAG
1 TGTAAATCGAGGGTAAAAC-GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAG
51415370 GAAA
65 GAAA
*
51415374 TGTAAATCGAGGGT-AAA-TTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGG
1 TGTAAATCGAGGGTAAAACGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGG
51415437 CATTTCAGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
66 44 0.72
68 3 0.05
69 14 0.23
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (68 bp):
TGTAAATCGAGGGTAAAACGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGG
AAA
Found at i:51417938 original size:25 final size:27
Alignment explanation
Indices: 51417901--51417953 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
51417891 TCAAACATGC
51417901 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
51417927 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
51417953 A
1 A
51417954 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:51419456 original size:26 final size:26
Alignment explanation
Indices: 51419426--51419481 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
51419416 TGAAATGCCC
51419426 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51419452 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51419478 ATCA
1 ATCA
51419482 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:51420242 original size:28 final size:28
Alignment explanation
Indices: 51420202--51420259 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
51420192 GCGGACTCAA
51420202 TTTGCCTTTCTTGCCGAATCTCAAGATC
1 TTTGCCTTTCTTGCCGAATCTCAAGATC
51420230 TTTGCCTTTCTTGCCGAATCTCAAGATC
1 TTTGCCTTTCTTGCCGAATCTCAAGATC
51420258 TT
1 TT
51420260 CTTCCAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (28 bp):
TTTGCCTTTCTTGCCGAATCTCAAGATC
Found at i:51425657 original size:25 final size:27
Alignment explanation
Indices: 51425620--51425672 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
51425610 TCAAACATGC
51425620 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
51425646 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
51425672 A
1 A
51425673 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:51427174 original size:26 final size:26
Alignment explanation
Indices: 51427144--51427199 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
51427134 TGAAATGCCC
51427144 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51427170 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
51427196 ATCA
1 ATCA
51427200 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:51428998 original size:53 final size:53
Alignment explanation
Indices: 51428915--51429021 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
51428905 TCTGCCAAAG
51428915 TTTGAGTTAGGGAATGTTTTGAATAGTAAATTAATTAAATAAGTGAAATATGA
1 TTTGAGTTAGGGAATGTTTTGAATAGTAAATTAATTAAATAAGTGAAATATGA
*
51428968 TTTGAGTTAGGGAATGTTTTGAATATTAAATTAATTAAATAAGTGAAATATGA
1 TTTGAGTTAGGGAATGTTTTGAATAGTAAATTAATTAAATAAGTGAAATATGA
51429021 T
1 T
51429022 GTTTTAGATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (53 bp):
TTTGAGTTAGGGAATGTTTTGAATAGTAAATTAATTAAATAAGTGAAATATGA
Found at i:51429826 original size:55 final size:54
Alignment explanation
Indices: 51429697--51430309 Score: 450
Period size: 54 Copynumber: 11.6 Consensus size: 54
51429687 TTGGTAAGAT
* * * *
51429697 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
51429751 AAGGAAT-TCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGG-ATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* **
51429806 AAAGG-TCTCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC-ATAAGAT
1 -AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *** **
51429859 AAGGATAC-CATGTAAGACTATGTTTGGAACATGGCATT--TG-G-----TAAGAT
1 AAGGAT-CTCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGC
* * * * **
51429906 AAGGATATCATGTAAGACCATGCCAAGGCATGGCGTTGACAAGTTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
** *
51429960 AAGGAAATCATGTAAGACCATGACAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * * *
51430015 AAATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *** **
51430068 AAGGATAC-CATATAAGACCATGTTTGGAACATGGCATT--TG-G-----TAAGAT
1 AAGGAT-CTCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGC
* * * * * *
51430115 AAGGATATCATGTAAGACCATGCCAAGGCATGGAATTGATAAGCTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
**
51430169 AAGGAAATCATGTAAGACCATGTCGAA-ACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * * * * ** *
51430224 AAAGTTCCCATGTAAGATCATGCCAAGGCATGGTATTGGGGAGTTC-ATAAGAC
1 AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
51430277 AAGGATAC-CACGTAAGACCATGTCAAGATATGG
1 AAGGAT-CTCATGTAAGACCATGTCAAGACATGG
51430310 GAATGGTAAG
Statistics
Matches: 445, Mismatches: 80, Indels: 69
0.75 0.13 0.12
Matches are distributed among these distances:
46 16 0.04
47 51 0.11
48 1 0.00
49 2 0.00
51 2 0.00
52 11 0.02
53 72 0.16
54 150 0.34
55 133 0.30
56 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:51429965 original size:209 final size:209
Alignment explanation
Indices: 51429604--51430299 Score: 1187
Period size: 209 Copynumber: 3.3 Consensus size: 209
51429594 ATTAAGGATA
* *
51429604 CCATGTAAGACCATGTCAAGACATGGCATTAGTGAGTTCATAAGACAAGGATACCATGTAAGACC
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACC
51429669 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
*
51429734 GATAAGTTCTATAAGGCAAGGAATTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
131 GATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
51429799 ATAAGGCAAAGGTC
196 ATAAGGCAAAGGTC
* * * *
51429813 TCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGATAAGGATACCATGTAAGACT
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACC
*
51429878 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCGTT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
* *
51429943 GACAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGACAAGACATGGCATTGATGAGTTACT
131 GATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
*
51430008 ATAAGGCAAATGTC
196 ATAAGGCAAAGGTC
* *
51430022 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCATATAAGACC
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACC
*
51430087 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGAATT
66 ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
*
51430152 GATAAGCTCTATAAGGCAAGGAAATCATGTAAGACCATGTCGAA-ACATGGCATTGATGAGTTAC
131 GATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTAC
*
51430216 TATAAGGCAAAGTTC
195 TATAAGGCAAAGGTC
* * * * *
51430231 CCATGTAAGATCATGCCAAGGCATGGTATTGGGGAGTTCATAAGACAAGGATACCACGTAAGACC
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACC
51430296 ATGT
66 ATGT
51430300 CAAGATATGG
Statistics
Matches: 459, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
209 457 1.00
210 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (209 bp):
CCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACC
ATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATT
GATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
ATAAGGCAAAGGTC
Found at i:51430339 original size:108 final size:109
Alignment explanation
Indices: 51430123--51430339 Score: 233
Period size: 108 Copynumber: 2.0 Consensus size: 109
51430113 ATAAGGATAT
* * * *
51430123 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGCTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTGAGAAGCTCTATAAGACAAGGAAACCACGTAAGACC
* * * * *
51430188 ATGTCGAAACATGGCATTGATGAGTTACTATAAGGCAAAGTTCC
66 ATGTCGAAACATGGCAATGATAAGTTACAAAAAGGAAAAGTTCC
* * * * * *
51430232 CATGTAAGATCATGCCAAGGCATGGTATTGGGGAGTTC-ATAAGACAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTGAGAAGCTCTATAAGACAAGGAAACCACGTAAGACC
* * *
51430296 ATGTC-AAGATATGGGAATGGTAAGTTA-AAAAAGGAAAAGGTTCC
66 ATGTCGAA-ACATGGCAATGATAAGTTACAAAAAGGAAAA-GTTCC
51430340 TGAGTAATCC
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
107 10 0.11
108 46 0.52
109 32 0.36
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGAATTGAGAAGCTCTATAAGACAAGGAAACCACGTAAGACC
ATGTCGAAACATGGCAATGATAAGTTACAAAAAGGAAAAGTTCC
Found at i:51434057 original size:42 final size:42
Alignment explanation
Indices: 51433992--51434193 Score: 156
Period size: 42 Copynumber: 4.7 Consensus size: 42
51433982 CAATAAGATG
* * **
51433992 TCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACA
1 TCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCACA
* * * **
51434034 TCGATGCCATATCCCAGATATGGTCTTATA-CAAATTCTCATT
1 TCAATGCCATATCCCAGATATGGTCTTACATGAAA-TCTCACA
* * ** **
51434076 TCAACGCCATGTCCCAGACGTGGTCTTACATGAAATCTCGTA
1 TCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCACA
* *
51434118 TCAATGCCATATCTCGGATATGGTCTTACATGATAA-CTCATACTGA
1 TCAATGCCATATCCCAGATATGGTCTTACATGA-AATCTC--AC--A
*
51434164 TGCCGATGCCATATCCCAGATATGGTCTTA
1 T--CAATGCCATATCCCAGATATGGTCTTA
51434194 TACGTGACCT
Statistics
Matches: 122, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 90 0.74
43 5 0.04
46 2 0.02
48 24 0.20
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (42 bp):
TCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCACA
Found at i:51434125 original size:84 final size:84
Alignment explanation
Indices: 51433992--51434145 Score: 227
Period size: 84 Copynumber: 1.8 Consensus size: 84
51433982 CAATAAGATG
* ** *
51433992 TCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATCGATGCCATATCCCAGATATGG
1 TCAACGCCATGTCCCAGACATGGTCTTACATGAAATCTCACATCAATGCCATATCCCAGATATGG
51434057 TCTTATACAAATTCTCATT
66 TCTTATACAAATTCTCATT
* ** * *
51434076 TCAACGCCATGTCCCAGACGTGGTCTTACATGAAATCTCGTATCAATGCCATATCTCGGATATGG
1 TCAACGCCATGTCCCAGACATGGTCTTACATGAAATCTCACATCAATGCCATATCCCAGATATGG
51434141 TCTTA
66 TCTTA
51434146 CATGATAACT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (84 bp):
TCAACGCCATGTCCCAGACATGGTCTTACATGAAATCTCACATCAATGCCATATCCCAGATATGG
TCTTATACAAATTCTCATT
Found at i:51437923 original size:6 final size:6
Alignment explanation
Indices: 51437914--51438042 Score: 179
Period size: 6 Copynumber: 21.5 Consensus size: 6
51437904 ACACAGCAGC
51437914 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * * *
51437962 AAGAAG AAGAAG AA-AAG AAAGAAG AGGAAG AGGAAG AAGAGG AAGAGG
1 AAGAAG AAGAAG AAGAAG -AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * *
51438010 AAGAAG AAGAAG AGGAAG AATAAG AGGAAG AAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAG
51438043 CGTACCTGTG
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
5 3 0.03
6 105 0.95
7 3 0.03
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (6 bp):
AAGAAG
Found at i:51437928 original size:9 final size:9
Alignment explanation
Indices: 51437914--51438042 Score: 179
Period size: 9 Copynumber: 14.3 Consensus size: 9
51437904 ACACAGCAGC
51437914 AAGAAGAAG
1 AAGAAGAAG
51437923 AAGAAGAAG
1 AAGAAGAAG
51437932 AAGAAGAAG
1 AAGAAGAAG
51437941 AAGAAGAAG
1 AAGAAGAAG
51437950 AAGAAGAAG
1 AAGAAGAAG
51437959 AAGAAGAAG
1 AAGAAGAAG
51437968 AAGAAGAA-
1 AAGAAGAAG
51437976 AAGAAAGAAG
1 AAG-AAGAAG
* *
51437986 AGGAAGAGG
1 AAGAAGAAG
*
51437995 AAGAAGAGG
1 AAGAAGAAG
*
51438004 AAGAGGAAG
1 AAGAAGAAG
51438013 AAGAAGAAG
1 AAGAAGAAG
* *
51438022 AGGAAGAAT
1 AAGAAGAAG
*
51438031 AAGAGGAAG
1 AAGAAGAAG
51438040 AAG
1 AAG
51438043 CGTACCTGTG
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
8 3 0.03
9 102 0.95
10 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (9 bp):
AAGAAGAAG
Found at i:51437934 original size:15 final size:15
Alignment explanation
Indices: 51437914--51438042 Score: 179
Period size: 15 Copynumber: 8.6 Consensus size: 15
51437904 ACACAGCAGC
51437914 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAG
51437929 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAG
51437944 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAG
51437959 AAGAAGAAGAAGAAG
1 AAGAAGAAGAAGAAG
*
51437974 AA-AAGAAAGAAGAGG
1 AAGAAG-AAGAAGAAG
* *
51437989 AAGAGGAAGAAGAGG
1 AAGAAGAAGAAGAAG
*
51438004 AAGAGGAAGAAGAAG
1 AAGAAGAAGAAGAAG
* *
51438019 AAGAGGAAGAATAAG
1 AAGAAGAAGAAGAAG
*
51438034 AGGAAGAAG
1 AAGAAGAAG
51438043 CGTACCTGTG
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
14 3 0.03
15 101 0.95
16 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (15 bp):
AAGAAGAAGAAGAAG
Found at i:51442197 original size:25 final size:24
Alignment explanation
Indices: 51442156--51442218 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
51442146 GATTATGTAG
51442156 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
51442181 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
51442206 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
51442219 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:51443418 original size:29 final size:29
Alignment explanation
Indices: 51443385--51443449 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
51443375 GTGACGAGAT
*
51443385 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
51443414 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
51443443 CGGCACT
1 TGGCACT
51443450 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:51450095 original size:25 final size:24
Alignment explanation
Indices: 51450054--51450116 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
51450044 GATTATGTAG
51450054 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
51450079 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
51450104 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
51450117 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:51451314 original size:29 final size:29
Alignment explanation
Indices: 51451281--51451345 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
51451271 GTGACGAGAT
*
51451281 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
51451310 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
51451339 CGGCACT
1 TGGCACT
51451346 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:51453152 original size:42 final size:42
Alignment explanation
Indices: 51453059--51453255 Score: 162
Period size: 42 Copynumber: 4.5 Consensus size: 42
51453049 AGATCCCGTA
* * *
51453059 TAAGACCATATCTAGGATATGGTATCGGTATCAGTATGAGTTATCATG
1 TAAGACCATATCTGGGATATGGCATCGATAT--G-A-GA-TT-TCATG
* * *
51453107 TAAGACCATATCTGGGATATGACATTGATATGAGATTTAATG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATG
* * * * * *
51453149 TAAGACCATGTCTGGGACATGGCATCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATG
* * **
51453191 TAAGACCATAT-TGGGGATATGGCATCAATGTGAGATCCCATG
1 TAAGACCATATCT-GGGATATGGCATCGATATGAGATTTCATG
* *
51453233 TAAGACCACATCTGGGACATGGC
1 TAAGACCATATCTGGGATATGGC
51453256 GTTGGCATCT
Statistics
Matches: 120, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 86 0.72
43 3 0.03
44 2 0.02
45 1 0.01
46 1 0.01
48 26 0.22
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATG
Found at i:51455678 original size:47 final size:47
Alignment explanation
Indices: 51455618--51455739 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
51455608 GCATTGGCAC
* * *
51455618 TAAGACAAGGATACCATGTATGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTCGG
*
51455665 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATAGCATTCGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTCGG
* *
51455712 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
51455740 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTCGG
Found at i:51455782 original size:54 final size:54
Alignment explanation
Indices: 51455718--51456129 Score: 313
Period size: 53 Copynumber: 7.9 Consensus size: 54
51455708 TCGGTAAGAT
*
51455718 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * *
51455772 AAGGAAATCATGTAAGAACATG---A--CATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-C
* * * *
51455823 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *** * *
51455875 AAGGATACCATGTACGACCATG-TTTGGAACATGACATTTGGTAAG----ATAA-GC
1 AAGGATACCATGTAAGACCATGCCAAGG--CATGGCA-TTGATAAGTTCTATAAGGC
* *
51455926 ----ATATCATGTAAGACCATGCCTAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * ** * * *
51455976 AAGAAAATCATGTAAGACCATGTGAAGACATGGAATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
* * *
51456031 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
51456084 AATGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
51456130 AAAAAGGAAA
Statistics
Matches: 287, Mismatches: 47, Indels: 49
0.75 0.12 0.13
Matches are distributed among these distances:
45 7 0.02
46 6 0.02
47 16 0.06
48 3 0.01
49 20 0.07
50 23 0.08
51 6 0.02
52 13 0.05
53 64 0.22
54 62 0.22
55 64 0.22
56 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:51456051 original size:55 final size:53
Alignment explanation
Indices: 51455721--51456116 Score: 221
Period size: 54 Copynumber: 7.6 Consensus size: 53
51455711 GTAAGATAAG
* * * * * *
51455721 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTC-ATAAGGCAAA
* * * * *
51455775 GAAATCATGTAAGA--A---CATGACATGGCATTGATGAGTTACTATAAGGAAAA
1 GATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTT-C-ATAAGGCAAA
* * * * * * * *
51455825 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGTAAG
1 GATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTCATAAGGCAAA
* ***
51455878 GATACCATGTACGACCATGTTTGGAACAT-GACATT--TG-G----TAA-G-ATAA
1 GATACCATGTAAGACCATGTCAAG-ACATGGA-ATTGATGAGTTCATAAGGCA-AA
* * * * * *
51455924 GCATATCATGTAAGACCATGCCTAGGCATGGCATTGATAAGTTCTATAAGGC-AA
1 G-ATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTC-ATAAGGCAAA
* * *
51455978 GAAAATCATGTAAGACCATGTGAAGACATGGAATTGATGAGTTACTATAAGGCAAA
1 G-ATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTT-C-ATAAGGCAAA
* * * * * * *
51456034 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTCATAAGGCAAA
*
51456087 GATACCACGTAAGACCATGTCAAGACATGG
1 GATACCATGTAAGACCATGTCAAGACATGG
51456117 CAATGGTAAG
Statistics
Matches: 263, Mismatches: 56, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
45 1 0.00
46 9 0.03
47 22 0.08
48 1 0.00
49 20 0.08
50 20 0.08
51 1 0.00
52 4 0.02
53 60 0.23
54 61 0.23
55 61 0.23
56 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTCATAAGGCAAA
Found at i:51456105 original size:209 final size:204
Alignment explanation
Indices: 51455665--51456106 Score: 706
Period size: 204 Copynumber: 2.1 Consensus size: 204
51455655 TGGCATTTGG
* *
51455665 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATAGCATTCGGTAAGATAAGGATATCATG
1 TAAGGCAAAGATACCATGTAAGACCATGTTTGGAACATAGCATTCGGTAAGATAAGCATATCATG
*
51455730 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGAACATGA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAATCATGTAAGAACATGA
*
51455795 CATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTG
131 CATGGAATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTG
51455860 GTGAGTTCA
196 GTGAGTTCA
* * * *
51455869 TAAGGTAAGGATACCATGTACGACCATGTTTGGAACAT-GACATTTGGTAAGATAAGCATATCAT
1 TAAGGCAAAGATACCATGTAAGACCATGTTTGGAACATAG-CATTCGGTAAGATAAGCATATCAT
* *
51455933 GTAAGACCATGCCTAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAATCATGTAAGACCATG
65 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAATCATGTAAGAACA--
*
51455998 TGAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATG
128 T---GACATGGAATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGGCATG
51456063 GCATTGGTGAGTTCA
190 GCATTGGTGAGTTCA
* *
51456078 TAAGGCAATGATACCACGTAAGACCATGT
1 TAAGGCAAAGATACCATGTAAGACCATGT
51456107 CAAGACATGG
Statistics
Matches: 217, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
203 1 0.00
204 116 0.53
206 1 0.00
209 99 0.46
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (204 bp):
TAAGGCAAAGATACCATGTAAGACCATGTTTGGAACATAGCATTCGGTAAGATAAGCATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGAAAATCATGTAAGAACATGA
CATGGAATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTG
GTGAGTTCA
Found at i:51459111 original size:29 final size:29
Alignment explanation
Indices: 51459078--51459238 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
51459068 CCTCCGAACT
** * * *
51459078 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
51459107 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51459136 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51459165 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51459194 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51459223 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51459239 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51459140 original size:87 final size:87
Alignment explanation
Indices: 51459020--51459238 Score: 244
Period size: 87 Copynumber: 2.5 Consensus size: 87
51459010 TACTCGATTT
** * * ** * *
51459020 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATA-CCCTCCGAACTCGCAC
1 CGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATACCTCC-AACACGCAC
* * *
51459083 ACCCAGTGCCGTATTTTTCCAGCT
64 ACCCAGTGCCATATATTTCCAGCA
* ** *
51459107 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAACACGCACAC
**
51459172 TTAGTGCCATATATTTCCAGCA
66 CCAGTGCCATATATTTCCAGCA
*
51459194 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCA
51459239 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
86 4 0.04
87 104 0.94
88 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.25
Consensus pattern (87 bp):
CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAACACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:51462434 original size:29 final size:28
Alignment explanation
Indices: 51462364--51462438 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
51462354 ATACTCGATT
* *
51462364 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
51462392 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
51462421 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
51462439 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:51462455 original size:29 final size:29
Alignment explanation
Indices: 51462422--51462495 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
51462412 CCTTCGAGCT
51462422 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51462451 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51462480 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51462496 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51469880 original size:29 final size:29
Alignment explanation
Indices: 51469846--51469920 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
51469836 TACTCGATTT
*
51469846 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
51469875 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
51469904 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
51469921 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:51469937 original size:29 final size:29
Alignment explanation
Indices: 51469904--51469977 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
51469894 CCTTCGAGCT
51469904 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51469933 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51469962 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51469978 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51475003 original size:2 final size:2
Alignment explanation
Indices: 51474990--51475030 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
51474980 ACAAAATTTC
* *
51474990 AT AT AT AC AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51475031 ACTAGCTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:51476512 original size:19 final size:20
Alignment explanation
Indices: 51476470--51476514 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
51476460 TTGGGCCTTC
51476470 CCCATATTAACACAGTTGGG
1 CCCATATTAACACAGTTGGG
* *
51476490 CCCATTTTAATACAGTT-GG
1 CCCATATTAACACAGTTGGG
51476509 CCCATA
1 CCCATA
51476515 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
CCCATATTAACACAGTTGGG
Found at i:51479807 original size:42 final size:42
Alignment explanation
Indices: 51479760--51479843 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
51479750 AAGTTAATCG
51479760 ATATTGATTTTTATTAGTTAAAATACTCAATTAATAAATGGT
1 ATATTGATTTTTATTAGTTAAAATACTCAATTAATAAATGGT
51479802 ATATTGATTTTTATTAGTTAAAATACTCAATTAATAAATGGT
1 ATATTGATTTTTATTAGTTAAAATACTCAATTAATAAATGGT
51479844 TGAGGGTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (42 bp):
ATATTGATTTTTATTAGTTAAAATACTCAATTAATAAATGGT
Found at i:51481015 original size:31 final size:31
Alignment explanation
Indices: 51480966--51481049 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
51480956 TTAGTCTTGA
*
51480966 CATAT-ACTTGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
51480996 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
51481027 CATATCACTGGGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
51481050 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:51481124 original size:42 final size:42
Alignment explanation
Indices: 51481077--51481206 Score: 224
Period size: 42 Copynumber: 3.1 Consensus size: 42
51481067 CCTTGGGCCA
* *
51481077 ATTTCAATATCCCATGTAATGTCAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
* *
51481119 ATTTCAATATCACATGTAATGTCAATGAATGTATGTAGGCCC
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
51481161 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
1 ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
51481203 ATTT
1 ATTT
51481207 GGGGAGACTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (42 bp):
ATTTCAATATCACATGTAATGTCAATGAATGTATGCAAGCCC
Found at i:51481404 original size:25 final size:26
Alignment explanation
Indices: 51481353--51481421 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
51481343 CTCTTTTAAT
51481353 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* *
51481378 AATTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
51481403 AACTGGGGCAGAG-CCTTTT
1 AACTGGGGCAAAGCCCTTTT
51481422 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 6 0.15
25 29 0.74
26 4 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:51482261 original size:27 final size:27
Alignment explanation
Indices: 51482231--51482295 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
51482221 GGGCATATTC
*
51482231 GTCATTTTACCATACA-AGGGTATTACG
1 GTCATTTTACCATACAGAGGCT-TTACG
* * *
51482258 GTCACTTTACCCTATAGAGGCTTTACG
1 GTCATTTTACCATACAGAGGCTTTACG
*
51482285 GTCTTTTTACC
1 GTCATTTTACC
51482296 TATTAGGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGAGGCTTTACG
Found at i:51482379 original size:27 final size:27
Alignment explanation
Indices: 51482349--51482434 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
51482339 GTAAATCTAC
51482349 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
51482376 AAACCGATGGTATTTCTA-TAAATTTTAG-
1 AAACCAAGGGTATTTC-AGT-AATTTT-GT
** *
51482404 AAGGTCAAGGGTATTTCTGTAATTTTGT
1 AA-ACCAAGGGTATTTCAGTAATTTTGT
51482432 AAA
1 AAA
51482435 TTAGGGGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
27 16 0.36
28 17 0.38
29 12 0.27
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:51482462 original size:27 final size:27
Alignment explanation
Indices: 51482412--51482554 Score: 124
Period size: 27 Copynumber: 5.6 Consensus size: 27
51482402 AGAAGGTCAA
** *
51482412 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
51482439 GGGTATTTTGGTAATTTTACAAA-T--
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
51482463 ---TA--TCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
51482485 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
51482512 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
51482539 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
51482555 CTATCCTACA
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
19 14 0.15
21 2 0.02
25 2 0.02
26 2 0.02
27 76 0.79
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:51482566 original size:27 final size:28
Alignment explanation
Indices: 51482467--51482574 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 28
51482457 ACAAATTATC
* *
51482467 GGTAATT-TCACAAACC-AGTGGTATTTC
1 GGTAATTCT-ACAAACCAAGGGGTATTTT
* *
51482494 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTCTACAAACCAAGGGGTATTTT
*
51482521 GGTAATTTTACAAACCAA-GGGTATTTT
1 GGTAATTCTACAAACCAAGGGGTATTTT
**
51482548 GGTAATTCTATCCTA-CAAGGGGTATTT
1 GGTAATTCTA-CAAACCAAGGGGTATTT
51482575 CAGTAATTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.01
27 56 0.80
28 13 0.19
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (28 bp):
GGTAATTCTACAAACCAAGGGGTATTTT
Found at i:51482596 original size:54 final size:53
Alignment explanation
Indices: 51482468--51482597 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 53
51482458 CAAATTATCG
* * * **
51482468 GTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTCACAAACAAG-GGTATTTCGGTAATTCTACAAACAAGGGGTATTTCA
* * **
51482522 GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTATCCTACAAGGGGTATTTCA
1 GTAATTTCACAAA-CAAGGGTATTTCGGTAATTCTA-CAAACAAGGGGTATTTCA
* *
51482577 GTAATTTCACAATCGAGGGTA
1 GTAATTTCACAAACAAGGGTA
51482598 AAATGGTAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
54 35 0.56
55 27 0.44
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (53 bp):
GTAATTTCACAAACAAGGGTATTTCGGTAATTCTACAAACAAGGGGTATTTCA
Found at i:51484269 original size:57 final size:57
Alignment explanation
Indices: 51484181--51484294 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
51484171 ATACTTTACT
51484181 TTACTTTATAGCTCATACAATTAATTTAAGCCACATACTTTCTATAACACCCCGAAC
1 TTACTTTATAGCTCATACAATTAATTTAAGCCACATACTTTCTATAACACCCCGAAC
51484238 TTACTTTATAGCTCATACAATTAATTTAAGCCACATACTTTCTATAACACCCCGAAC
1 TTACTTTATAGCTCATACAATTAATTTAAGCCACATACTTTCTATAACACCCCGAAC
51484295 CCGAGACCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (57 bp):
TTACTTTATAGCTCATACAATTAATTTAAGCCACATACTTTCTATAACACCCCGAAC
Found at i:51485787 original size:40 final size:40
Alignment explanation
Indices: 51485743--51485852 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
51485733 TTCACAATTT
* *
51485743 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
51485783 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
51485823 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
51485853 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:51487820 original size:38 final size:39
Alignment explanation
Indices: 51487754--51487829 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 39
51487744 CACTGGCATT
51487754 AAGCCTGCTAGGTTTAAAACCCGGATATAATACCAGCACG
1 AAGCCTGCTAGGTTT-AAACCCGGATATAATACCAGCACG
*
51487794 AAGCCTG-TAGGATTT-AACCCGGATATAATTCCAGCA
1 AAGCCTGCTAGG-TTTAAACCCGGATATAATACCAGCA
51487830 TATAGCCTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 20 0.59
39 4 0.12
40 10 0.29
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (39 bp):
AAGCCTGCTAGGTTTAAACCCGGATATAATACCAGCACG
Found at i:51495856 original size:27 final size:28
Alignment explanation
Indices: 51495800--51495869 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
51495790 AAATTTGTAC
51495800 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
51495828 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
51495855 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51495870 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:51495880 original size:27 final size:27
Alignment explanation
Indices: 51495800--51495881 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
51495790 AAATTTGTAC
* *
51495800 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * * *
51495828 AGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
51495855 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
51495882 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:51498912 original size:38 final size:39
Alignment explanation
Indices: 51498799--51498980 Score: 226
Period size: 38 Copynumber: 4.7 Consensus size: 39
51498789 GAATCTAGTC
* * ** *
51498799 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCGGATATAAT
* *
51498839 ACCAGCACTAGGCCTGCGGGACTTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
51498878 ACCAGCACGAAGCCTGCGGGA-TTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
*
51498916 ACCAGCACGAAGCCTGCAGGA-TTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
* * *
51498954 TCCAGCA-TATAGCCTGCGGGTCTTTAA
1 ACCAGCACGA-AGCCTGCGGGACTTTAA
51498981 GCTCAGATAC
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
37 1 0.01
38 69 0.54
39 33 0.26
40 24 0.19
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
Found at i:51506288 original size:68 final size:70
Alignment explanation
Indices: 51506216--51506413 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
51506206 GCACCCTGTA
* * * *
51506216 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
51506278 ATAAAT
65 ATAAAT
*
51506284 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
51506349 GTAAAT
65 ATAAAT
* *
51506355 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTGGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
51506414 AGACAAATCG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 91 0.76
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:51506339 original size:71 final size:71
Alignment explanation
Indices: 51506250--51506413 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
51506240 GAGATGTATC
51506250 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51506315 AGGACA
66 AGGACA
*
51506321 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51506386 AGGACA
66 AGGACA
*
51506392 CCATGTGGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51506414 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51513382 original size:68 final size:70
Alignment explanation
Indices: 51513310--51513507 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
51513300 GCACCCTGTA
* * * *
51513310 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
51513372 ATAAAT
65 ATAAAT
*
51513378 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
51513443 GTAAAT
65 ATAAAT
* *
51513449 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTGGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
51513508 AGACAAATCG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 91 0.76
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:51513433 original size:71 final size:71
Alignment explanation
Indices: 51513344--51513507 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
51513334 GAGATGTATC
51513344 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51513409 AGGACA
66 AGGACA
*
51513415 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
51513480 AGGACA
66 AGGACA
*
51513486 CCATGTGGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
51513508 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:51523734 original size:28 final size:28
Alignment explanation
Indices: 51523694--51523786 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
51523684 ATGTACTAGA
*
51523694 ATACCCCTATGTATGCAGAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
51523722 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
51523750 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
51523778 ATACCCCTA
1 ATACCCCTA
51523787 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:51523950 original size:27 final size:27
Alignment explanation
Indices: 51523892--51523981 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
51523882 AGGAAATGTC
51523892 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
51523920 CTGGTGGCCCTGCCACATATATCTATT
1 CTGGTGGCACTGCCACAAATATCTGTT
51523947 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
51523976 CTGGTG
1 CTGGTG
51523982 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:51524469 original size:19 final size:19
Alignment explanation
Indices: 51524445--51524483 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
51524435 TTTTAATTAT
* *
51524445 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
51524464 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
51524483 T
1 T
51524484 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:51525094 original size:11 final size:10
Alignment explanation
Indices: 51525066--51525099 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
51525056 AGCCTGTAAG
51525066 TATTCTGAAT
1 TATTCTGAAT
*
51525076 TTTTCTGAAT
1 TATTCTGAAT
51525086 ATATTCTGAAT
1 -TATTCTGAAT
51525097 TAT
1 TAT
51525100 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:51531521 original size:40 final size:40
Alignment explanation
Indices: 51531476--51531605 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
51531466 CGGAATACAA
51531476 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
51531516 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
51531556 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
51531596 CCGGATATAA
1 CCGGATATAA
51531606 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:51534665 original size:28 final size:28
Alignment explanation
Indices: 51534625--51534716 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
51534615 ATGTACTAGA
*
51534625 ATACCCCTATGTATGCAGAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
51534653 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
51534681 ATACCCCTATGTATGCAAAATGACC-TT
1 ATACCCCTATGTATGCAAAATTACCATT
51534708 ATACCCCTA
1 ATACCCCTA
51534717 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 11 0.18
28 51 0.82
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:51534879 original size:27 final size:27
Alignment explanation
Indices: 51534821--51534910 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
51534811 AGGAAGCGTC
51534821 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
51534849 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
51534876 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
51534905 CTGGTG
1 CTGGTG
51534911 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:51534929 original size:55 final size:56
Alignment explanation
Indices: 51534821--51534935 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
51534811 AGGAAGCGTC
* *
51534821 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
51534876 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
51534932 CTGG
1 CTGG
51534936 AAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:51535398 original size:19 final size:19
Alignment explanation
Indices: 51535374--51535412 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
51535364 TTTTAATTAT
* *
51535374 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
51535393 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
51535412 T
1 T
51535413 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:51536272 original size:14 final size:14
Alignment explanation
Indices: 51536249--51536282 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51536239 ACCCATTAGG
*
51536249 ATTACCCACACATA
1 ATTACACACACATA
51536263 ATTACACACACATA
1 ATTACACACACATA
*
51536277 AATACA
1 ATTACA
51536283 GATTAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ATTACACACACATA
Found at i:51547760 original size:40 final size:40
Alignment explanation
Indices: 51547715--51547880 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
51547705 CGGAATATAA
*
51547715 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
51547755 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51547795 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51547835 CCGGATATAATTTCCAGCA-TATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51547873 CCGGATAT
1 CCGGATAT
51547881 CATTCAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 13 0.13
39 12 0.12
40 78 0.76
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51550579 original size:30 final size:28
Alignment explanation
Indices: 51550537--51550592 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 28
51550527 AGATAACAAG
*
51550537 AAAACCAAATAAAGAAATCCAAGATAGA
1 AAAACCAAATAAAGAAACCCAAGATAGA
51550565 AAAACCCAGAATAAAGAAACCCAAGATA
1 AAAA-CCA-AATAAAGAAACCCAAGATA
51550593 CGATACTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 3 0.12
30 18 0.72
ACGTcount: A:0.62, C:0.18, G:0.11, T:0.09
Consensus pattern (28 bp):
AAAACCAAATAAAGAAACCCAAGATAGA
Found at i:51550586 original size:15 final size:14
Alignment explanation
Indices: 51550534--51550588 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
51550524 TAAAGATAAC
*
51550534 AAGAAAACCAAATA
1 AAGAAACCCAAATA
*
51550548 AAGAAATCCAAGATA
1 AAGAAACCCAA-ATA
51550563 GAA-AAACCCAGAATA
1 -AAGAAACCCA-AATA
51550578 AAGAAACCCAA
1 AAGAAACCCAA
51550589 GATACGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 13 0.37
15 19 0.54
16 3 0.09
ACGTcount: A:0.64, C:0.18, G:0.11, T:0.07
Consensus pattern (14 bp):
AAGAAACCCAAATA
Found at i:51558531 original size:13 final size:13
Alignment explanation
Indices: 51558513--51558537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51558503 TCGTTTTCTC
51558513 AAAAATGAAAATA
1 AAAAATGAAAATA
51558526 AAAAATGAAAAT
1 AAAAATGAAAAT
51558538 GATTTTAAAA
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAATGAAAATA
Found at i:51561691 original size:47 final size:47
Alignment explanation
Indices: 51561614--51561791 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 47
51561604 GGGGTAAGGT
* * *
51561614 GCCGATGCCATGTCCCAGACAAGGTTTTACACAAGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGAC-ATGTCTTACACTAGCTCATATCTCGAA
* *
51561661 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCAT-ATCTCGAA
* * * ** *
51561709 GCCGAT-ACATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAA
51561755 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCA
51561792 CAATAACCCC
Statistics
Matches: 111, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
46 55 0.50
47 50 0.45
48 6 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAA
Found at i:51569099 original size:21 final size:21
Alignment explanation
Indices: 51569070--51569124 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
51569060 ACATAGGGGC
*
51569070 ACACACCCGTGTGGAAGAGCA
1 ACACGCCCGTGTGGAAGAGCA
51569091 ACACGCCCGTGTGGAAGAGCA
1 ACACGCCCGTGTGGAAGAGCA
51569112 ACACGCCCGTGTG
1 ACACGCCCGTGTG
51569125 ACTATTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.31, G:0.31, T:0.11
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGAGCA
Done.