Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 356 of 444
Found at i:103258109 original size:56 final size:56
Alignment explanation
Indices: 103258013--103258120 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
103258003 CCATGGCATC
* * * *
103258013 GATATATGTATGCGAGTAAGACCATGTTTTATACGTTGGCATCGATATGTGACTCT
1 GATATATGTATGCGAGTAAGACAATGTCTGAGACGTTGGCATCGATATGTGACTCT
* *
103258069 GATATATGTGTGCGAGTAAGACAATGTCTGGGACAG-TGGCATCGATATGTGA
1 GATATATGTATGCGAGTAAGACAATGTCTGAGAC-GTTGGCATCGATATGTGA
103258121 TTTTATGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 44 0.98
57 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (56 bp):
GATATATGTATGCGAGTAAGACAATGTCTGAGACGTTGGCATCGATATGTGACTCT
Found at i:103262097 original size:15 final size:16
Alignment explanation
Indices: 103262069--103262100 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
103262059 ATGTGGCCCG
103262069 CCCGTGTGGGCCCACA
1 CCCGTGTGGGCCCACA
103262085 CCCGTGT-GGCCCACA
1 CCCGTGTGGGCCCACA
103262100 C
1 C
103262101 GGCTTGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.12, C:0.47, G:0.28, T:0.12
Consensus pattern (16 bp):
CCCGTGTGGGCCCACA
Found at i:103266672 original size:26 final size:26
Alignment explanation
Indices: 103266643--103266756 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
103266633 AGCATGGCTG
* *
103266643 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
103266669 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
103266697 CCAGAA-AGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
103266723 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
103266750 CCAGAAC
1 CCAGAAC
103266757 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 27 0.35
27 36 0.46
28 15 0.19
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:103266701 original size:22 final size:22
Alignment explanation
Indices: 103266676--103266728 Score: 54
Period size: 26 Copynumber: 2.2 Consensus size: 22
103266666 TCACCAGATA
103266676 CAGATA-ATCGTGGCAGAGCCAC
1 CAGATATAT-GTGGCAGAGCCAC
103266698 CAGAAAGATATATGTGGCAGAGCCAC
1 C----AGATATATGTGGCAGAGCCAC
103266724 CAGAT
1 CAGAT
103266729 CAGATATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
22 5 0.19
26 19 0.73
27 2 0.08
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (22 bp):
CAGATATATGTGGCAGAGCCAC
Found at i:103266707 original size:53 final size:54
Alignment explanation
Indices: 103266643--103266756 Score: 160
Period size: 53 Copynumber: 2.1 Consensus size: 54
103266633 AGCATGGCTG
*
103266643 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
103266697 CCAGAA-AGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
103266750 CCAGAAC
1 CCAGAAC
103266757 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
53 29 0.55
54 24 0.45
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:103268423 original size:25 final size:25
Alignment explanation
Indices: 103268366--103268498 Score: 214
Period size: 25 Copynumber: 5.2 Consensus size: 25
103268356 CATGAAATTC
103268366 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
103268392 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
103268417 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
103268443 TTATCATG-AACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
103268467 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
103268493 TTATCA
1 TTATCA
103268499 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
24 9 0.09
25 56 0.54
26 38 0.37
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:103268476 original size:50 final size:51
Alignment explanation
Indices: 103268366--103268498 Score: 241
Period size: 50 Copynumber: 2.6 Consensus size: 51
103268356 CATGAAATTC
* *
103268366 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
103268417 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
103268467 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
103268499 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
50 48 0.60
51 32 0.40
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
Found at i:103272509 original size:27 final size:26
Alignment explanation
Indices: 103272472--103272586 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
103272462 AGCATGGCTG
* *
103272472 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
103272498 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
103272526 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
103272553 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
103272580 CCAGAAC
1 CCAGAAC
103272587 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:103272531 original size:54 final size:54
Alignment explanation
Indices: 103272472--103272586 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
103272462 AGCATGGCTG
*
103272472 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
103272526 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
103272580 CCAGAAC
1 CCAGAAC
103272587 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:103273013 original size:8 final size:8
Alignment explanation
Indices: 103272998--103273034 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
103272988 AAAATACCTA
103272998 CTTTTCGG
1 CTTTTCGG
*
103273006 CATTTCGG
1 CTTTTCGG
103273014 CTTTTCGG
1 CTTTTCGG
103273022 CTTTTCGG
1 CTTTTCGG
103273030 CTTTT
1 CTTTT
103273035 GCCAATCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.24, G:0.22, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:103274273 original size:25 final size:26
Alignment explanation
Indices: 103274204--103274310 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
103274194 ACATGAATTC
103274204 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
103274230 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
103274256 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
103274281 TTATCATGGAACATTTA-CTAA-CTA
1 TTATCATGAAACATTTACCTAACCCA
103274305 TTATCA
1 TTATCA
103274311 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
24 8 0.10
25 28 0.36
26 41 0.53
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:103274281 original size:51 final size:50
Alignment explanation
Indices: 103274204--103274310 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 50
103274194 ACATGAATTC
103274204 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTA-CTAA-CTA
*
103274256 TTATCATG-AACATTTACCTAACCCATTATCATGGAACATTTACTAACTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACTAACTA
103274305 TTATCA
1 TTATCA
103274311 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 9 0.17
50 4 0.07
51 33 0.61
52 8 0.15
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (50 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACTAACTA
Found at i:103275766 original size:7 final size:8
Alignment explanation
Indices: 103275754--103275780 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
103275744 GACTAAAATG
103275754 TAAAAAGT
1 TAAAAAGT
103275762 TAAAAAGT
1 TAAAAAGT
103275770 TAAAAAGT
1 TAAAAAGT
103275778 TAA
1 TAA
103275781 GGGCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (8 bp):
TAAAAAGT
Found at i:103278247 original size:10 final size:10
Alignment explanation
Indices: 103278232--103278259 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
103278222 ATTAGGGGAA
103278232 AAAGTAAAAC
1 AAAGTAAAAC
103278242 AAAGTAAAAC
1 AAAGTAAAAC
103278252 AAAGTAAA
1 AAAGTAAA
103278260 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:103284963 original size:25 final size:25
Alignment explanation
Indices: 103284934--103284981 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
103284924 TTATAATATG
* * *
103284934 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
103284959 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
103284982 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:103285084 original size:20 final size:20
Alignment explanation
Indices: 103285024--103285084 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
103285014 ATAAATATGG
*
103285024 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
103285044 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
103285064 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
103285084 T
1 T
103285085 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:103285161 original size:24 final size:24
Alignment explanation
Indices: 103285134--103285252 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
103285124 GAGGAAGTGA
*
103285134 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
103285158 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
103285181 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
103285205 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
103285229 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
103285253 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:103285203 original size:47 final size:48
Alignment explanation
Indices: 103285134--103285252 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
103285124 GAGGAAGTGA
103285134 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
103285181 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
103285229 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
103285253 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:103285504 original size:30 final size:31
Alignment explanation
Indices: 103285444--103285506 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
103285434 CGTTTACAGT
103285444 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
103285475 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
103285505 AA
1 AA
103285507 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:103291491 original size:25 final size:25
Alignment explanation
Indices: 103291462--103291509 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
103291452 TTATAATATG
* * *
103291462 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
103291487 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
103291510 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:103291612 original size:20 final size:20
Alignment explanation
Indices: 103291552--103291612 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
103291542 ATAAATATGG
*
103291552 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
103291572 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
103291592 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
103291612 T
1 T
103291613 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:103291689 original size:24 final size:24
Alignment explanation
Indices: 103291662--103291780 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
103291652 GAGGAAGTGA
*
103291662 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
103291686 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
103291709 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
103291733 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
103291757 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
103291781 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:103291731 original size:47 final size:48
Alignment explanation
Indices: 103291662--103291780 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
103291652 GAGGAAGTGA
103291662 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
103291709 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
103291757 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
103291781 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:103292007 original size:31 final size:31
Alignment explanation
Indices: 103291972--103292035 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
103291962 CGTTTACAGT
103291972 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
103292003 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
103292034 AA
1 AA
103292036 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:103292939 original size:27 final size:27
Alignment explanation
Indices: 103292896--103292976 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
103292886 AAGGGCAAAA
* *
103292896 CAGTCATTTTACCCTACAGGGGTATGTT
1 CAGTCATTTTACACTACAAGGGTAT-TT
103292924 -AGTCATTTTACACTACAAGGGTATTT
1 CAGTCATTTTACACTACAAGGGTATTT
* * *
103292950 CAGTAATTTTACAATACAAGAGTATTT
1 CAGTCATTTTACACTACAAGGGTATTT
103292977 TGATAATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
26 2 0.04
27 45 0.96
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATTT
Found at i:103292983 original size:27 final size:27
Alignment explanation
Indices: 103292928--103293258 Score: 141
Period size: 27 Copynumber: 12.4 Consensus size: 27
103292918 TATGTTAGTC
* *
103292928 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACAATACAAGAGTATTTCAGTA
*
103292955 ATTTTACAATACAAGAGTATTT-TGATA
1 ATTTTACAATACAAGAGTATTTCAG-TA
* * * *
103292982 ATTTTACAA-ATC-GGGGTTGTTTCGGTA
1 ATTTTACAATA-CAAGAG-TATTTCAGTA
* ** *
103293009 ATGTTACAA-ATTGAGGGTATTTC-GATA
1 ATTTTACAATA-CAAGAGTATTTCAG-TA
* * *
103293036 ATTTTACAA-ATCGAGGGTACTTCAGTA
1 ATTTTACAATA-CAAGAGTATTTCAGTA
* * **
103293063 ATTTTACAA-ATCGAGAGTGTTTTGGTA
1 ATTTTACAATA-CAAGAGTATTTCAGTA
* * *
103293090 ATTTTACAA-ATCGAGGGTATTTTAGTA
1 ATTTTACAATA-CAAGAGTATTTCAGTA
* * *
103293117 ATTTTACAAT-CGAGGGTATTTCGGTA
1 ATTTTACAATACAAGAGTATTTCAGTA
*
103293143 ATTTTACAA-ATCAAGGGTATTTCAGTA
1 ATTTTACAATA-CAAGAGTATTTCAGTA
* * *
103293170 ATTTTGCAA-ACTAAGGGTATTTCGGTA
1 ATTTTACAATAC-AAGAGTATTTCAGTA
** * **
103293197 ATTTTACAA-ACTGGGGTATTTTGGTA
1 ATTTTACAATACAAGAGTATTTCAGTA
** *
103293223 AAATTACAA-ATCGAG-GTATTTCAGTA
1 ATTTTACAATA-CAAGAGTATTTCAGTA
103293249 ATTTTACAAT
1 ATTTTACAAT
103293259 CGAGGGTACT
Statistics
Matches: 251, Mismatches: 40, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 65 0.26
27 181 0.72
28 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACAATACAAGAGTATTTCAGTA
Found at i:103292986 original size:54 final size:53
Alignment explanation
Indices: 103292939--103293276 Score: 324
Period size: 54 Copynumber: 6.3 Consensus size: 53
103292929 TTTTACACTA
* * * *
103292939 CAAGGGTATTTCAGTAATTTTACAATACAAGAGTATTTTGATAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAA-ACGAGGGTATTTCGGTAATTTTACAAAT
* * * * * *
103292993 C-GGGGTTGTTTCGGTAATGTTACAAATTGAGGGTATTTCGATAATTTTACAAAT
1 CAAGGG-TATTTCAGTAATTTTACAAA-CGAGGGTATTTCGGTAATTTTACAAAT
* * * * *
103293047 CGAGGGTACTTCAGTAATTTTACAAATCGAGAGTGTTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAA-CGAGGGTATTTCGGTAATTTTACAAAT
* * *
103293101 CGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAACGAGGGTATTTCGGTAATTTTACAAAT
* *
103293154 CAAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTACAAAC-GAGGGTATTTCGGTAATTTTACAAAT
** ** ** *
103293207 CTGGGGTATTTTGGTAAAATTACAAATCGA-GGTATTTCAGTAATTTTAC-AAT
1 CAAGGGTATTTCAGTAATTTTACAAA-CGAGGGTATTTCGGTAATTTTACAAAT
* * *
103293259 CGAGGGTACTTCGGTAAT
1 CAAGGGTATTTCAGTAAT
103293277 ATCTCTTTAT
Statistics
Matches: 235, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
51 2 0.01
52 31 0.13
53 71 0.30
54 128 0.54
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
CAAGGGTATTTCAGTAATTTTACAAACGAGGGTATTTCGGTAATTTTACAAAT
Found at i:103293172 original size:80 final size:80
Alignment explanation
Indices: 103292941--103293276 Score: 351
Period size: 80 Copynumber: 4.2 Consensus size: 80
103292931 TTACACTACA
* * * * *
103292941 AGGGTATTTCAGTAATTTTACAATACAAGAGTATTTTGATAATTTTACAAATCG-GGGTTGTTTC
1 AGGGTATTTCAGTAATTTTACAAT-CGAGGGTATTTCGGTAATTTTACAAATCGAGGG-TATTTC
* * *
103293005 GGTAATGTTACAAATTG
64 AGTAATTTTACAAATCG
* * * * *
103293022 AGGGTATTTC-GATAATTTTACAAATCGAGGGTACTTCAGTAATTTTACAAATCGAGAGTGTTTT
1 AGGGTATTTCAG-TAATTTTAC-AATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTC
*
103293086 GGTAATTTTACAAATCG
64 AGTAATTTTACAAATCG
* *
103293103 AGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAG
1 AGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG
* *
103293168 TAATTTTGCAAA-CTA
66 TAATTTTACAAATC-G
* * * **
103293183 AGGGTATTTCGGTAATTTTACAAACTG-GGGTATTTTGGTAAAATTACAAATCGA-GGTATTTCA
1 AGGGTATTTCAGTAATTTTACAATC-GAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
103293246 GTAATTTTAC-AATCG
65 GTAATTTTACAAATCG
* *
103293261 AGGGTACTTCGGTAAT
1 AGGGTATTTCAGTAAT
103293277 ATCTCTTTAT
Statistics
Matches: 218, Mismatches: 30, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
78 17 0.08
79 20 0.09
80 94 0.43
81 81 0.37
82 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG
TAATTTTACAAATCG
Found at i:103295770 original size:101 final size:100
Alignment explanation
Indices: 103295571--103295770 Score: 319
Period size: 101 Copynumber: 2.0 Consensus size: 100
103295561 TATTGTGAGG
* *
103295571 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
*
103295636 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* ** *
103295671 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATGTGTAGTAC
*
103295736 TAAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
65 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCG
103295771 GCTACAAGTG
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 43 0.47
101 48 0.53
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:103299070 original size:29 final size:29
Alignment explanation
Indices: 103299036--103299196 Score: 186
Period size: 29 Copynumber: 5.6 Consensus size: 29
103299026 TAATCGATCA
*
103299036 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
103299065 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
103299094 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
103299123 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
103299152 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
103299181 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
103299197 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 110 0.93
31 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:103307040 original size:29 final size:29
Alignment explanation
Indices: 103307006--103307166 Score: 186
Period size: 29 Copynumber: 5.6 Consensus size: 29
103306996 TAATCGATCA
*
103307006 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
103307035 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
103307064 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
103307093 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
103307122 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
103307151 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
103307167 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 110 0.93
31 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:103319470 original size:27 final size:27
Alignment explanation
Indices: 103319440--103319727 Score: 310
Period size: 27 Copynumber: 10.7 Consensus size: 27
103319430 TTAGTTTACC
103319440 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
103319467 AAATTACCAAAATACCCTTGGTTT-TCA
1 AAATTACCAAAATACCCTTGGTTTGT-A
* *
103319494 AAATTACCCAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * *
103319521 AAATTACTAAAATACTCTTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
103319548 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
103319575 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
103319602 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** *
103319629 AAATTACCAAAATA-CCTCTAATTTGTG
1 AAATTACCAAAATACCCT-TGGTTTGTA
** *****
103319656 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * **
103319683 AAATAACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
103319710 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
103319728 CAATTTACAG
Statistics
Matches: 221, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.01
27 214 0.97
28 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:103319752 original size:27 final size:27
Alignment explanation
Indices: 103319722--103319975 Score: 312
Period size: 27 Copynumber: 9.4 Consensus size: 27
103319712 ATTACCAAAG
* * *
103319722 TACCCTCAATTTACAGAATCACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
103319749 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * **
103319776 TACCTTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
103319803 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
**
103319830 TACCCTTAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
103319857 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * **
103319884 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
103319911 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
103319938 TACCCTC-AGTTTATAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
103319965 TACCCTCGATT
1 TACCCTCGATT
103319976 GTGAAATTAC
Statistics
Matches: 197, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 195 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:103319796 original size:81 final size:81
Alignment explanation
Indices: 103319722--103319975 Score: 348
Period size: 81 Copynumber: 3.1 Consensus size: 81
103319712 ATTACCAAAG
* * * *
103319722 TACCCTCAATTTACAGAATCACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCTTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
*
103319787 TACAGAATTACTATTT
66 TACAGAATTACCATTT
* * *
103319803 TACCCTCGATTTACAAAATTATCGTTTTACCCTTAATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
*
103319868 TATAGAATTACCATTT
66 TACAGAATTACCATTT
* ** *
103319884 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCTC-AGT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGA-T
* * *
103319948 TTATAAAATTACCGTTT
65 TTACAGAATTACCATTT
103319965 TACCCTCGATT
1 TACCCTCGATT
103319976 GTGAAATTAC
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 1 0.01
81 153 0.99
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:103320101 original size:81 final size:81
Alignment explanation
Indices: 103320007--103320156 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
103319997 TATAGGATAG
* * * **
103320007 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTATC-GAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATT-TCAGAA
103320071 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
*
103320088 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTTCAGAAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTTCAGAAA
103320153 TACC
66 TACC
103320157 CTTGACTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 2 0.03
81 60 0.97
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTTCAGAAA
TACCACTGGTTTGTGA
Found at i:103320145 original size:27 final size:27
Alignment explanation
Indices: 103320007--103320130 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
103319997 TATAGGATAG
103320007 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
103320034 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * * *
103320061 AATTATCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
* *
103320088 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
103320115 AATTACCAAAATACCC
1 AATTACCAAAATACCC
103320131 CTAATTTACA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:103320145 original size:54 final size:54
Alignment explanation
Indices: 103320007--103320159 Score: 189
Period size: 54 Copynumber: 2.8 Consensus size: 54
103319997 TATAGGATAG
* * *
103320007 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAA
* * * * *
103320061 AATTATCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAA
* ** * *
103320115 AATTACCAAAATACCCCTAATTTACAAAATTTCAGAAATACCCTT
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTT
103320160 GACTTTTTTT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAA
Found at i:103320153 original size:27 final size:28
Alignment explanation
Indices: 103320007--103320157 Score: 89
Period size: 27 Copynumber: 5.6 Consensus size: 28
103319997 TATAGGATAG
* * **
103320007 AATTACCA-AAATACCCTTAGTTTGTAA
1 AATTACCAGAAATACCCCTAATTTACAA
* * **
103320034 AATTACCA-AAATACCCTTAGTTTGTAA
1 AATTACCAGAAATACCCCTAATTTACAA
* * ** ***
103320061 AATTATC-GAAATACCACTGGTTTGTGA
1 AATTACCAGAAATACCCCTAATTTACAA
* **
103320088 AATTACC-GAAATACCCTTAATTTGTAA
1 AATTACCAGAAATACCCCTAATTTACAA
103320115 AATTACCA-AAATACCCCTAATTTACAA
1 AATTACCAGAAATACCCCTAATTTACAA
*
103320142 AATT-TCAGAAATACCC
1 AATTACCAGAAATACCC
103320158 TTGACTTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.02
27 104 0.98
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (28 bp):
AATTACCAGAAATACCCCTAATTTACAA
Found at i:103320206 original size:28 final size:27
Alignment explanation
Indices: 103320167--103320224 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
103320157 CTTGACTTTT
*
103320167 TTTTAAAAATTA-TAGGAATACCATTGG
1 TTTTAAAAATTACT-GAAATACCATTGG
*
103320194 TTTTACAAAATTACTGAAATACCCTTGG
1 TTTTA-AAAATTACTGAAATACCATTGG
103320222 TTT
1 TTT
103320225 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 5 0.19
28 21 0.78
29 1 0.04
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
TTTTAAAAATTACTGAAATACCATTGG
Found at i:103320299 original size:27 final size:27
Alignment explanation
Indices: 103320269--103320320 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
103320259 GACTAAAATA
103320269 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
103320296 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
103320321 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:103321188 original size:25 final size:25
Alignment explanation
Indices: 103321150--103321219 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
103321140 AGGAAGTGCT
* *
103321150 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
103321175 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
103321200 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
103321220 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:103321232 original size:24 final size:24
Alignment explanation
Indices: 103321149--103321244 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
103321139 GAGGAAGTGC
*
103321149 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
103321174 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
103321198 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
103321222 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
103321245 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:103321477 original size:31 final size:31
Alignment explanation
Indices: 103321439--103321521 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
103321429 CGCTTACAGT
*
103321439 AAAGGCTTTGACCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
*
103321470 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
*
103321501 GAAGGC-TTGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
103321522 TCGAGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.10
30 9 0.19
31 34 0.71
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGATTTATGA
Found at i:103328798 original size:44 final size:44
Alignment explanation
Indices: 103328731--103328819 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
103328721 CTTCTGAGAT
*
103328731 GTTTTGTTTTATAATTATAAACTAAACCCCCTAAATACCTAAGG
1 GTTTTCTTTTATAATTATAAACTAAACCCCCTAAATACCTAAGG
*
103328775 GTTTTCTTTTATAATTATGAACTAAACCCCCTAAATACCTAAGG
1 GTTTTCTTTTATAATTATAAACTAAACCCCCTAAATACCTAAGG
103328819 G
1 G
103328820 GAATGAAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (44 bp):
GTTTTCTTTTATAATTATAAACTAAACCCCCTAAATACCTAAGG
Found at i:103337243 original size:12 final size:13
Alignment explanation
Indices: 103337207--103337244 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
103337197 AAATATTTGA
103337207 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
103337220 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
103337234 CTTG-TCTTAAT
1 CTTGTTCTTAAT
103337245 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:103340362 original size:18 final size:19
Alignment explanation
Indices: 103340339--103340374 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
103340329 TAGTCTAAAT
*
103340339 TTAAATCTCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
103340357 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
103340375 AAATTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:103340752 original size:19 final size:20
Alignment explanation
Indices: 103340725--103340762 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
103340715 ATACTTACTT
103340725 AAATAATAAGTAAATATATA
1 AAATAATAAGTAAATATATA
* *
103340745 AAAT-ATAATTTAATATAT
1 AAATAATAAGTAAATATAT
103340763 GAATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATAATAAGTAAATATATA
Found at i:103341159 original size:12 final size:12
Alignment explanation
Indices: 103341142--103341168 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
103341132 GTACCTATAG
103341142 TAGATTTTTCAC
1 TAGATTTTTCAC
103341154 TAGATTTTTCAC
1 TAGATTTTTCAC
103341166 TAG
1 TAG
103341169 GGTCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (12 bp):
TAGATTTTTCAC
Found at i:103344431 original size:27 final size:27
Alignment explanation
Indices: 103344038--103344415 Score: 494
Period size: 27 Copynumber: 14.0 Consensus size: 27
103344028 CCAAATTGAT
* *
103344038 AAATGACTATTTTTCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
*
103344065 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
*
103344092 AAATGACTATTTTTCCCTTATATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* *
103344119 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
103344146 AAATGACTATTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
103344173 AAATGACTATTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* * * *
103344200 GAATGACTGTTTTGCCTTTATGTGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* *
103344227 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* *
103344254 AAATGACTATTTTACCTTTATATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
* * * * *
103344281 AAACGTCTGTTTTGCCTTTATAAGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
*
103344308 AAATGACTATTTTGCCCTTCTGA-GGTA
1 AAATGACTATTTTGCCCTTAT-ATGGTA
*
103344335 AAATGATTGA-TTTGCCCTTATGA-GGTA
1 AAATGACT-ATTTTGCCCTTAT-ATGGTA
* *
103344362 AAATAACTATTTTGCCCTTATGT-GTA
1 AAATGACTATTTTGCCCTTATATGGTA
103344388 AAATGACTATTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCCCTTATATGGTA
103344415 A
1 A
103344416 GATAACTGAT
Statistics
Matches: 309, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
26 25 0.08
27 282 0.91
28 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATATGGTA
Found at i:103346339 original size:48 final size:48
Alignment explanation
Indices: 103346261--103346358 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
103346251 TTGTATGAGT
* ** *
103346261 TGATATAGATCCCTAGGAAAATTGATTAGCTTGAGAAAAGGACGAAAA
1 TGATATAGATCCCTAGAAAAATCAAATAGCTTGAGAAAAGGACGAAAA
*
103346309 TGATATAGATCCCTAGAAAAATCAAATAGCTTGAGAAAAGGATGAAAA
1 TGATATAGATCCCTAGAAAAATCAAATAGCTTGAGAAAAGGACGAAAA
103346357 TG
1 TG
103346359 CTTAGATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (48 bp):
TGATATAGATCCCTAGAAAAATCAAATAGCTTGAGAAAAGGACGAAAA
Found at i:103346778 original size:41 final size:41
Alignment explanation
Indices: 103346677--103346910 Score: 175
Period size: 41 Copynumber: 6.0 Consensus size: 41
103346667 AGAAAAAAGA
* * * *
103346677 TGAATTGCAATTACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * *
103346718 TGAATTACACTTCCATGCCCCTGTTTGTACTTTGATACCCT
1 TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* *
103346759 TGAATTACACTTATGTGCCCC------TA-TT-TGTA---T
1 TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* *
103346789 TGAATTACATTTACGTTCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * ** * * *
103346830 TAAATTTCACTTGTGTGCCTCTATTTGTACTTCGGTACCCC
1 TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
103346871 TAAATTACACATATGTGCCCCTGTTTGTACTACAGTACCC
1 TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCC
103346911 CTAGATGTAC
Statistics
Matches: 149, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
30 19 0.13
33 2 0.01
34 2 0.01
35 2 0.01
36 2 0.01
37 2 0.01
38 3 0.02
41 117 0.79
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (41 bp):
TGAATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:103346794 original size:30 final size:30
Alignment explanation
Indices: 103346758--103346817 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
103346748 TTTGATACCC
*
103346758 TTGAATTACACTTATGTGCCCCTATTTGTA
1 TTGAATTACACTTACGTGCCCCTATTTGTA
* * *
103346788 TTGAATTACATTTACGTTCCCCTGTTTGTA
1 TTGAATTACACTTACGTGCCCCTATTTGTA
103346818 CTTCGGTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (30 bp):
TTGAATTACACTTACGTGCCCCTATTTGTA
Found at i:103346857 original size:112 final size:112
Alignment explanation
Indices: 103346677--103346899 Score: 284
Period size: 112 Copynumber: 2.0 Consensus size: 112
103346667 AGAAAAAAGA
* * * *
103346677 TGAATTGCAATTACGTGCCCTTGTTTGTACTTCGGTACCCCTGAATTACACTTCCATGCCCCTGT
1 TGAATTACAATTACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATTACACTTCCATGCCCCTAT
* * * *
103346742 TTGTACTTTGATACCCTTGAATTACACTTATGTGCCCCTATTTGTAT
66 TTGTACTTCGATACCCCTAAATTACACATATGTGCCCCTATTTGTAT
* * * * *** *
103346789 TGAATTACATTTACGTTCCCCTGTTTGTACTTCGGTACCCTTAAATTTCACTTGTGTGCCTCTAT
1 TGAATTACAATTACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATTACACTTCCATGCCCCTAT
* *
103346854 TTGTACTTCGGTACCCCTAAATTACACATATGTGCCCCTGTTTGTA
66 TTGTACTTCGATACCCCTAAATTACACATATGTGCCCCTATTTGTA
103346900 CTACAGTACC
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
112 93 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (112 bp):
TGAATTACAATTACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATTACACTTCCATGCCCCTAT
TTGTACTTCGATACCCCTAAATTACACATATGTGCCCCTATTTGTAT
Found at i:103353326 original size:23 final size:23
Alignment explanation
Indices: 103353296--103353340 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
103353286 CACGAATGTG
103353296 TCGCCAGGCTATGTAACAACCTC
1 TCGCCAGGCTATGTAACAACCTC
*
103353319 TCGCCAGGCTGTGTAACAACCT
1 TCGCCAGGCTATGTAACAACCT
103353341 GTGACCACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (23 bp):
TCGCCAGGCTATGTAACAACCTC
Found at i:103354928 original size:15 final size:17
Alignment explanation
Indices: 103354904--103354937 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
103354894 GCTAGGGACT
103354904 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
103354920 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
103354936 AA
1 AA
103354938 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:103356598 original size:31 final size:31
Alignment explanation
Indices: 103356560--103356659 Score: 146
Period size: 31 Copynumber: 3.2 Consensus size: 31
103356550 AATCAAAATG
103356560 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
103356591 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
103356622 AGAATCAGGATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
103356653 AAAATCA
1 AGAATCA
103356660 AAATGTGAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:103356626 original size:6 final size:6
Alignment explanation
Indices: 103356548--103356607 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
103356538 TATCATAACT
* * *
103356548 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
103356597 AGAATC AGAAT
1 AGAATC AGAAT
103356608 TAGGTGACAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 1 0.02
6 40 0.89
7 3 0.07
8 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:103356845 original size:2 final size:2
Alignment explanation
Indices: 103356838--103356869 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
103356828 ACCAGAACAG
103356838 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
103356870 GTGTGTGGCG
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:103356954 original size:27 final size:26
Alignment explanation
Indices: 103356906--103356957 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
103356896 GCGAGGCTGC
*
103356906 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
103356932 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
103356958 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:103357223 original size:27 final size:27
Alignment explanation
Indices: 103357193--103357602 Score: 480
Period size: 27 Copynumber: 15.2 Consensus size: 27
103357183 AACACCCTAG
*
103357193 GGGTAAAATGGTAATAT-TATAAATCGA
1 GGGTAAAACGGTAAT-TCTATAAATCGA
* *
103357220 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
103357247 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* ** * *
103357274 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
103357301 GGGTAAAACGATAATTCTGTAAATTGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
103357328 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
103357355 GGGTAAAACGATAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
**
103357382 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
**
103357409 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * * *
103357436 GGGTAAAACGATAATTTTGTAAGTCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
103357463 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
103357490 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
103357517 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
103357544 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
103357571 GGGTAAAACGATAATTCTATAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
103357598 GGGTA
1 GGGTA
103357603 CTTTGGTAAT
Statistics
Matches: 334, Mismatches: 48, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 333 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:103357260 original size:54 final size:54
Alignment explanation
Indices: 103357193--103357629 Score: 547
Period size: 54 Copynumber: 8.1 Consensus size: 54
103357183 AACACCCTAG
* * *
103357193 GGGTAAAATGGTAATAT-TATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGATAAT-TCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* * *
103357247 GGGTAAAACGGTAATTCTATAAATCGAGGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* * ** *
103357301 GGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* * * *
103357355 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* * * *
103357409 GGGTAAAA-TAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAGTCGA
1 GGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* *
103357463 GGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* * *
103357517 GGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
* *** ** *
103357571 GGGTAAAACGATAATTCTATAAATCAAGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
103357625 GGGTA
1 GGGTA
103357630 TTTCAGTAAT
Statistics
Matches: 340, Mismatches: 38, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
53 3 0.01
54 335 0.99
55 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
Found at i:103357612 original size:27 final size:27
Alignment explanation
Indices: 103357582--103357748 Score: 169
Period size: 27 Copynumber: 6.2 Consensus size: 27
103357572 GGTAAAACGA
* * *
103357582 TAATTCTATAAATCAAGGGTACTTTGG
1 TAATTTTACAAATCAAGGGTATTTTGG
* * **
103357609 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCAAGGGTATTTTGG
*
103357636 TAATTTCACAAATC-AGAGGTATTTTGG
1 TAATTTTACAAATCAAG-GGTATTTTGG
* *
103357663 TAATTTTACAAA-CTATGGGTATTTTTG
1 TAATTTTACAAATC-AAGGGTATTTTGG
*
103357690 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AAGGGTATTTTGG
* *
103357717 TAATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTTGG
103357744 TAATT
1 TAATT
103357749 CTACCTTACA
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 113 0.96
28 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATCAAGGGTATTTTGG
Found at i:103357667 original size:81 final size:81
Alignment explanation
Indices: 103357582--103357752 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
103357572 GGTAAAACGA
* *
103357582 TAATTCTATAAA-TCAAGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAGTAATTTCAC
1 TAATTCTACAAACT-AAGGGTACTTTGGTAATTTTACAA-ACGAGGGGTATTTCAGTAATTTCAC
*
103357645 AAATC-AGAGGTATTTTGG
64 AAACCAAG-GGTATTTTGG
* * * * * ** * *
103357663 TAATTTTACAAACTATGGGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAA
1 TAATTCTACAAACTAAGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTCAGTAATTTCACAA
103357728 ACCAAGGGTATTTTGG
66 ACCAAGGGTATTTTGG
103357744 TAATTCTAC
1 TAATTCTAC
103357753 CTTACAAGGG
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 2 0.03
81 69 0.93
82 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (81 bp):
TAATTCTACAAACTAAGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTCAGTAATTTCACAA
ACCAAGGGTATTTTGG
Found at i:103357760 original size:27 final size:27
Alignment explanation
Indices: 103357730--103357812 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
103357720 TTTTATAAAC
** *
103357730 CAAGGGTATTTTGGTAATTCTACCTTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
103357757 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
103357784 CAAGGGTATTTCAGTAATTTTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
103357811 CA
1 CA
103357813 GATATGAGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:103359722 original size:6 final size:6
Alignment explanation
Indices: 103359699--103359764 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
103359689 TATCAAAACT
* * * *
103359699 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
103359748 AGAATC AGAATT AGAAT
1 AGAATC AGAATC AGAAT
103359765 TAGGTGACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
5 1 0.02
6 43 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:103359740 original size:37 final size:36
Alignment explanation
Indices: 103359699--103359820 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 36
103359689 TATCAAAACT
*
103359699 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGT-AC
* * * *
103359736 AGAATTAGAATCAGAATCAGAATTAGAATTAGGT--
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAC
* *
103359770 -G-A-CAAAATTAGAATTAGAATCA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGA-ATCAGGT-AC
103359804 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
103359821 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
30 1 0.02
31 21 0.32
32 1 0.02
33 1 0.02
35 1 0.02
36 1 0.02
37 40 0.61
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (36 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAC
Found at i:103359749 original size:31 final size:31
Alignment explanation
Indices: 103359711--103359820 Score: 96
Period size: 31 Copynumber: 3.4 Consensus size: 31
103359701 AATCAAAATG
103359711 AGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
* *
103359742 AGAATCAGAATCAGAATTAGAATTAGGTGACAAAATT
1 AGAATCAGAATC------AGAATCAGGTGACAGAATT
* * *
103359779 AGAATTAGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGGTGACAGAATT
*
103359810 AAAATCAGAAT
1 AGAATCAGAAT
103359821 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
30 1 0.02
31 34 0.54
37 28 0.44
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:103360360 original size:27 final size:27
Alignment explanation
Indices: 103360330--103360684 Score: 404
Period size: 27 Copynumber: 13.1 Consensus size: 27
103360320 AACATCCTAG
* * *
103360330 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
103360357 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
103360384 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
103360411 GGGTAAAACTGTAATTCTGTAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* ** *
103360438 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
103360465 GGGTAAAACGATAATTCTGTAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
103360492 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * **
103360519 GGGTAAAACGATAATTTTGTAAATTAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
103360546 AGGTAAAACAGTAATTCTTTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
103360573 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * * *
103360600 AGGTAAAACGATAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
**
103360627 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
103360654 GGGTAAAATGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
103360681 GGGT
1 GGGT
103360685 TCTTTGGTTA
Statistics
Matches: 276, Mismatches: 52, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 276 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:103360724 original size:27 final size:26
Alignment explanation
Indices: 103360694--103360834 Score: 95
Period size: 27 Copynumber: 5.2 Consensus size: 26
103360684 TTCTTTGGTT
*
103360694 ATTTTACAAGTCGAGGGTATTTCAATA
1 ATTTTACAAGTC-AGGGTATTTCAGTA
* *
103360721 ATTTTACAGGTCAAAGGTATTTCAGTA
1 ATTTTACAAGTC-AGGGTATTTCAGTA
* * **
103360748 ATTTCACAAATCAGAGGTATTTTGGTA
1 ATTTTACAAGTCAG-GGTATTTCAGTA
* **
103360775 ATTTTACAA-ACTAGGGGTATTTTGGTA
1 ATTTTACAAGTC-A-GGGTATTTCAGTA
** **
103360802 ATTTTACAAACCAGGGGTATTTTGGTA
1 ATTTTACAAGTCA-GGGTATTTCAGTA
103360829 ATTTTA
1 ATTTTA
103360835 TAAACCAAAG
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.02
27 93 0.96
28 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
ATTTTACAAGTCAGGGTATTTCAGTA
Found at i:103360839 original size:27 final size:27
Alignment explanation
Indices: 103360735--103360858 Score: 167
Period size: 27 Copynumber: 4.6 Consensus size: 27
103360725 TACAGGTCAA
** * *
103360735 AGGTATTTCAGTAATTTCACAAATCAG
1 AGGTATTTTGGTAATTTTACAAACCAG
*
103360762 AGGTATTTTGGTAATTTTACAAACTAG
1 AGGTATTTTGGTAATTTTACAAACCAG
*
103360789 GGGTATTTTGGTAATTTTACAAACCAG
1 AGGTATTTTGGTAATTTTACAAACCAG
* * *
103360816 GGGTATTTTGGTAATTTTATAAACCAA
1 AGGTATTTTGGTAATTTTACAAACCAG
103360843 AGGTATTTTGGTAATT
1 AGGTATTTTGGTAATT
103360859 CTACCCTACA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGTATTTTGGTAATTTTACAAACCAG
Found at i:103360909 original size:27 final size:27
Alignment explanation
Indices: 103360844--103360922 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
103360834 ATAAACCAAA
* *
103360844 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTTAGTAATTCTACCCTACAAG
** *
103360871 GGCGTTTTAGTAATTCTACCTTACAAG
1 GGTATTTTAGTAATTCTACCCTACAAG
* * *
103360898 GGTATTTCAGTAATGCTAGCCTACA
1 GGTATTTTAGTAATTCTACCCTACA
103360923 GATATGAGAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTTAGTAATTCTACCCTACAAG
Found at i:103360911 original size:81 final size:81
Alignment explanation
Indices: 103360736--103360911 Score: 176
Period size: 81 Copynumber: 2.2 Consensus size: 81
103360726 ACAGGTCAAA
* * * * *
103360736 GGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCAGTAATTTCACAAACCAAAGGTATTTTGGTAATTCTACAAACTAGGGGCATTTTAGT
* *
103360801 AATTTTACAAACCAGG
66 AATTCTACAAACCAAG
** * * ** *
103360817 GGTATTTTGGTAATTTTATAAACCAAAGGTATTTTGGTAATTCTACCCTAC-AGGGGCGTTTTAG
1 GGTATTTCAGTAATTTCACAAACCAAAGGTATTTTGGTAATTCTA-CAAACTAGGGGCATTTTAG
**
103360881 TAATTCTACCTTA-CAAG
65 TAATTCTA-CAAACCAAG
103360898 GGTATTTCAGTAAT
1 GGTATTTCAGTAAT
103360912 GCTAGCCTAC
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
81 70 0.93
82 5 0.07
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (81 bp):
GGTATTTCAGTAATTTCACAAACCAAAGGTATTTTGGTAATTCTACAAACTAGGGGCATTTTAGT
AATTCTACAAACCAAG
Found at i:103365111 original size:16 final size:16
Alignment explanation
Indices: 103365090--103365121 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
103365080 TATGTAATGC
103365090 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
*
103365106 CCCAAAAATTCTGAAA
1 CCCAAAAATCCTGAAA
103365122 TCCAGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCCAAAAATCCTGAAA
Found at i:103366674 original size:29 final size:29
Alignment explanation
Indices: 103366632--103366738 Score: 146
Period size: 29 Copynumber: 3.7 Consensus size: 29
103366622 ATAATATGAT
*
103366632 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
103366661 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
103366690 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
103366718 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAGTGGGCCATATG
103366739 CATATATGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.29
29 48 0.71
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:103366714 original size:58 final size:57
Alignment explanation
Indices: 103366624--103366736 Score: 174
Period size: 58 Copynumber: 2.0 Consensus size: 57
103366614 GCATGAGTAT
** *
103366624 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCTAATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
103366682 AATATGAACTGGGCC-AGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCTA-ATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
103366737 TGCATATATG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 21 0.41
58 30 0.59
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:103368233 original size:37 final size:37
Alignment explanation
Indices: 103368155--103368239 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
103368145 TATGAGTTTG
* **
103368155 TGTAAGACCATAGCTAGGCTATGGGATCATAATGATG
1 TGTAAGACCATAGCTAGGCTATGGGATCATAATCACA
* * * * *
103368192 TGTAAGACCATAGCTGGGCTATGGTATTATGATCCCA
1 TGTAAGACCATAGCTAGGCTATGGGATCATAATCACA
103368229 TGTAAGACCAT
1 TGTAAGACCAT
103368240 GTCTGGGACA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (37 bp):
TGTAAGACCATAGCTAGGCTATGGGATCATAATCACA
Found at i:103368292 original size:48 final size:48
Alignment explanation
Indices: 103368221--103368399 Score: 304
Period size: 48 Copynumber: 3.7 Consensus size: 48
103368211 TATGGTATTA
103368221 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * *
103368269 TGATCCCATGTAAGACTATGTCTGCGATATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* **
103368317 TGATCCCATGTAAGACCATGTTTGGGACATGAAATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
103368365 TGATCCCATGTAAGACCATGTCTGGGACATGGCAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCAT
103368400 CGATATGAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:103372909 original size:26 final size:27
Alignment explanation
Indices: 103372871--103372929 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
103372861 TGTAGGGTAG
*
103372871 AATTACTGAAATACCCTTAGTTTACAA
1 AATTACTGAAATACCATTAGTTTACAA
*
103372898 AATTACTG-AATACCATTGGTTTACAA
1 AATTACTGAAATACCATTAGTTTACAA
103372924 AATTAC
1 AATTAC
103372930 CAAATTACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (27 bp):
AATTACTGAAATACCATTAGTTTACAA
Found at i:103373141 original size:80 final size:82
Alignment explanation
Indices: 103372871--103373239 Score: 262
Period size: 80 Copynumber: 4.6 Consensus size: 82
103372861 TGTAGGGTAG
* * ** * * *
103372871 AATTACTGAAATACCCTT-AGTTTACAAAATTA-CTGAATACCATTGGTTTACAAAATTACCAAA
1 AATTACTAAAATACCCTTGA-TTTGCAAAATTATCAAAATACCCTTGATTTACAAAATTACAAAA
* *
103372934 TTA-CCCTCGA-TTAGC-AA
65 ATACCCCT-GACTT-TCAAA
* * * * * * ***
103372951 AATTACCAAAATGCCCCTGGTTCGTAAAATTA-CAAAAATA-CCTCTGATTTGTTAAATTACAAA
1 AATTACTAAAATACCCTTGATTTGCAAAATTATC-AAAATACCCT-TGATTTACAAAATTACAAA
*
103373014 AATA-CCCTCGACCTGT--AA
64 AATACCCCT-GA-CTTTCAAA
** * * **
103373032 AATTACTAAAATACCCTTGACGTGTAAAATTATCAAAATGCCCTTGATTTTTAAAATTATC-AAA
1 AATTACTAAAATACCCTTGATTTGCAAAATTATCAAAATACCCTTGATTTACAAAATTA-CAAAA
**
103373096 ATACCCCTGA-TTT-GGA
65 ATACCCCTGACTTTCAAA
* *
103373112 AATTACTAAAATACCCTTGATTTGGAAAATTAT-AGAAATACCCCTGATTTACAAAATTACAAAA
1 AATTACTAAAATACCCTTGATTTGCAAAATTATCA-AAATACCCTTGATTTACAAAATTACAAAA
*
103373176 ATACCCTTGACTTTCAAA
65 ATACCCCTGACTTTCAAA
* * *
103373194 AATTACAAAAATACCATTGGTTTGCAAAATTATCAAAATACCCTTG
1 AATTACTAAAATACCCTTGATTTGCAAAATTATCAAAATACCCTTG
103373240 GTTTGTAGAT
Statistics
Matches: 228, Mismatches: 46, Indels: 28
0.75 0.15 0.09
Matches are distributed among these distances:
79 4 0.02
80 89 0.39
81 84 0.37
82 49 0.21
83 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (82 bp):
AATTACTAAAATACCCTTGATTTGCAAAATTATCAAAATACCCTTGATTTACAAAATTACAAAAA
TACCCCTGACTTTCAAA
Found at i:103373221 original size:28 final size:27
Alignment explanation
Indices: 103372879--103373244 Score: 253
Period size: 27 Copynumber: 13.6 Consensus size: 27
103372869 AGAATTACTG
* *
103372879 AAATACCCTT-AGTTTACAAAATTAC-T
1 AAATACCCTTGA-TTTGCAAAATTACAA
* * * * *
103372905 GAATACCATTGGTTTACAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACAA
* * * *
103372932 AATTACCCTCGATTAGCAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACAA
* * * * *
103372959 AAATGCCCCTGGTTCGTAAAATTACAA
1 AAATACCCTTGATTTGCAAAATTACAA
**
103372986 AAATA-CCTCTGATTTGTTAAATTACAA
1 AAATACCCT-TGATTTGCAAAATTACAA
* ** * *
103373013 AAATACCCTCGACCTGTAAAATTACTA
1 AAATACCCTTGATTTGCAAAATTACAA
** *
103373040 AAATACCCTTGACGTGTAAAATTATC-A
1 AAATACCCTTGATTTGCAAAATTA-CAA
* **
103373067 AAATGCCCTTGATTTTTAAAATTATC-A
1 AAATACCCTTGATTTGCAAAATTA-CAA
* * *
103373094 AAATACCCCTGATTTG-GAAATTACTA
1 AAATACCCTTGATTTGCAAAATTACAA
* * *
103373120 AAATACCCTTGATTTGGAAAATTATAG
1 AAATACCCTTGATTTGCAAAATTACAA
* *
103373147 AAATACCCCTGATTTACAAAATTACAA
1 AAATACCCTTGATTTGCAAAATTACAA
103373174 AAATACCCTTGACTTT-CAAAAATTACAA
1 AAATACCCTTGA-TTTGC-AAAATTACAA
* *
103373202 AAATACCATTGGTTTGCAAAATTATC-A
1 AAATACCCTTGATTTGCAAAATTA-CAA
*
103373229 AAATACCCTTGGTTTG
1 AAATACCCTTGATTTG
103373245 TAGATTTACC
Statistics
Matches: 276, Mismatches: 53, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 45 0.16
27 201 0.73
28 29 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGCAAAATTACAA
Found at i:103376555 original size:37 final size:37
Alignment explanation
Indices: 103376492--103376600 Score: 175
Period size: 37 Copynumber: 2.9 Consensus size: 37
103376482 AGCTCAGACG
*
103376492 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
*
103376529 AAATCTCCACACATAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
*
103376566 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
103376601 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 1 0.01
37 66 0.99
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:103376872 original size:48 final size:48
Alignment explanation
Indices: 103376746--103376930 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
103376736 GCACATCGCC
*
103376746 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
103376796 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
103376844 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
103376892 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
103376931 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:103376935 original size:98 final size:97
Alignment explanation
Indices: 103376746--103376929 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
103376736 GCACATCGCC
*
103376746 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
103376811 GACCATTCAGCTTTACCACATATGCATATCTCA
65 GACCATTCAGCTTTACCACATATGCATATCTCA
* *
103376844 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
*
103376907 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCAGCTTTACCACATAT
103376930 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.43
98 45 0.56
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:103376979 original size:47 final size:47
Alignment explanation
Indices: 103376900--103377093 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
103376890 CATACATATT
* * * *
103376900 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
103376947 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
103376994 TCACATTGGCCATTCGGCCCTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
103377041 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
103377088 TCACAT
1 TCACAT
103377094 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:103377094 original size:25 final size:25
Alignment explanation
Indices: 103377015--103377094 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
103377005 ATTCGGCCCT
**
103377015 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
103377040 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
103377062 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
103377087 ATCACATA
1 ATCACATA
103377095 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:103395803 original size:16 final size:16
Alignment explanation
Indices: 103395782--103395813 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
103395772 CTCCACTGGG
103395782 AAAGGTTCTCCGCGCC
1 AAAGGTTCTCCGCGCC
103395798 AAAGGTTCTCCGCGCC
1 AAAGGTTCTCCGCGCC
103395814 TGCCATGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.19
Consensus pattern (16 bp):
AAAGGTTCTCCGCGCC
Found at i:103406796 original size:48 final size:48
Alignment explanation
Indices: 103406732--103406857 Score: 189
Period size: 48 Copynumber: 2.6 Consensus size: 48
103406722 CAAGGTAAAT
* * *
103406732 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
103406780 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
103406828 AGATGTATATTTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
103406858 TGTGCAATAC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
Found at i:103407065 original size:37 final size:37
Alignment explanation
Indices: 103407015--103407095 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
103407005 GGAAATATAT
* *
103407015 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
*
103407052 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
103407089 TCCGGGT
1 TCCGGGT
103407096 TAAAACCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
Found at i:103409785 original size:43 final size:43
Alignment explanation
Indices: 103409732--103409823 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
103409722 GTTCGCGATT
*
103409732 TATCGGACCGTACGAGATCATTGAAAGAGTTGGACCATTAGCC
1 TATCGCACCGTACGAGATCATTGAAAGAGTTGGACCATTAGCC
103409775 TATCGCACCGTACGAGATCATTGAAAGAGTTGGACCATTAGCC
1 TATCGCACCGTACGAGATCATTGAAAGAGTTGGACCATTAGCC
103409818 TATCGC
1 TATCGC
103409824 TTGGCATTGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (43 bp):
TATCGCACCGTACGAGATCATTGAAAGAGTTGGACCATTAGCC
Found at i:103410606 original size:24 final size:27
Alignment explanation
Indices: 103410557--103410606 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
103410547 CAGATATTGG
*
103410557 ATGTGAACAGGTTAAGGGGGATAAATA
1 ATGTGAACAGGTTAAGGGGCATAAATA
103410584 ATGTGAA-AGGTT-AGGGGCA-AAAT
1 ATGTGAACAGGTTAAGGGGCATAAAT
103410607 GGTCATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 6 0.27
26 5 0.23
27 7 0.32
ACGTcount: A:0.40, C:0.04, G:0.34, T:0.22
Consensus pattern (27 bp):
ATGTGAACAGGTTAAGGGGCATAAATA
Found at i:103414959 original size:19 final size:19
Alignment explanation
Indices: 103414925--103414963 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
103414915 GATTTCGTAC
*
103414925 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
103414945 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
103414963 T
1 T
103414964 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:103427263 original size:48 final size:48
Alignment explanation
Indices: 103427192--103427387 Score: 365
Period size: 48 Copynumber: 4.1 Consensus size: 48
103427182 CAAGATAAAT
103427192 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
*
103427240 AGATATGTATATGTGGTAAAGCCGACTGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
103427288 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
* *
103427336 AGATATGTATATGTGGTAAAGCCCAATGGCTAGTGTGAAATATGTAGG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
103427384 AGAT
1 AGAT
103427388 GTGAGTATAT
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
Found at i:103427578 original size:37 final size:37
Alignment explanation
Indices: 103427528--103427667 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
103427518 GGAAATATAT
103427528 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
103427565 TCCGGATAAGACCCGATGACTACGTGTGGAGATTATA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
103427602 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
103427639 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
103427668 GGACTATTCG
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:103429214 original size:40 final size:40
Alignment explanation
Indices: 103428959--103429205 Score: 406
Period size: 40 Copynumber: 6.2 Consensus size: 40
103428949 TTATATAGCT
* * *
103428959 GGGCTAAG-TCTCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTTC-CGAAGAGCATTCGTGCTAGTGATGTATCC
*
103428999 GGGCTAAGTTCAGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
103429039 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
* *
103429079 GGGCTAAGTTCCGAAGAGTATTCATGCTAGTGATGTATCC
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
103429119 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
* *
103429159 AGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
103429199 GGGCTAA
1 GGGCTAA
103429206 ACCTCGAAGG
Statistics
Matches: 194, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 192 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
Found at i:103429274 original size:28 final size:27
Alignment explanation
Indices: 103429237--103429390 Score: 96
Period size: 28 Copynumber: 5.4 Consensus size: 27
103429227 GAGTTATGAG
* *
103429237 GCACTGTGTGTGCAAGTTCTTCAACTGA
1 GCACTATGTGTGCGAGTTCTT-AACTGA
* * * **
103429265 GCACTATGTGTGCCAGCTCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAACTGA
*
103429293 GGCACTATGTGTGCGAGTTCTTCAA-TCAA
1 -GCACTATGTGTGCGAGTTCTT-AACT-GA
* ** *
103429322 GCACTATGTGTGTGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAACTGA
103429350 GGCACTATGTGTGCGAGTTCTTTAATCT-A
1 -GCACTATGTGTGCGAGTTC-TTAA-CTGA
*
103429379 GCGCTATGTGTG
1 GCACTATGTGTG
103429391 TGAAATCAGT
Statistics
Matches: 97, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
28 53 0.55
29 43 0.44
30 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAACTGA
Found at i:103429375 original size:29 final size:29
Alignment explanation
Indices: 103429233--103429375 Score: 121
Period size: 29 Copynumber: 5.0 Consensus size: 29
103429223 GCTGGAGTTA
* * * *
103429233 TGAGGCACTGTGTGTGCAAGTTCTTCAAC
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
* * ** *
103429262 TGA-GCACTATGTGTGCCAGCTCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
*
103429290 TGAGGCACTATGTGTGCGAGTTCTTCAA-
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
* * * **
103429318 TCAAGCACTATGTGTGTGAGATT-GGTAAT
1 TGAGGCACTATGTGTGCGAG-TTCTTTAAT
103429347 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTTAAT
103429376 CTAGCGCTAT
Statistics
Matches: 85, Mismatches: 25, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
28 41 0.48
29 44 0.52
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (29 bp):
TGAGGCACTATGTGTGCGAGTTCTTTAAT
Found at i:103429391 original size:57 final size:57
Alignment explanation
Indices: 103429233--103429400 Score: 212
Period size: 57 Copynumber: 2.9 Consensus size: 57
103429223 GCTGGAGTTA
* * ** * *
103429233 TGAGGCACTGTGTGTGCAAGTTCTTCAA-CTGAGCACTATGTGTGCCAGCTCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCT-AGCACTATGTGTGTGAGATCAGTAAT
* **
103429290 TGAGGCACTATGTGTGCGAGTTCTTCAATCAAGCACTATGTGTGTGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCTAGCACTATGTGTGTGAGATCAGTAAT
* * *
103429347 TGAGGCACTATGTGTGCGAGTTCTTTAATCTAGCGCTATGTGTGTGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCTAGCACTATGTGTGTGAGATCAGT
103429401 CAGTGGGCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
57 94 0.99
58 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCTAGCACTATGTGTGTGAGATCAGTAAT
Found at i:103431450 original size:48 final size:48
Alignment explanation
Indices: 103431379--103431574 Score: 365
Period size: 48 Copynumber: 4.1 Consensus size: 48
103431369 CAAGTTAAAT
*
103431379 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
103431427 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
103431475 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
* *
103431523 AGATATGTCTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
103431571 AGAT
1 AGAT
103431575 GTGTGTATAT
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
Found at i:103431769 original size:37 final size:37
Alignment explanation
Indices: 103431715--103431854 Score: 226
Period size: 37 Copynumber: 3.8 Consensus size: 37
103431705 GGAAATATAT
*
103431715 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
103431752 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
103431789 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
103431826 TCTGGGTAAGACCCGATAACTACTTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
103431855 GGACTATTCG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:103433146 original size:20 final size:21
Alignment explanation
Indices: 103433121--103433162 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
103433111 CTAAATACAA
103433121 TTATATGTAATT-ATACGTGT
1 TTATATGTAATTGATACGTGT
* *
103433141 TTATATGTGATTGATATGTGT
1 TTATATGTAATTGATACGTGT
103433162 T
1 T
103433163 AGAATATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.52
Consensus pattern (21 bp):
TTATATGTAATTGATACGTGT
Found at i:103434842 original size:75 final size:75
Alignment explanation
Indices: 103434719--103434868 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 75
103434709 ATTCAAGTTT
* * * *
103434719 ATATTTTTTACTAGATTTATGAGGAACTAATCCTCCTGTGCGGGATTAACGAGTGGAGGTATGAA
1 ATATTTTTTACTAGATCTATAAGGAACTAATCCTCCTGTGAGGGATTAACGAGTGGAGATATGAA
103434784 TAATTAATTG
66 TAATTAATTG
* *
103434794 ATATTTTTTACTAGATCTATAAGGAACTAATCCTCCTGTGAGGGATTAAGGAGTGGATATATGAA
1 ATATTTTTTACTAGATCTATAAGGAACTAATCCTCCTGTGAGGGATTAACGAGTGGAGATATGAA
103434859 TAATTAATTG
66 TAATTAATTG
103434869 TTTTATAGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (75 bp):
ATATTTTTTACTAGATCTATAAGGAACTAATCCTCCTGTGAGGGATTAACGAGTGGAGATATGAA
TAATTAATTG
Found at i:103446330 original size:40 final size:40
Alignment explanation
Indices: 103446286--103446511 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
103446276 GCTACTCGTT
* * *
103446286 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
103446326 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
103446366 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
103446406 CAAATGCCTTC-GGATCTTAGTCCAGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
103446446 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
103446487 CAAA-GCCTTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
103446512 CATCATTCGA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.92
41 11 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:103453736 original size:21 final size:19
Alignment explanation
Indices: 103453707--103453745 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
103453697 TTCTAACCTA
*
103453707 TAATTATTTTCATACAATTTT
1 TAATGATTTTC-TA-AATTTT
103453728 TAATGATTTTCTAAATTT
1 TAATGATTTTCTAAATTT
103453746 AAGACAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (19 bp):
TAATGATTTTCTAAATTTT
Found at i:103454397 original size:48 final size:48
Alignment explanation
Indices: 103454274--103454792 Score: 337
Period size: 48 Copynumber: 10.8 Consensus size: 48
103454264 AAAAGGGTAA
* ** * *
103454274 AATGTCGATGCCATGTTCTGGACATGGTCTTACACTGGC-TCTCATACATC
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACATAT-ATA-A-C
*
103454324 AATGTCGATGCCATG-TCCTAGACATGGTCTTACACTGACATATATAAC
1 AATGCCGATGCCATGTTCC-AGACATGGTCTTACACTGACATATATAAC
* * **
103454372 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGATCACATAT-TG
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACT-GA-CATATATAAC
** * * * *
103454421 AA-GTTGATGCCATGTCCCGGACATGGTTTTACACT-AGC-TCTCATACATC
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGA-CATAT-ATA-A-C
* * *
103454470 AGTGTCGATGCCATG-TCCTAGACATGGTCTTACACTGACACATATAAC
1 AATGCCGATGCCATGTTCC-AGACATGGTCTTACACTGACATATATAAC
* * * * **
103454518 AATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGC-TCTCATATT
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACATAT-ATAAC
* * * * * * ** *
103454566 GAGGCCGATGCCATGTCCCAGAAATAGTCTTACATTG-GTTCACATAAC
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACAT-ATATAAC
* * *
103454614 AATGCCGATGCCATGTTCCAAACATGATCTTACACTGAC-TCTCATAAACC
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACATAT-AT-AA-C
** * * * *
103454664 GGTACTGATGCCATGTCCCAGACATGGTCTTACACTGACACATAT--C
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACATATATAAC
* * * * *
103454710 GAGGCCGATGCCATGTCCCAGACATGGTCTTACATTGACACATAT--C
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACATATATAAC
* * *
103454756 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 AATGCCGATGCCATGTTCCAGACATGGTCTTACACTG
103454793 GCTCTTATAT
Statistics
Matches: 374, Mismatches: 73, Indels: 48
0.76 0.15 0.10
Matches are distributed among these distances:
45 1 0.00
46 82 0.22
47 1 0.00
48 159 0.43
49 19 0.05
50 107 0.29
51 5 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
AATGCCGATGCCATGTTCCAGACATGGTCTTACACTGACATATATAAC
Found at i:103454512 original size:96 final size:95
Alignment explanation
Indices: 103454279--103454793 Score: 463
Period size: 96 Copynumber: 5.3 Consensus size: 95
103454269 GGTAAAATGT
* ** * * * *
103454279 CGATGCCATGTTCTGGACATGGTCTTACACTGGCTCTCATACATCAATGTCGATGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG-ACACATATA-CAATGTCGATGCCATGTCCCA
* *
103454344 GACATGGTCTTACACTGACATAT-ATAA-CAATGC
64 GACATGGTCTTACACTG-C-TCTCATAATC-AGGC
* * * ** * *
103454377 CGATGCCATGTTCCAAACATGGTCTTACACTAGATCACATATTGAA-GTTGATGCCATGTCCCGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGA-CACATATACAATGTCGATGCCATGTCCCAG
* *
103454441 ACATGGTTTTACACTAGCTCTCATACATCAGTGT
65 ACATGGTCTTACACT-GCTCTCATA-ATCAG-GC
* * *
103454475 CGATGCCATGTCCTAGACATGGTCTTACACT-GACACATATAACAATGTCGATGCCATGTTCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGACACATAT-ACAATGTCGATGCCATGTCCCAG
* *
103454539 ACATGGTCTTACACTGGCTCTCATATTGAGGC
65 ACATGGTCTTACACT-GCTCTCATAATCAGGC
* * * * * * *
103454571 CGATGCCATGTCCCAGAAATAGTCTTACATTGGTTCACATA-ACAATGCCGATGCCATGTTCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG-ACACATATACAATGTCGATGCCATGTCCCAG
* * *
103454635 ACATGATCTTACACTGACTCTCATAAACCGGTAC
65 ACATGGTCTTACACTG-CTCTCATAATCAGG--C
* * * *
103454669 TGATGCCATGTCCCAGACATGGTCTTACACT-GACACATAT-CGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGACACATATACAATGTCGATGCCATGTCCCAGA
* * *
103454732 CATGGTCTTACATTG-ACACAT-ATCGAGGC
66 CATGGTCTTACACTGCTCTCATAATC-AGGC
103454761 CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG
103454794 CTCTTATATC
Statistics
Matches: 344, Mismatches: 57, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
92 31 0.09
93 3 0.01
94 6 0.02
95 3 0.01
96 152 0.44
97 14 0.04
98 135 0.39
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGACACATATACAATGTCGATGCCATGTCCCAGA
CATGGTCTTACACTGCTCTCATAATCAGGC
Found at i:103454544 original size:146 final size:144
Alignment explanation
Indices: 103454279--103454792 Score: 576
Period size: 146 Copynumber: 3.6 Consensus size: 144
103454269 GGTAAAATGT
* ** * *
103454279 CGATGCCATGTTCTGGACATGGTCTTACACTGGCTCTCATACATCAATGTCGATGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-ATCAATGCCGATGCCATGTCCTA
* *
103454344 GACATGGTCTTACACTGACATATATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTA
65 GACATGGTCTTACACTGACACATATAACAATGTCGATGCCATGTTCCAAACATGGTCTTACACT-
* *
103454409 GATCACATATTGAAGT
129 GATCACATATTGAGGC
* * * * * * *
103454425 TGATGCCATGTCCCGGACATGGTTTTACACTAGCTCTCATACATCAGTGTCGATGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-ATCAATGCCGATGCCATGTCCTA
103454490 GACATGGTCTTACACTGACACATATAACAATGTCGATGCCATGTTCCAAACATGGTCTTACACTG
65 GACATGGTCTTACACTGACACATATAACAATGTCGATGCCATGTTCCAAACATGGTCTTACACT-
* *
103454555 GCTCTCATATTGAGGC
129 GATCACATATTGAGGC
* * * *
103454571 CGATGCCATGTCCCAGAAATAGTCTTACATTGGTTCACATAA-CAATGCCGATGCCATGTTCC-A
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATCAATGCCGATGCCATG-TCCTA
* * * ** * *
103454634 AACATGATCTTACACTGACTC-TCATAA-ACCGGTACTGATGCCATGTCCCAGACATGGTCTTAC
65 GACATGGTCTTACACTGACACAT-ATAACA-ATGT-C-GATGCCATGTTCCAAACATGGTCTTAC
*
103454697 ACTGA-CACATATCGAGGC
126 ACTGATCACATATTGAGGC
* * * * *
103454715 CGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACACAT-ATCGAGGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATCAATGCCGATGCCATGTCCTAG
103454777 ACATGGTCTTACACTG
66 ACATGGTCTTACACTG
103454793 GCTCTTATAT
Statistics
Matches: 319, Mismatches: 42, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
141 4 0.01
142 35 0.11
143 4 0.01
144 77 0.24
145 6 0.02
146 193 0.61
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATCAATGCCGATGCCATGTCCTAG
ACATGGTCTTACACTGACACATATAACAATGTCGATGCCATGTTCCAAACATGGTCTTACACTGA
TCACATATTGAGGC
Found at i:103458209 original size:29 final size:29
Alignment explanation
Indices: 103458067--103458192 Score: 166
Period size: 29 Copynumber: 4.3 Consensus size: 29
103458057 GACAAGATTG
* * * *
103458067 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
103458097 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
103458125 GCACTAAGTGTGCGAGTTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
*
103458154 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
103458183 GCACTAAGTG
1 GCACTAAGTG
103458193 AGCGGATTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 20 0.23
29 46 0.53
30 15 0.17
31 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Found at i:103461739 original size:70 final size:71
Alignment explanation
Indices: 103461656--103461818 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
103461646 CGATTTGTCT
103461656 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103461720 CTTTCA
66 CTTTCA
*
103461726 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103461791 CTTTCA
66 CTTTCA
103461797 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
103461819 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:103461856 original size:71 final size:70
Alignment explanation
Indices: 103461656--103461852 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
103461646 CGATTTGTCT
* * * *
103461656 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
103461720 CTTTCA
65 CTTTCA
* * * *
103461726 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
103461791 CTTTCA
65 CTTTCA
* *
103461797 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
103461853 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:103468758 original size:70 final size:71
Alignment explanation
Indices: 103468675--103468837 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
103468665 CGATTTGTCT
103468675 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103468739 CTTTCA
66 CTTTCA
*
103468745 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103468810 CTTTCA
66 CTTTCA
103468816 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
103468838 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:103468875 original size:71 final size:70
Alignment explanation
Indices: 103468675--103468871 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
103468665 CGATTTGTCT
* * * *
103468675 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
103468739 CTTTCA
65 CTTTCA
* * * *
103468745 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
103468810 CTTTCA
65 CTTTCA
* *
103468816 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
103468872 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:103472928 original size:29 final size:29
Alignment explanation
Indices: 103472895--103473054 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
103472885 GTGACGAGAT
103472895 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
103472924 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
103472953 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
103472982 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
103473011 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
103473040 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
103473055 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:103480912 original size:29 final size:29
Alignment explanation
Indices: 103480879--103481038 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
103480869 GTGACGAGAT
103480879 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
103480908 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
103480937 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
103480966 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
103480995 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
103481024 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
103481039 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:103487033 original size:29 final size:29
Alignment explanation
Indices: 103486892--103487021 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
103486882 GACAAGATTG
* * * * *
103486892 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
103486922 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
103486950 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
103486979 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
103487008 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
103487022 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 51 0.57
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:103488574 original size:49 final size:49
Alignment explanation
Indices: 103488514--103488642 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 49
103488504 ATCAAAGTTG
* * *
103488514 ATGCCATGTCCCAGACATGTCTTACACTGACTTTGC-TATATCGAG-GCCA
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCT-CATATATCG-GTGCCA
* * * * *
103488563 ATGCCATGTCCCAAATAGGTGTTACACTGACTCTCATCTATCGGTGTCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGCCA
103488612 ATGCCATGTCCCAAACAGGTCTTACACTGAC
1 ATGCCATGTCCCAAACAGGTCTTACACTGAC
103488643 ACACAATAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 66 0.97
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGCCA
Found at i:103488763 original size:46 final size:46
Alignment explanation
Indices: 103488709--103488823 Score: 230
Period size: 46 Copynumber: 2.5 Consensus size: 46
103488699 AGGCCGATGC
103488709 ATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCGACGT
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCGACGT
103488755 ATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCGACGT
1 ATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCGACGT
103488801 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
103488824 AGCACACATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCGACGT
Found at i:103491266 original size:20 final size:22
Alignment explanation
Indices: 103491241--103491280 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
103491231 CATCTTTTAC
103491241 TTATA-TAAAA-AATAAAAAAT
1 TTATATTAAAATAATAAAAAAT
103491261 TTATATTAAAATAATAAAAA
1 TTATATTAAAATAATAAAAA
103491281 TAACATGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTATATTAAAATAATAAAAAAT
Found at i:103491309 original size:16 final size:16
Alignment explanation
Indices: 103491290--103491357 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
103491280 ATAACATGTC
103491290 AAATAAATTACATAAA
1 AAATAAATTACATAAA
103491306 AAATAAATCTA-ATAAA
1 AAATAAAT-TACATAAA
* * *
103491322 CCTAAA-ACA-CACATAAC
1 ---AAATAAATTACATAAA
103491339 AAATAAATTACATAAA
1 AAATAAATTACATAAA
103491355 AAA
1 AAA
103491358 AATATTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
14 3 0.08
15 2 0.05
16 23 0.59
17 6 0.15
18 2 0.05
19 3 0.08
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:103491660 original size:29 final size:29
Alignment explanation
Indices: 103491627--103491682 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
103491617 ACCTCTTAAT
103491627 TAATTTTTT-TCAAACCCTAAACACAACCC
1 TAATTTTTTCTCAAACCCT-AACACAACCC
*
103491656 TAATTTTTTCTCAAATCCTAACACAAC
1 TAATTTTTTCTCAAACCCTAACACAAC
103491683 TTATTCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.34
Consensus pattern (29 bp):
TAATTTTTTCTCAAACCCTAACACAACCC
Found at i:103493646 original size:29 final size:31
Alignment explanation
Indices: 103493603--103493666 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
103493593 TTAATAAATA
* *
103493603 AAAAATTATATTTTAATT-TTTTAAAATTAT
1 AAAAATTATAATTTAATTCTTTAAAAATTAT
103493633 AAAAATT-TAATTTAATTCTTTAAAAATTAT
1 AAAAATTATAATTTAATTCTTTAAAAATTAT
103493663 AAAA
1 AAAA
103493667 TATAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
AAAAATTATAATTTAATTCTTTAAAAATTAT
Done.