Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 452 of 770
Found at i:139183895 original size:40 final size:39
Alignment explanation
Indices: 139183850--139184057 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
139183840 CGGAATACAA
*
139183850 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
139183890 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
139183930 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
139183970 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
139184010 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
139184050 CCGGATAT
1 CCGGATAT
139184058 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:139183997 original size:80 final size:81
Alignment explanation
Indices: 139183850--139184055 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
139183840 CGGAATACAA
* * * *
139183850 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
139183914 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
139183930 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
139183993 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
139184010 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
139184056 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:139185770 original size:40 final size:40
Alignment explanation
Indices: 139185715--139185862 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
139185705 GCTGTCACAT
* *
139185715 AAATGCCTTCGGGATTTAGCCCGGATATAATCACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC
*
139185755 AAATGCCTTCGGGATTTAGCCCGGATATAGTCACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC
* * * * *
139185795 AAATGCCTTCAGGACCTAGCCCGGGTATAGTAACTTGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC
139185835 AAATGCCTTCGGGACTTAGCCCGGATAT
1 AAATGCCTTCGGGACTTAGCCCGGATAT
139185863 CATCCGAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC
Found at i:139196126 original size:21 final size:21
Alignment explanation
Indices: 139196102--139196143 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
139196092 TCATCAGATC
*
139196102 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
139196123 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
139196144 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:139200364 original size:47 final size:47
Alignment explanation
Indices: 139200310--139200690 Score: 530
Period size: 47 Copynumber: 8.1 Consensus size: 47
139200300 TTAGGATTTT
** * * * **
139200310 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCAAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
139200357 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
139200404 ATGTGATGAATGTGAACATGCATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATA--TGTGATAAGGCCGAATGGCCA
*
139200453 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* ** * *
139200500 ATGTGATGAATGTGAACATGCGTACGTGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
139200547 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
139200594 ATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
139200641 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCAAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
139200688 ATG
1 ATG
139200691 CGAAATGTGT
Statistics
Matches: 303, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 254 0.84
48 3 0.01
49 46 0.15
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:139200459 original size:22 final size:22
Alignment explanation
Indices: 139200432--139200506 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
139200422 TGCATATATG
139200432 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
139200454 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
139200477 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
139200501 TGTGAT
1 TGTGAT
139200507 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:139200720 original size:46 final size:46
Alignment explanation
Indices: 139200664--139200800 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
139200654 GGAAGTGTAT
*
139200664 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
139200710 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATAAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
139200756 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
139200801 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:139203946 original size:40 final size:39
Alignment explanation
Indices: 139203778--139203948 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
139203768 AGAAATTGAA
* *
139203778 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
139203818 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
139203858 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
139203898 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
139203938 TGATATCCGGG
1 TGATATCCGGG
139203949 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:139205651 original size:40 final size:40
Alignment explanation
Indices: 139205599--139205794 Score: 365
Period size: 40 Copynumber: 4.9 Consensus size: 40
139205589 GTTATATATG
*
139205599 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
139205639 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
139205679 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
139205719 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
* *
139205759 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTG
139205795 ATGTGTATTC
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 153 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
Found at i:139206008 original size:25 final size:25
Alignment explanation
Indices: 139205958--139206010 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
139205948 TGTGTAACAA
* *
139205958 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
139205983 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
139206008 CAA
1 CAA
139206011 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:139207635 original size:40 final size:40
Alignment explanation
Indices: 139207590--139207738 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
139207580 CTCGCACAAG
* *
139207590 GCCTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCAGATATAGTCACTAGCACAAAT
* * *
139207630 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCAGATATAGTCACTAGCACAAAT
* * *
139207670 GCCTTCGGGTCTTAACCTAGATATAG-CAACTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCAGATATAGTC-ACTAGCACAAAT
* * *
139207710 GCCTTCGGATCTTAGTCCGGATATAGTCA
1 GCCTTCGGGTCTTAGCCCAGATATAGTCA
139207739 TTTCGACTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCAGATATAGTCACTAGCACAAAT
Found at i:139207710 original size:80 final size:80
Alignment explanation
Indices: 139207590--139207737 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 80
139207580 CTCGCACAAG
* * *
139207590 GCCTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTCGGGTCTTAACCCAGATATAGTCACTAGCACAAATGCCTTC-GGATCTTAGCCCGGATAT
139207654 AGTCGCTAGCACAAAT
65 AGTCGCTAGCACAAAT
* * *
139207670 GCCTTCGGGTCTTAACCTAGATATAG-CAACTTGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 GCCTTCGGGTCTTAACCCAGATATAGTC-ACTAGCACAAATGCCTTCGGATCTTAGCCCGGATAT
139207734 AGTC
65 AGTC
139207738 ATTTCGACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
79 4 0.07
80 56 0.93
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
GCCTTCGGGTCTTAACCCAGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATA
GTCGCTAGCACAAAT
Found at i:139215986 original size:40 final size:40
Alignment explanation
Indices: 139215887--139216068 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
139215877 CACTCACAAG
* *
139215887 GCCTTCGGGTCTTAGCCCGGATATGGTCACTA-CATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
139215926 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
139215965 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
139216005 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
139216045 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
139216069 CATTCGAATA
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 22 0.18
39 19 0.15
40 81 0.66
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:139224582 original size:12 final size:13
Alignment explanation
Indices: 139224553--139224582 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
139224543 ACTAAGGTTA
139224553 AAATAGTAAATGG
1 AAATAGTAAATGG
139224566 AAATAGTAAAT-G
1 AAATAGTAAATGG
139224578 AAATA
1 AAATA
139224583 ATATGCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (13 bp):
AAATAGTAAATGG
Found at i:139228069 original size:40 final size:40
Alignment explanation
Indices: 139228024--139228153 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
139228014 CGGAATACAA
139228024 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
139228064 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
139228104 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
139228144 CCGGATATAA
1 CCGGATATAA
139228154 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:139240968 original size:48 final size:48
Alignment explanation
Indices: 139240805--139241015 Score: 186
Period size: 48 Copynumber: 4.4 Consensus size: 48
139240795 CATCAAGTTG
* *** *
139240805 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATTGAGGTG--A
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTA-T-ACGTGCCA
** * **
139240854 ACACCATGTCCCAGACATGGTCTCACACTAGA-A-CTCATATATCCGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GACACCTC-TATA--CGTGCCA
139240904 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCA
* *
139240952 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATA---GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCT-ATACGTGCCA
139240998 ATG-CATGTCCCAGACATG
1 ATGCCATGTCCCAGACATG
139241016 TTGATAAACC
Statistics
Matches: 138, Mismatches: 15, Indels: 22
0.79 0.09 0.13
Matches are distributed among these distances:
45 15 0.11
46 7 0.05
47 2 0.01
48 47 0.34
49 31 0.22
50 33 0.24
51 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCA
Found at i:139247736 original size:72 final size:73
Alignment explanation
Indices: 139247519--139248552 Score: 700
Period size: 72 Copynumber: 13.7 Consensus size: 73
139247509 GTGATCTGAA
*
139247519 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
139247584 ATGTGAACCGAG
64 --GTGTCCCGAG
* *
139247596 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
139247661 TGTCCCGAG
65 TGTCCCGAG
* *
139247670 GCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTGAAAATAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
139247734 GTCTCGAG
66 GTCCCGAG
* *
139247742 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTGAAATTACCTCAGC
* **
139247807 ATGTCTTGAG
64 GTGTCCCGAG
** *
139247817 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
** *
139247881 GTCCTAAA
66 GTCCCGAG
** *
139247889 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAA-AACAGAAATTGAAATTACCTCAGC
**
139247954 GTGTCTTGAG
64 GTGTCCCGAG
* * * * ** *
139247964 GATCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAA--AGCAGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTG-AAAACAGAAATTGAAATTACCTCAG
** **
139248027 ATTGAAATTACCTTAATG
63 CGTG----T-CC-CGA-G
* *
139248045 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAAATT
1 -G-C-TCA---AC---TCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAATT
*
139248109 ACCTCAGCGTGTCCTGAG
56 ACCTCAGCGTGTCCCGAG
** * * * * * ***
139248127 GCTCAACTCATTTCTTGTAATATGAGTTGA-TTTTTGAAAA-ATAGATTGAAA-CACAAAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTAC-CTCA--G
* * *
139248189 ACAAT-ACCTCAGCG
63 -C-GTGTCC-C-GAG
* * * * * * ** ****
139248203 TGCCCCGAGGCTCAGCTCACGTC--T-CGCAATATGAGTTGATTTTTGA-A-AACA--GAAATTG
1 -G-CTC-A-ACTCACCTCTCG-CAATATG-AGT-TGA-TTTTTTGAAAACAGAA-ATTGAAA-T-
*
139248261 AAAATACCTCAGCGTGTCCTGAG
55 ----TACCTCAGCGTGTCCCGAG
* *
139248284 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTGAAATTACCTCAGC
* **
139248349 ATGTCTTGAG
64 GTGTCCCGAG
** * *
139248359 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
**
139248423 GTCTTGAG
66 GTCCCGAG
** * * **
139248431 GCTCAACTCATTTCTCACAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAATG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTGAAATTACCTCAGCG
**
139248496 TGTCTTGAG
65 TGTCCCGAG
139248505 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAAT
139248553 AAAAACATCA
Statistics
Matches: 768, Mismatches: 126, Indels: 130
0.75 0.12 0.13
Matches are distributed among these distances:
70 2 0.00
71 10 0.01
72 192 0.25
73 53 0.07
74 116 0.15
75 169 0.22
76 45 0.06
77 59 0.08
78 9 0.01
79 12 0.02
80 20 0.03
81 9 0.01
82 9 0.01
83 5 0.01
84 5 0.01
85 1 0.00
86 2 0.00
87 22 0.03
89 6 0.01
90 22 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCCGAG
Found at i:139247833 original size:147 final size:148
Alignment explanation
Indices: 139247514--139248552 Score: 1127
Period size: 147 Copynumber: 6.9 Consensus size: 148
139247504 AGTGTGTGAT
*
139247514 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
* *
139247579 TCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-AAAACAGA
64 TCAGC--GTG-TCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
*
139247642 AATTGAAATTACCTCAGTGTGTC
126 AATTGAAATTACCTCAGCGTGTC
* * * *
139247665 CCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTGAAAATAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
*
139247729 AGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTG
66 AGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
* *
139247794 AAAATACCTCAGCATGTC
131 AAATTACCTCAGCGTGTC
* ** * *
139247812 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
* * ** * *
139247876 AGCGTGTC-CTAAAGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATT
66 AGCGTGTCTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT
139247940 GAAATTACCTCAGCGTGTC
130 GAAATTACCTCAGCGTGTC
* *
139247959 TTGAGGATCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-----TT------T-T---TTGAAAA-CA
* * ** * *
139248024 GAAATTGAAATTACCTTAATGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
49 GAAATTGAAAATACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
139248087 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
114 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTC
** * * *
139248122 CTGAGGCTCAACTCATTTCTTGTAATATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT------T---TTGAAA-ACAGAAAT
* * * * *
139248187 TGACAATACCTCAGCGTGCCCCGAGGCTCAGCTCACGTCTCGCAATATGAGTTGA--TTTTTG-A
54 TGAAAATACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
*
139248249 AAACAGAAATTGAAAATACCTCAGCGTGTC
119 AAACAGAAATTGAAATTACCTCAGCGTGTC
*
139248279 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTGAAAATACC
* * ** *
139248344 TCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTG-AAAACAGAAAT
64 TCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
*
139248406 TGAAATTACCTCAACGTGTC
129 TGAAATTACCTCAGCGTGTC
* ** *
139248426 TTGAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTGAAAATACCT
** *
139248491 CAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AAACAGAAAT
65 CAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAAT
139248553 AAAAACATCA
Statistics
Matches: 768, Mismatches: 88, Indels: 68
0.83 0.10 0.07
Matches are distributed among these distances:
145 5 0.01
146 108 0.14
147 320 0.42
148 30 0.04
149 9 0.01
150 1 0.00
151 32 0.04
153 1 0.00
156 4 0.01
157 60 0.08
158 68 0.09
159 5 0.01
160 1 0.00
161 1 0.00
162 1 0.00
163 63 0.08
164 7 0.01
165 52 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
AGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
AAATTACCTCAGCGTGTC
Found at i:139248149 original size:73 final size:72
Alignment explanation
Indices: 139248014--139248552 Score: 494
Period size: 73 Copynumber: 7.2 Consensus size: 72
139248004 AAAATATAAA
* * ** *
139248014 TTGAAAAGCAGAAATTGAAATTACCTTAATGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCATCTCTCGCAATATG
139248078 AGTTGATTT
64 AGTTGATTT
* * * *
139248087 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTTGTAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
139248152 GTTGATTT
65 GTTGATTT
* * * ** * * * * * *
139248160 TTGAAAA-ATAGATTGAAACACAAAAAT-TGACAAT-ACCTCAGCGTGCCCCGAGGCTCAGCTCA
1 TTGAAAACAGAAATTG-AA-A-ATACCTCAG-C-GTGTCCT--GAG-G-CTC-A-ACTCA--T--
139248222 CGTCTCGCAATATGAGTTGATTT
51 C-TCTCGCAATATGAGTTGATTT
*
139248245 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
139248310 TTGATTTTT
66 TTGA--TTT
* * * *
139248319 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
*
139248384 GTTGAATT
65 GTTGATTT
* * * * *
139248392 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
139248457 TTGATTTT
66 TTGA-TTT
** * *
139248465 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
139248530 GTTGATTTTT
65 GTTGA--TTT
139248540 TTG-AAACAGAAAT
1 TTGAAAACAGAAAT
139248553 AAAAACATCA
Statistics
Matches: 388, Mismatches: 51, Indels: 54
0.79 0.10 0.11
Matches are distributed among these distances:
71 6 0.02
72 84 0.22
73 87 0.22
74 77 0.20
75 69 0.18
76 2 0.01
77 5 0.01
78 3 0.01
79 3 0.01
80 5 0.01
81 2 0.01
82 2 0.01
83 7 0.02
84 2 0.01
85 28 0.07
86 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTT
Found at i:139250324 original size:20 final size:20
Alignment explanation
Indices: 139250299--139250338 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
139250289 TACATGAATT
139250299 TTATCACCGTAAATTTGACA
1 TTATCACCGTAAATTTGACA
139250319 TTATCACCGTAAATTTGACA
1 TTATCACCGTAAATTTGACA
139250339 ATTGTGGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
TTATCACCGTAAATTTGACA
Found at i:139256810 original size:12 final size:12
Alignment explanation
Indices: 139256790--139256825 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
139256780 TGGGATATGC
*
139256790 AATGAATGAATG
1 AATGCATGAATG
139256802 AATGCATGAATG
1 AATGCATGAATG
*
139256814 AATGCATAAATG
1 AATGCATGAATG
139256826 TCAAATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:139258571 original size:12 final size:12
Alignment explanation
Indices: 139258534--139258576 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
139258524 ATGTATATAT
139258534 AAAGAAAGAAAA
1 AAAGAAAGAAAA
* *
139258546 AAACAACACAAAAA
1 AAAGAA-A-GAAAA
139258560 AAAGAAAGAAAA
1 AAAGAAAGAAAA
139258572 AAAGA
1 AAAGA
139258577 TTCGAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 14 0.56
13 2 0.08
14 9 0.36
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:139258886 original size:22 final size:22
Alignment explanation
Indices: 139258858--139258904 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
139258848 GGTTTCTTGG
139258858 TTTTTTTTTT--GGGTTAGGTT
1 TTTTTTTTTTGGGGGTTAGGTT
139258878 TTTTTTTTTTGGGGGTTAGGTT
1 TTTTTTTTTTGGGGGTTAGGTT
139258900 TTTTT
1 TTTTT
139258905 GGTGGGGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 10 0.40
22 15 0.60
ACGTcount: A:0.04, C:0.00, G:0.26, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTTGGGGGTTAGGTT
Found at i:139258910 original size:20 final size:21
Alignment explanation
Indices: 139258868--139258912 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
139258858 TTTTTTTTTT
**
139258868 GGGTTAGGTTTTTTTTTTTTGG
1 GGGTTAGG-TTTTTTTTGGTGG
139258890 GGGTTAGG-TTTTTTTGGTGG
1 GGGTTAGGTTTTTTTTGGTGG
139258910 GGG
1 GGG
139258913 GCTTAATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
22 8 0.38
ACGTcount: A:0.04, C:0.00, G:0.42, T:0.53
Consensus pattern (21 bp):
GGGTTAGGTTTTTTTTGGTGG
Found at i:139258913 original size:22 final size:22
Alignment explanation
Indices: 139258868--139258913 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
139258858 TTTTTTTTTT
** **
139258868 GGGTTAGGTTTTTTTTTTTTGG
1 GGGTTAGGTTTTTTTGGTGGGG
139258890 GGGTTAGGTTTTTTTGGTGGGG
1 GGGTTAGGTTTTTTTGGTGGGG
139258912 GG
1 GG
139258914 CTTAATGGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.04, C:0.00, G:0.43, T:0.52
Consensus pattern (22 bp):
GGGTTAGGTTTTTTTGGTGGGG
Found at i:139264822 original size:48 final size:46
Alignment explanation
Indices: 139264710--139264863 Score: 177
Period size: 46 Copynumber: 3.3 Consensus size: 46
139264700 ATCACGTATC
* *
139264710 ACATGTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTCT-CATCTCAAGACCGATGCATGTCCCAG
* *
139264756 ACATGTCTTACACTGGCTCTCGTCTCAATACCGATGCCATGTCCCAG
1 ACATGTCTTACACTGGCTCTCATCTCAAGACCGATG-CATGTCCCAG
* ** *
139264803 ACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAG
1 ACAT-GTCTTACACTGGCTCTCAT-CTCAAGACCGATGCATGTCCCAG
*
139264850 ACATGTCTTGCACT
1 ACATGTCTTACACT
139264864 AGTACACAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
46 39 0.42
47 29 0.31
48 24 0.26
49 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (46 bp):
ACATGTCTTACACTGGCTCTCATCTCAAGACCGATGCATGTCCCAG
Found at i:139264844 original size:47 final size:46
Alignment explanation
Indices: 139264738--139264863 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 46
139264728 TACATCTCGA
*
139264738 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCG-ATCAAT
*
139264785 -ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGATCAA--T
*
139264832 GGCCGATGCATGTCCCAGACATGTCTTGCACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
139264864 AGTACACAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 2 0.03
46 16 0.23
47 29 0.41
48 23 0.33
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGATCAAT
Found at i:139266263 original size:24 final size:24
Alignment explanation
Indices: 139266233--139266427 Score: 336
Period size: 24 Copynumber: 8.1 Consensus size: 24
139266223 GAATGTGACT
* *
139266233 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
139266257 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
139266281 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
139266305 ATAGTAGATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
139266329 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
139266353 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
139266377 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
139266401 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
139266425 ATA
1 ATA
139266428 TGGTCTTTGC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 165 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:139270965 original size:18 final size:19
Alignment explanation
Indices: 139270942--139270979 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
139270932 TGTGGGTAGG
139270942 CCATGTGG-TCACACACGC
1 CCATGTGGCTCACACACGC
*
139270960 CCATGTGGCTCAGACACGC
1 CCATGTGGCTCACACACGC
139270979 C
1 C
139270980 TGTGTCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.16
Consensus pattern (19 bp):
CCATGTGGCTCACACACGC
Found at i:139271197 original size:51 final size:51
Alignment explanation
Indices: 139271121--139271224 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
139271111 TGTGGCCAAC
*
139271121 ACTTAGGCTATTTTCCAAGCCTTGGTCAACTTTAATCCCTCACACACTTGT
1 ACTTAGGCTATTTTCCAAGCCTTGGTCAACCTTAATCCCTCACACACTTGT
139271172 ACTTAGGCTATTTTCCAAGCCTTGGTCAACCTTAATCCCTCACACACTTGT
1 ACTTAGGCTATTTTCCAAGCCTTGGTCAACCTTAATCCCTCACACACTTGT
139271223 AC
1 AC
139271225 AACATCAAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.34
Consensus pattern (51 bp):
ACTTAGGCTATTTTCCAAGCCTTGGTCAACCTTAATCCCTCACACACTTGT
Found at i:139272057 original size:13 final size:13
Alignment explanation
Indices: 139272039--139272068 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
139272029 TTCCAGAATT
139272039 TAAGATTAGCCAA
1 TAAGATTAGCCAA
139272052 TAAGATTAGCCAA
1 TAAGATTAGCCAA
139272065 TAAG
1 TAAG
139272069 TACATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (13 bp):
TAAGATTAGCCAA
Found at i:139275868 original size:15 final size:15
Alignment explanation
Indices: 139275823--139275876 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
139275813 GAGATGACAT
*
139275823 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
139275838 -AAAGTCCAGGAAAAA
1 GAAA-TCCAAGATAAA
139275853 GAAATCCAAGATAAA
1 GAAATCCAAGATAAA
139275868 GAAATCCAA
1 GAAATCCAA
139275877 AATACAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 3 0.09
15 26 0.81
16 3 0.09
ACGTcount: A:0.61, C:0.15, G:0.15, T:0.09
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:139279652 original size:44 final size:43
Alignment explanation
Indices: 139279587--139279707 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 43
139279577 ACATGTATCA
*
139279587 CATCCATAATGAACTCTGACCAACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC-CG
* *
139279631 CATCCATAATGAACTCAGACCAACTCAATGAGCTCGGATGCCT
1 CATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCCG
* * *
139279674 CATACATATTATGAACCCAGACCAGCTCAACGAG
1 CATCCATA--ATGAACTCAGACCAACTCAACGAG
139279708 TTTGGATTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 8 0.12
44 39 0.57
45 21 0.31
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCCG
Found at i:139283944 original size:11 final size:11
Alignment explanation
Indices: 139283928--139283957 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
139283918 TAACATTAAG
139283928 AATATATATAT
1 AATATATATAT
*
139283939 AATATAAATAT
1 AATATATATAT
139283950 AATATATA
1 AATATATA
139283958 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:139284766 original size:26 final size:24
Alignment explanation
Indices: 139284719--139284766 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
139284709 GTTAGGTGGC
*
139284719 TAGGTTTTTTTTATCTTTTTTTGT
1 TAGGTTTTTTTTATCTTCTTTTGT
*
139284743 TAGGTTTTTCTTTTTTCTTCTTTT
1 TAGG-TTTT-TTTTATCTTCTTTT
139284767 TTTTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 4 0.20
26 12 0.60
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.75
Consensus pattern (24 bp):
TAGGTTTTTTTTATCTTCTTTTGT
Found at i:139284797 original size:14 final size:15
Alignment explanation
Indices: 139284766--139284799 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
139284756 TTTCTTCTTT
*
139284766 TTTTTTGGGGTTAGG
1 TTTTTTGGGGTTAAG
139284781 TTTTTTGGGG-TAAG
1 TTTTTTGGGGTTAAG
139284795 TTTTT
1 TTTTT
139284800 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.09, C:0.00, G:0.32, T:0.59
Consensus pattern (15 bp):
TTTTTTGGGGTTAAG
Found at i:139284815 original size:11 final size:11
Alignment explanation
Indices: 139284795--139284828 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
139284785 TTGGGGTAAG
139284795 TTTTTCTTTTTC
1 TTTTT-TTTTTC
139284807 TTTTTTTTTTC
1 TTTTTTTTTTC
139284818 TTTGTTTTTTT
1 TTT-TTTTTTT
139284829 TTTGGGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:139284817 original size:17 final size:17
Alignment explanation
Indices: 139284795--139284831 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
139284785 TTGGGGTAAG
139284795 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
139284812 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
139284829 TTT
1 TTT
139284832 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:139285582 original size:88 final size:82
Alignment explanation
Indices: 139285476--139286050 Score: 282
Period size: 88 Copynumber: 6.9 Consensus size: 82
139285466 ACAGACATTA
** * *
139285476 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
139285541 TGATTTTTTGAAACTTAACTT
65 TGATTTTTTGAAAC--AA-TT
* * ** *
139285562 GAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATG
1 -AAAA-CAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATG
139285626 AGTTGA-TTTTTGAAAAACAAAATT
62 AGTTGATTTTTTG--AAAC--AATT
* * * ** *** *
139285650 -AAA-AGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAATATG
1 AAAACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAATATG
139285709 AGTTGAATTTTTTTGAAA-AA--
62 AGTTG-A-TTTTTTGAAACAATT
** * *
139285729 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
139285794 TGA-TTTTTGAAAACAGAATTT
65 TGATTTTTTG-AAAC--AA-TT
* * * * * * *
139285815 GAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGA
1 --AAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
139285880 GTTGATTTTTTTGAAA-AA-T
63 GTTGA-TTTTTTGAAACAATT
* *** *** * * *
139285899 -ATA-A-ATTGAAAAAATACCTCTGTGTGTGATCTGAA-GATCAACTCACCTCTCGCAATATGAG
1 AAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAG
*
139285960 TTGATTTTTTTGAAA-GA-T
64 TTGA-TTTTTTGAAACAATT
* * * * * *
139285978 -AGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
139286038 TGATTTTTTGAAA
65 TGATTTTTTGAAA
139286051 ACAGAAATTG
Statistics
Matches: 383, Mismatches: 70, Indels: 81
0.72 0.13 0.15
Matches are distributed among these distances:
76 12 0.03
77 43 0.11
79 68 0.18
80 9 0.02
81 14 0.04
82 37 0.10
83 37 0.10
84 15 0.04
86 11 0.03
87 13 0.03
88 109 0.28
89 9 0.02
90 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (82 bp):
AAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAACAATT
Found at i:139285681 original size:30 final size:30
Alignment explanation
Indices: 139285645--139285703 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
139285635 TTGAAAAACA
139285645 AAATT-AAAAGACTCAACTCAACTCTCGCAG
1 AAATTAAAAAG-CTCAACTCAACTCTCGCAG
*
139285675 AAATTAAAAAGCTCAACTCACCTCTCGCA
1 AAATTAAAAAGCTCAACTCAACTCTCGCA
139285704 ATATGAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.20
Consensus pattern (30 bp):
AAATTAAAAAGCTCAACTCAACTCTCGCAG
Found at i:139286112 original size:73 final size:72
Alignment explanation
Indices: 139285850--139286191 Score: 353
Period size: 72 Copynumber: 4.6 Consensus size: 72
139285840 GACATGTAAC
* * * *
139285850 CCGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATA
* *
139285915 CCTCTGTGTGTGAT
62 CCTC--AGCGTG-T
* * * * *
139285929 CTGAAGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
139285994 TCAGCGCATGAG
64 TCAGCG--TG-T
* * *
139286006 CCAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
*
139286071 AACGTGT
66 AGCGTGT
* *** * *
139286078 CTTGAGGCTCAACTCTTTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCT
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCT
139286142 CAGCGTGT
65 CAGCGTGT
139286150 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 -CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
139286192 TTTTTGAAAG
Statistics
Matches: 223, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
72 64 0.29
73 34 0.15
75 23 0.10
76 10 0.04
77 42 0.19
78 3 0.01
79 47 0.21
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (72 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTC
AGCGTGT
Found at i:139286342 original size:74 final size:75
Alignment explanation
Indices: 139286219--139286380 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
139286209 TTGAAAAATG
*
139286219 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
139286284 TTTTGACAACA
65 TTTTGACAACA
* * *
139286295 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
139286358 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
139286370 AAAATTGAAAA
1 GAAATTGAAAA
139286381 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:139286389 original size:165 final size:165
Alignment explanation
Indices: 139286048--139286706 Score: 949
Period size: 165 Copynumber: 4.0 Consensus size: 165
139286038 TGATTTTTTG
* * * *** *
139286048 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCTTTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
*
139286111 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
139286175 ATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGA
131 ATATGAGTTGA---TTTTTTTTGAAAGGCAGAAATTGA
* * *
139286213 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
* *
139286278 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
139286343 AATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* *
139286378 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
* *
139286443 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
139286508 ATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
131 ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
*
139286543 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
* *** * * * *
139286608 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGT
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
139286671 AATATGAGTTGA-TTTTTTTGACAA--CAGAAATTGA
130 AATATGAGTTGATTTTTTTTGA-AAGGCAGAAATTGA
139286705 AA
1 AA
139286707 TTACCTCAGC
Statistics
Matches: 456, Mismatches: 31, Indels: 17
0.90 0.06 0.03
Matches are distributed among these distances:
162 12 0.03
163 9 0.02
164 129 0.28
165 206 0.45
166 1 0.00
167 30 0.07
169 69 0.15
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:139286465 original size:89 final size:88
Alignment explanation
Indices: 139286295--139286468 Score: 244
Period size: 91 Copynumber: 2.0 Consensus size: 88
139286285 TTTGACAACA
* * *
139286295 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
139286360 TTGAAAGGCAAAAATTGAAAAACG
66 TTGAAA-GCAAAAATTGAAAAACG
* *
139286384 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
*
139286448 TTTTGACAA-CAGAAATTGAAA
64 TTTTGA-AAGCAAAAATTGAAA
139286469 TTACCTCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
89 33 0.43
90 8 0.11
91 35 0.46
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
TTGAAAGCAAAAATTGAAAAACG
Found at i:139286492 original size:405 final size:389
Alignment explanation
Indices: 139285685--139286545 Score: 942
Period size: 405 Copynumber: 2.1 Consensus size: 389
139285675 AAATTAAAAA
* *
139285685 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAACAGAAATTGAAAATAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTG-A-TATTTTG-----AAAACAGAAATTGAAAATACC
* * *
139285750 TCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTT
59 TCAG-ACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
** **
139285815 GAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGA
123 GAAAAATAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGA
* * * * * *
139285880 GTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCTGTGTGTGATCTGAAGATCAACTCAC
188 GTTGACTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAGCGTGT-ACCTGAAGATCAACTCAC
*
139285945 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAA
251 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAA
* * *
139286010 GGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACG
316 GGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACG
*
139286075 TGTCTTGAG
381 TGTCCTGAG
*** *
139286084 GCTCAACTCTTTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAG-CG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAAATACCTCAGACG
* * *
139286147 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTG
66 TGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAA-ACAGAAATTG
* * * * * *
139286212 AAAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAG
124 AAAAATAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAG
* * * *
139286277 TTGACTTTTTTG-ACAACAGAAATTG-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTC
189 TTGACTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGATCAACTCACCTC
*
139286339 TCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGC
254 TCGCAATATGAGTTGATTTTTTTGAAA-G-----A-T-----A--GAAATTGAAAATACCTCAGC
** * * * *
139286404 GTGTGA-CCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTGACAACAGAAATTGAA
305 GCATGAGCC-AAGGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTGAA
* *
139286468 ATTACCTCAGCGTGTCCTGAG
369 AATACCTCAACGTGTCCTGAG
*
139286489 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TATTTTGAAA-ACAGAAATTGAAAA
139286546 ACGGAAATTG
Statistics
Matches: 385, Mismatches: 51, Indels: 42
0.81 0.11 0.09
Matches are distributed among these distances:
389 37 0.10
391 67 0.17
392 1 0.00
393 14 0.04
395 19 0.05
396 79 0.21
397 1 0.00
398 2 0.01
399 26 0.07
403 1 0.00
404 2 0.01
405 115 0.30
408 8 0.02
409 13 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (389 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAAATACCTCAGACG
TGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAATA
GAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAGTTGACTT
TTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTGAAGATCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGCCAAGGCTCAACTC
ACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAG
Found at i:139286508 original size:73 final size:76
Alignment explanation
Indices: 139286374--139286545 Score: 233
Period size: 73 Copynumber: 2.3 Consensus size: 76
139286364 AAGGCAAAAA
* * * *
139286374 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
139286439 GAGTTGA-TTTT
65 GAGTTGATTTTT
* * * *
139286450 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
139286513 AGTTGATTTTTT
66 AGTTGA-TTTTT
139286525 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
139286546 ACGGAAATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 33 0.39
75 33 0.39
76 18 0.21
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (76 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTT
Found at i:139286544 original size:14 final size:14
Alignment explanation
Indices: 139286525--139286559 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
139286515 TTGATTTTTT
*
139286525 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
139286539 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
139286553 TTGAAAA
1 TTGAAAA
139286560 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:139286582 original size:330 final size:326
Alignment explanation
Indices: 139286048--139286972 Score: 1074
Period size: 330 Copynumber: 2.9 Consensus size: 326
139286038 TGATTTTTTG
* **** *
139286048 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCTTTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTG
139286113 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
* *
139286178 TGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGAAAAATGGAAATTGAAAATACCTCGACGTGT
131 TGAGTTGA--TTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTGT
* ** *** *
139286243 GATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACA-ACAGAAATTGAAATT
194 GACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-AATTAAAACATA-A-AAATTGAAAAT
* * *
139286307 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAA
256 ACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGGCAAA
139286372 AATTGA
321 AATTGA
* **
139286378 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCGCCACTCGCAATACGAGT
* * *
139286443 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
64 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
139286508 ATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTG
128 ATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTG
*
139286572 TGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATAC
193 TGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATAC
*
139286637 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTTTTG--A--C-----
258 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGGCAAAAA
139286693 ----
323 TTGA
* * * * * *
139286693 --AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTG
* ** *
139286756 -ATTTTGAAAA-AG---TAGAAATTA--AAAG-GT-T--C-A-----ACCT-ACCTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
* * *
139286803 TGAGTTGA----TTCTTGAACA-AC-GTAAATTG-AAAACAGAAATTGAAAATACCTC-A-GCGT
131 TGAGTTGATTTTTTTTTGAA-AGACAG-AAATTGAAAAACGGAAATTGAAAATACCTCGACGTGT
* *
139286859 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACC
194 GACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATACC
139286924 TCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
259 TCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
139286973 GAAAAACAAA
Statistics
Matches: 540, Mismatches: 49, Indels: 56
0.84 0.08 0.09
Matches are distributed among these distances:
286 113 0.21
288 23 0.04
289 15 0.03
290 1 0.00
292 21 0.04
293 3 0.01
298 1 0.00
301 1 0.00
302 2 0.00
303 2 0.00
305 8 0.01
308 2 0.00
309 8 0.01
311 31 0.06
313 25 0.05
324 1 0.00
326 1 0.00
328 62 0.11
329 6 0.01
330 115 0.21
332 30 0.06
333 69 0.13
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (326 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCGCCACTCGCAATACGAGTTG
AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTGTGA
CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATACCTC
AGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTG
A
Found at i:139286982 original size:72 final size:72
Alignment explanation
Indices: 139286535--139286990 Score: 319
Period size: 72 Copynumber: 6.3 Consensus size: 72
139286525 TTGAAAGACA
* * * * * *
139286535 GAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCA
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTAGCA
*
139286600 ATACGAGTT
64 ATATGAGTT
* * *
139286609 GAAATT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
139286673 TATGAGTT
65 TATGAGTT
** * * * *
139286681 GATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA-
1 GA---AATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT-AG
139286744 CAATATGAGTT
62 CAATATGAGTT
** * *** * * * *** * ** * * *
139286755 GATTTTGAAAAAGTAGAAATT-AAAA-GGTTCAACCTACCTCTCGCAATATGAGTTGA-TTCTTG
1 GAAATTGAAAAA-CAGAAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTCTAG
*
139286817 -AACA--ACG-T
62 CAATATGA-GTT
* * *
139286825 -AAATTG-AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
139286888 ATGAGTT
66 ATGAGTT
*
139286895 GAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
139286959 TATGAGTT
65 TATGAGTT
** *
139286967 GATTTTGAAAAACAAAAATT-AAAA
1 GAAATTGAAAAACAGAAATTGAAAA
139286991 GGCTTAACTC
Statistics
Matches: 291, Mismatches: 67, Indels: 51
0.71 0.16 0.12
Matches are distributed among these distances:
66 5 0.02
67 12 0.04
68 12 0.04
69 11 0.04
70 4 0.01
71 24 0.08
72 114 0.39
73 19 0.07
74 85 0.29
75 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTT
Found at i:139287133 original size:71 final size:71
Alignment explanation
Indices: 139286990--139287253 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
139286980 AAAAATTAAA
* * * * * *
139286990 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGTGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
139287053 GCCCCG
66 GCCCCG
* *
139287059 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
139287124 GTCTTG
66 GCCCCG
* * *
139287130 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
139287193 TGCCCCG
65 TGCCCCG
*
139287200 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
139287254 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 57 0.34
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:139287211 original size:70 final size:69
Alignment explanation
Indices: 139286990--139287253 Score: 330
Period size: 71 Copynumber: 3.7 Consensus size: 69
139286980 AAAAATTAAA
* ** * * * *
139286990 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGTGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
139287055 CCCG
66 CCCG
* * *
139287059 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
139287124 GTCTTG
64 GCCCCG
* *
139287130 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
139287195 CCCCG
65 CCCCG
*
139287200 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
139287254 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 59 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:139287235 original size:263 final size:257
Alignment explanation
Indices: 139286828--139287420 Score: 1033
Period size: 257 Copynumber: 2.3 Consensus size: 257
139286818 ACAACGTAAA
* * * * * *
139286828 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
139286893 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
139286958 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
*
139287023 TTAAAACATAAACTAAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
139287088 TGATT
253 TGATT
139287093 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
139287158 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
139287223 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
139287288 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
139287350 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
139287415 TTGATT
66 TTGATT
139287421 TTCCTTGAAA
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 129 0.40
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:139300765 original size:19 final size:19
Alignment explanation
Indices: 139300741--139300782 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
139300731 CTTCAGATAT
139300741 TTTTATTTCTTTTA-TTTTA
1 TTTTATTT-TTTTACTTTTA
*
139300760 TTTTATTTTTTTACTTTTC
1 TTTTATTTTTTTACTTTTA
139300779 TTTT
1 TTTT
139300783 GGTGCTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTTTACTTTTA
Found at i:139354626 original size:31 final size:31
Alignment explanation
Indices: 139354588--139354653 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
139354578 TAGAAAGAAA
139354588 GAAACTTGTATAGGTGCTCTCCTCTACTGAT
1 GAAACTTGTATAGGTGCTCTCCTCTACTGAT
139354619 GAAACTTGTATAGGTGCTCTCCTCTACTGAT
1 GAAACTTGTATAGGTGCTCTCCTCTACTGAT
139354650 GAAA
1 GAAA
139354654 GTTGGAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (31 bp):
GAAACTTGTATAGGTGCTCTCCTCTACTGAT
Found at i:139359027 original size:50 final size:51
Alignment explanation
Indices: 139358952--139359054 Score: 181
Period size: 50 Copynumber: 2.0 Consensus size: 51
139358942 ATAAAGCTGG
*
139358952 AACAGAATAAGAGAGAAAATTAACAGCCGGTAAAGG-AAAAAGACCTTAGA
1 AACAGAATAAGAAAGAAAATTAACAGCCGGTAAAGGAAAAAAGACCTTAGA
*
139359002 AACAGAATAAGAAAGAAAATTAACAGCCGGTAAAGGAAAAAAGACGTTAGA
1 AACAGAATAAGAAAGAAAATTAACAGCCGGTAAAGGAAAAAAGACCTTAGA
139359053 AA
1 AA
139359055 AAAATTAAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 35 0.70
51 15 0.30
ACGTcount: A:0.56, C:0.11, G:0.21, T:0.12
Consensus pattern (51 bp):
AACAGAATAAGAAAGAAAATTAACAGCCGGTAAAGGAAAAAAGACCTTAGA
Found at i:139364152 original size:32 final size:33
Alignment explanation
Indices: 139364103--139364170 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
139364093 AACCCTTAGA
*
139364103 CCCCTAAACCGGAATATCCTTCG-AATGGGATAT
1 CCCCTAAACCGGAATATCCCT-GAAATGGGATAT
*
139364136 CCCCT-AACCGGGATATCCCTGAAATGGGATAT
1 CCCCTAAACCGGAATATCCCTGAAATGGGATAT
139364168 CCC
1 CCC
139364171 TAGTATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 1 0.03
32 26 0.81
33 5 0.16
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (33 bp):
CCCCTAAACCGGAATATCCCTGAAATGGGATAT
Found at i:139364164 original size:16 final size:15
Alignment explanation
Indices: 139364126--139364172 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
139364116 ATATCCTTCG
139364126 AATGGGATATCCCCTA
1 AATGGGATAT-CCCTA
**
139364142 ACCGGGATATCCCTGA
1 AATGGGATATCCCT-A
139364158 AATGGGATATCCCTA
1 AATGGGATATCCCTA
139364173 GTATGAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (15 bp):
AATGGGATATCCCTA
Found at i:139370185 original size:39 final size:39
Alignment explanation
Indices: 139370121--139370201 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
139370111 GGTGGTGACG
*
139370121 GGTGGACCGATGGTGACTACCTGACTGGTGAACGATGAT
1 GGTGGACCGATGGTGACTACCTGACTGGTGAACGACGAT
* * *
139370160 GGTGTACCGGTGGTGACTGCCTGACTGGTGAACGACGAT
1 GGTGGACCGATGGTGACTACCTGACTGGTGAACGACGAT
139370199 GGT
1 GGT
139370202 TGTGGCCGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.19, G:0.38, T:0.23
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCTGACTGGTGAACGACGAT
Found at i:139373876 original size:31 final size:31
Alignment explanation
Indices: 139373838--139373907 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
139373828 TACCGAAACC
* *
139373838 GGATATCCGCAGGT-GGGATATACCTCAGCCG
1 GGATATCC-CAAGTCGGGATATACCTAAGCCG
* *
139373869 GGCTATCCTAAGTCGGGATATACCTAAGCCG
1 GGATATCCCAAGTCGGGATATACCTAAGCCG
139373900 GGATATCC
1 GGATATCC
139373908 TCGGAATGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (31 bp):
GGATATCCCAAGTCGGGATATACCTAAGCCG
Found at i:139373896 original size:16 final size:16
Alignment explanation
Indices: 139373852--139373905 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
139373842 ATCCGCAGGT
*
139373852 GGGATATACCTCAGCC
1 GGGATATACCTAAGCC
* *
139373868 GGGCTAT-CCTAAGTC
1 GGGATATACCTAAGCC
139373883 GGGATATACCTAAGCC
1 GGGATATACCTAAGCC
139373899 GGGATAT
1 GGGATAT
139373906 CCTCGGAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (16 bp):
GGGATATACCTAAGCC
Found at i:139374120 original size:42 final size:43
Alignment explanation
Indices: 139374026--139374140 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 43
139374016 CGGACCGGGA
* * * * *
139374026 TGGGATATCAGAGGGGTATCCCCGGAATTGATTATTCTAAGAG
1 TGGGATATGAGAGGGATATCCCTGGAATAGATTATTCCAAGAG
* *
139374069 -GGCAAATGAGAGGGATATCCCTGGAATAGATTATTCCAAG-G
1 TGGGATATGAGAGGGATATCCCTGGAATAGATTATTCCAAGAG
* * * *
139374110 TGGGATATGAGCGGTATTTACCTGGAATAGA
1 TGGGATATGAGAGGGATATCCCTGGAATAGA
139374141 AAAGAGAATG
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (43 bp):
TGGGATATGAGAGGGATATCCCTGGAATAGATTATTCCAAGAG
Found at i:139379127 original size:31 final size:31
Alignment explanation
Indices: 139379089--139379151 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
139379079 AGTACGAGAA
139379089 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
1 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
139379120 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
1 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
139379151 G
1 G
139379152 AAATAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.33, T:0.06
Consensus pattern (31 bp):
GGGAGGAAGAGAGAATAATGAAAACAAAAAG
Found at i:139381490 original size:39 final size:39
Alignment explanation
Indices: 139381436--139381518 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
139381426 GGTGGTGACG
*
139381436 GGTGGACCAATGGTGACTACCTGACTGGTGAACGATGAT
1 GGTGGACCAATGGTGACTACCTGACTGGTGAACGACGAT
** *
139381475 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGACGAT
1 GGTGGACCAATGGTGACTACCTGACTGGTGAACGACGAT
139381514 GGTGG
1 GGTGG
139381519 TGGCCAGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.18, G:0.40, T:0.22
Consensus pattern (39 bp):
GGTGGACCAATGGTGACTACCTGACTGGTGAACGACGAT
Found at i:139382790 original size:34 final size:35
Alignment explanation
Indices: 139382728--139382798 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
139382718 TAGAGAAGAA
139382728 AGCTAATTATGTACCAAAAAAGAGGGAGAAACTCT
1 AGCTAATTATGTACCAAAAAAGAGGGAGAAACTCT
139382763 AGCTAATTATGTACCAAAAAAGA-GGAGAAACTCT
1 AGCTAATTATGTACCAAAAAAGAGGGAGAAACTCT
139382797 AG
1 AG
139382799 GTAAAGAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 13 0.36
35 23 0.64
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (35 bp):
AGCTAATTATGTACCAAAAAAGAGGGAGAAACTCT
Found at i:139384634 original size:16 final size:16
Alignment explanation
Indices: 139384613--139384644 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
139384603 TAATATTCAA
139384613 CTGAAACTATTCTCTT
1 CTGAAACTATTCTCTT
139384629 CTGAAACTATTCTCTT
1 CTGAAACTATTCTCTT
139384645 TCTTCCACGC
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:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (16 bp):
CTGAAACTATTCTCTT
Found at i:139388006 original size:21 final size:21
Alignment explanation
Indices: 139387982--139388032 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
139387972 GTTAAAAATA
139387982 TGAACCGGACACCAAAACAAC
1 TGAACCGGACACCAAAACAAC
139388003 TGAACCGGACACCAAAACAAC
1 TGAACCGGACACCAAAACAAC
139388024 TGAACCGGA
1 TGAACCGGA
139388033 ACGGAATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.31, G:0.18, T:0.06
Consensus pattern (21 bp):
TGAACCGGACACCAAAACAAC
Found at i:139390211 original size:262 final size:262
Alignment explanation
Indices: 139389746--139390273 Score: 1029
Period size: 262 Copynumber: 2.0 Consensus size: 262
139389736 CAATCACATA
139389746 TACAACAAGCAAGTAGTGGAGTGGATGAAAAGTTTGAAACCTTAGGTTATTTGTTCTATGGTCTG
1 TACAACAAGCAAGTAGTGGAGTGGATGAAAAGTTTGAAACCTTAGGTTATTTGTTCTATGGTCTG
139389811 CTGACAGAAATTGTAATCTCCACCGTTAAGGTTAGAATATCATTCACAAATCTCAAAAGGAAGTA
66 CTGACAGAAATTGTAATCTCCACCGTTAAGGTTAGAATATCATTCACAAATCTCAAAAGGAAGTA
139389876 GATATCACAACTATGTATGATGGCAGATTGCACCAAAGTTGTAGCAGACTTTTGTCTTGTCACAT
131 GATATCACAACTATGTATGATGGCAGATTGCACCAAAGTTGTAGCAGACTTTTGTCTTGTCACAT
*
139389941 TTCAGTAGGAATAATTATGTATGTATATATTTTCTTCCAACTTGATTAGGCAATATGCATATTTC
196 TTCAGTAGGAATAATTATGTATGTATATATTTTCTTCCAACTTGATTAAGCAATATGCATATTTC
139390006 CT
261 CT
139390008 TACAACAAGCAAGTAGTGGAGTGGATGAAAAGTTTGAAACCTTAGGTTATTTGTTCTATGGTCTG
1 TACAACAAGCAAGTAGTGGAGTGGATGAAAAGTTTGAAACCTTAGGTTATTTGTTCTATGGTCTG
*
139390073 CTGACAGAAATTGTAGTCTCCACCGTTAAGGTTAGAATATCATTCACAAATCTCAAAAGGAAGTA
66 CTGACAGAAATTGTAATCTCCACCGTTAAGGTTAGAATATCATTCACAAATCTCAAAAGGAAGTA
139390138 GATATCACAACTATGTATGATGGCAGATTGCACCAAAGTTGTAGCAGACTTTTGTCTTGTCACAT
131 GATATCACAACTATGTATGATGGCAGATTGCACCAAAGTTGTAGCAGACTTTTGTCTTGTCACAT
*
139390203 TTCAGTAGGAATAATTATGTATGTATATATTTTCTTCCAACTTTATTAAGCAATATGCATATTTC
196 TTCAGTAGGAATAATTATGTATGTATATATTTTCTTCCAACTTGATTAAGCAATATGCATATTTC
139390268 CT
261 CT
139390270 TACA
1 TACA
139390274 GTCCTATGGC
Statistics
Matches: 263, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
262 263 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (262 bp):
TACAACAAGCAAGTAGTGGAGTGGATGAAAAGTTTGAAACCTTAGGTTATTTGTTCTATGGTCTG
CTGACAGAAATTGTAATCTCCACCGTTAAGGTTAGAATATCATTCACAAATCTCAAAAGGAAGTA
GATATCACAACTATGTATGATGGCAGATTGCACCAAAGTTGTAGCAGACTTTTGTCTTGTCACAT
TTCAGTAGGAATAATTATGTATGTATATATTTTCTTCCAACTTGATTAAGCAATATGCATATTTC
CT
Found at i:139394314 original size:11 final size:11
Alignment explanation
Indices: 139394300--139394347 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
139394290 ATTTTTTTTT
139394300 TATTTTATTAC
1 TATTTTATTAC
*
139394311 TATTTTATTAT
1 TATTTTATTAC
* **
139394322 TATATTGCTAC
1 TATTTTATTAC
*
139394333 TATTTTATTAT
1 TATTTTATTAC
139394344 TATT
1 TATT
139394348 ATTTGGATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAC
Found at i:139394324 original size:22 final size:21
Alignment explanation
Indices: 139394270--139394347 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
139394260 AAAAATTATT
* **
139394270 TTTTAATATTATTTTTTGTTA
1 TTTTATTATTATTTTTTACTA
* *
139394291 TTTTTTTTTTATTTTATTACTA
1 TTTTATTATTATTTT-TTACTA
**
139394313 TTTTATTATTATATTGCTACTA
1 TTTTATTATTAT-TTTTTACTA
139394335 TTTTATTATTATT
1 TTTTATTATTATT
139394348 ATTTGGATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.28
22 31 0.67
23 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.71
Consensus pattern (21 bp):
TTTTATTATTATTTTTTACTA
Found at i:139394413 original size:30 final size:30
Alignment explanation
Indices: 139394379--139394436 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
139394369 TATTTTTTAA
139394379 TAATTTTGTTATTATTTTAAAGAAATTTGT
1 TAATTTTGTTATTATTTTAAAGAAATTTGT
* *
139394409 TAATTTTGTTATTATTTTAGAGATATTT
1 TAATTTTGTTATTATTTTAAAGAAATTT
139394437 ACTTATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGAAATTTGT
Found at i:139394503 original size:21 final size:19
Alignment explanation
Indices: 139394479--139394527 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
139394469 AAGTATACAT
*
139394479 ATTTTTTAAAATTTATTTTTA
1 ATTTTTTAAAA-GTA-TTTTA
*
139394500 ATTTTTGAAAAGTATTTTA
1 ATTTTTTAAAAGTATTTTA
139394519 ATATTTTTA
1 AT-TTTTTA
139394528 GTATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.29
20 7 0.29
21 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTTTTTAAAAGTATTTTA
Found at i:139394523 original size:28 final size:27
Alignment explanation
Indices: 139394492--139394557 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 27
139394482 TTTTAAAATT
*
139394492 TATTTTTAATTTTTGAAAAGTATTTTA-A
1 TATTTTTAATTTTT-AAAA-TATTATATA
*
139394520 TATTTTTAGTATTTTTAATATATTATATA
1 TATTTTTA--ATTTTTAAAATATTATATA
139394549 TATTTTTAA
1 TATTTTTAA
139394558 ATTATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 14 0.42
29 12 0.36
30 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTTAATTTTTAAAATATTATATA
Found at i:139400963 original size:2 final size:2
Alignment explanation
Indices: 139400956--139400990 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
139400946 AGTATGGTAA
139400956 CT CT CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
139400991 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:139418926 original size:25 final size:26
Alignment explanation
Indices: 139418892--139418959 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
139418882 GGGTTAATAA
139418892 ATTCGCACACATAGTGCATA-TATT-C
1 ATTCGCACACATAGTGC-TACTATTCC
*
139418917 ATTCGCACACATAGTGCTAGCTTTTCC
1 ATTCGCACACATAGTGCTA-CTATTCC
*
139418944 ATACGCACACATAGTG
1 ATTCGCACACATAGTG
139418960 TTGCCCCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 2 0.05
25 17 0.45
26 3 0.08
27 16 0.42
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (26 bp):
ATTCGCACACATAGTGCTACTATTCC
Found at i:139418950 original size:27 final size:25
Alignment explanation
Indices: 139418895--139418959 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 25
139418885 TTAATAAATT
*
139418895 CGCACACATAGTGCATATATTCATT
1 CGCACACATAGTGCATATATTCATA
*
139418920 CGCACACATAGTGC-TAGCTTTTCCATA
1 CGCACACATAGTGCATA--TATT-CATA
139418947 CGCACACATAGTG
1 CGCACACATAGTG
139418960 TTGCCCCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 14 0.40
26 3 0.09
27 16 0.46
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (25 bp):
CGCACACATAGTGCATATATTCATA
Found at i:139425668 original size:2 final size:2
Alignment explanation
Indices: 139425663--139425691 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
139425653 GAGTATGCGC
139425663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
139425692 GTCAAGATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:139426644 original size:25 final size:27
Alignment explanation
Indices: 139426616--139426707 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 27
139426606 TGGTTAATAA
139426616 ATTCGCACACATAGTGCATA-TATT-C
1 ATTCGCACACATAGTGCATACTATTCC
*
139426641 ATTCGCACACATAGTG-ATAGCTTTTCC
1 ATTCGCACACATAGTGCATA-CTATTCC
* * *
139426668 ATACGCACACATAGTGC-TGC---CCC
1 ATTCGCACACATAGTGCATACTATTCC
139426691 ATTCGCACACATAGTGC
1 ATTCGCACACATAGTGC
139426708 CCTTTTCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 18 0.31
24 3 0.05
25 16 0.28
26 4 0.07
27 17 0.29
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ATTCGCACACATAGTGCATACTATTCC
Found at i:139426674 original size:27 final size:25
Alignment explanation
Indices: 139426619--139426684 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 25
139426609 TTAATAAATT
*
139426619 CGCACACATAGTGCATATATTCATT
1 CGCACACATAGTGCATATATTCATA
*
139426644 CGCACACATAGTG-ATAGCTTTTCCATA
1 CGCACACATAGTGCATA--TATT-CATA
139426671 CGCACACATAGTGC
1 CGCACACATAGTGC
139426685 TGCCCCATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 3 0.09
25 13 0.37
26 3 0.09
27 16 0.46
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (25 bp):
CGCACACATAGTGCATATATTCATA
Found at i:139426757 original size:9 final size:9
Alignment explanation
Indices: 139426745--139426774 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
139426735 ATAGTACAAC
139426745 AAAAATAAA
1 AAAAATAAA
139426754 AAAAAT-AA
1 AAAAATAAA
139426762 AAAAATAAA
1 AAAAATAAA
139426771 AAAA
1 AAAA
139426775 TAGCACATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:139426763 original size:8 final size:8
Alignment explanation
Indices: 139426745--139426776 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
139426735 ATAGTACAAC
139426745 AAAAATAAA
1 AAAAAT-AA
139426754 AAAAATAA
1 AAAAATAA
139426762 AAAAATAA
1 AAAAATAA
139426770 AAAAATA
1 AAAAATA
139426777 GCACATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:139435122 original size:44 final size:46
Alignment explanation
Indices: 139435056--139435231 Score: 155
Period size: 47 Copynumber: 3.8 Consensus size: 46
139435046 GTTATTGTGA
139435056 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGT
* *
139435100 GTCAGTGTAAGACCATGT-TGGGACATGGCATCGGC-ACGGATATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAC-GAGATGT
* * * ** * *
139435145 GAGAGCTAGTGTAAGACCATGTCAGGGACATGGCATTGAAT-TGATGGATGA
1 ----GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA--GATGT
* *
139435196 GCCAGTGTAAGACCATGTTTGGGACATGACATCGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
139435232 ATTATACCCT
Statistics
Matches: 103, Mismatches: 18, Indels: 19
0.74 0.13 0.14
Matches are distributed among these distances:
44 21 0.20
45 19 0.18
47 29 0.28
49 18 0.17
50 13 0.13
51 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGT
Found at i:139435749 original size:44 final size:44
Alignment explanation
Indices: 139435701--139435789 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
139435691 ATATTTTGGA
139435701 AATTGAGTTAGAGGATGAATAAAATGTTAAATTAAAGCCTAATG
1 AATTGAGTTAGAGGATGAATAAAATGTTAAATTAAAGCCTAATG
*
139435745 AATTGAGTTAGAGGCTGAATAAAATGTTAAATTAAAGCCTAATG
1 AATTGAGTTAGAGGATGAATAAAATGTTAAATTAAAGCCTAATG
139435789 A
1 A
139435790 GTAAAGTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (44 bp):
AATTGAGTTAGAGGATGAATAAAATGTTAAATTAAAGCCTAATG
Found at i:139444584 original size:2 final size:2
Alignment explanation
Indices: 139444577--139444613 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
139444567 AACAAATTAG
*
139444577 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
139444614 TACAAAGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:139446816 original size:87 final size:87
Alignment explanation
Indices: 139446711--139446890 Score: 351
Period size: 87 Copynumber: 2.1 Consensus size: 87
139446701 TAATAGAATA
139446711 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
1 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
*
139446776 ATAGTAAAAGGTATGTATATAT
66 ATAATAAAAGGTATGTATATAT
139446798 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
1 ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
139446863 ATAATAAAAGGTATGTATATAT
66 ATAATAAAAGGTATGTATATAT
139446885 ATAATA
1 ATAATA
139446891 GTAATAATGG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (87 bp):
ATAATAACCATGTAAGTGATAAAAATAATAATGGTAATAATATTTAAAATATATGTACATGAATA
ATAATAAAAGGTATGTATATAT
Found at i:139446914 original size:3 final size:3
Alignment explanation
Indices: 139446885--139447046 Score: 94
Period size: 3 Copynumber: 53.3 Consensus size: 3
139446875 ATGTATATAT
* * * * * * * * *
139446885 ATA ATA GTA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
139446932 A-A ATA ATA GTA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * *
139446979 ATA ATG AGG ATA AAA ATA ATA ACA ATA ATA TATCA AGCA ACAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A A-TA A-TA ATA ATA
* *
139447028 ATG ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
139447047 AGAAATGGGA
Statistics
Matches: 117, Mismatches: 37, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
2 2 0.02
3 107 0.91
4 7 0.06
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:139449265 original size:47 final size:47
Alignment explanation
Indices: 139449159--139449266 Score: 148
Period size: 47 Copynumber: 2.3 Consensus size: 47
139449149 GGATAAGCAT
*
139449159 ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTACAC
1 ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTACAC
* * *
139449206 AAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-ACAC
1 ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTACAC
139449253 ATAGTG-TCTCATCG
1 ATAGTGCT-TCATCG
139449267 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (47 bp):
ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTACAC
Found at i:139456518 original size:47 final size:47
Alignment explanation
Indices: 139456409--139456519 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
139456399 CCGGGATAAG
*
139456409 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
139456456 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
139456503 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
139456520 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:139459135 original size:40 final size:40
Alignment explanation
Indices: 139459090--139459256 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
139459080 CGGAATATAA
139459090 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
139459130 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
139459170 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
139459210 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
139459249 CCGGATAT
1 CCGGATAT
139459257 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:139459240 original size:80 final size:79
Alignment explanation
Indices: 139459106--139459256 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
139459096 ATAATCACGT
*
139459106 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
139459171 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
139459186 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
139459249 CCGGATAT
64 CCGGATAT
139459257 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:139467189 original size:40 final size:39
Alignment explanation
Indices: 139467078--139467228 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
139467068 TTAATCACGT
* * *
139467078 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
139467118 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
139467158 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
139467198 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
139467229 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:139467212 original size:80 final size:79
Alignment explanation
Indices: 139467078--139467228 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
139467068 TTAATCACGT
*
139467078 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
139467143 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
139467158 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
139467221 CCGGATAT
64 CCGGATAT
139467229 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:139470367 original size:47 final size:46
Alignment explanation
Indices: 139470127--139470387 Score: 165
Period size: 47 Copynumber: 5.5 Consensus size: 46
139470117 TTGCCAATGC
** * *
139470127 CATGTCCCAGACATGGTCTTACACTAGCTATCTTCAT-GGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGC-A-C-TCATCTTACGCTGATG
* *
139470175 TCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTATACGTACTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCACTCATCT-TACG--CTGATG
* * ** * *
139470225 CATGTCCTAGATAT-GTCTTACACTAGCACGAAGCTTA-GCTGATA
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATCTTACGCTGATG
* ** * * *
139470269 CGTGTCCCAGACA-CATCTTACATTGGCTAC-CATCATTGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TT-ACGCTGATG
* * *
139470316 CATGTCCCAGACA-CGTCTTACACTGGCACTCATCTCTACGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATCT-TACGCTGATG
* *
139470362 CCATGTCTCAAACATGGTCTTACACT
1 -CATGTCCCAGACATGGTCTTACACT
139470388 GGCTAGCGTA
Statistics
Matches: 169, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
44 27 0.16
45 4 0.02
46 16 0.09
47 49 0.29
48 28 0.17
49 40 0.24
50 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCATCTTACGCTGATG
Found at i:139470414 original size:94 final size:94
Alignment explanation
Indices: 139470308--139470478 Score: 261
Period size: 94 Copynumber: 1.8 Consensus size: 94
139470298 CCATCATTGA
* * * *
139470308 GGCTGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCTCAA
1 GGCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCACGTCCCAA
139470373 ACATGGTCTTACACTGGCTAGCGTAATGT
66 ACATGGTCTTACACTGGCTAGCGTAATGT
* * * * *
139470402 GGCTGATGCATGTCCCGGACACGTCTTACACTAGCCCTCGTCTCAATGTCGATGCCACGTCCCAA
1 GGCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCACGTCCCAA
139470467 ACATGGTCTTAC
66 ACATGGTCTTAC
139470479 CCTAGCTCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (94 bp):
GGCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCACGTCCCAA
ACATGGTCTTACACTGGCTAGCGTAATGT
Found at i:139485244 original size:40 final size:40
Alignment explanation
Indices: 139484845--139485232 Score: 508
Period size: 40 Copynumber: 9.7 Consensus size: 40
139484835 AGGTCTCGAC
139484845 GATG-ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
139484884 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
* **
139484924 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
*** ** *
139484964 GATGTATCCGAAATAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
139485004 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
*
139485044 GATGTATCCGGGCCAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
** **
139485084 GATGTATCCGGAATAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
* ****
139485124 GATGTATCCGGGATAAATTTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
* * * * * *
139485164 GATATATCCGTGCTAAACCCCGAAGAGCATTCATACTGGT
1 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
* * * *
139485204 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGCCCCGAAGAGCA
139485233 ATCATGCTGG
Statistics
Matches: 313, Mismatches: 35, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.01
40 309 0.99
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
Found at i:139487422 original size:69 final size:70
Alignment explanation
Indices: 139487290--139487422 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
139487280 TAGTTTATTA
* * * *
139487290 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
139487355 CTTAG
66 CTTAG
139487360 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
139487423 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:139488796 original size:47 final size:47
Alignment explanation
Indices: 139488745--139489039 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
139488735 ACAAGATATG
*
139488745 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
139488792 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
139488839 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * * *
139488886 TATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
139488933 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * * * *
139488980 TATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
139489027 TAAATGTGATAAG
1 TATATGTGATAAG
139489040 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
Found at i:139490769 original size:39 final size:39
Alignment explanation
Indices: 139490714--139490844 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
139490704 GGGTGTTACA
139490714 GGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGCT
1 GGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGCT
* * *
139490753 GGAAATATATCTGGACTTGAAGTCCGTAGGCTTTATGCT
1 GGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGCT
* * *
139490792 GGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCT
1 GGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCT
139490831 GGAAAAATATCCGG
1 GGAAAAATATCCGG
139490845 CCTAAGTCCC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 81 0.98
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (39 bp):
GGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGCT
Found at i:139490869 original size:39 final size:39
Alignment explanation
Indices: 139490837--139491090 Score: 400
Period size: 39 Copynumber: 6.5 Consensus size: 39
139490827 TGCTGGAAAA
* *
139490837 ATATCCGGCCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* * *
139490876 ATATCCGAGCTAAGTCCTGAAGGCATTCGTGCTGATATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
139490915 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
139490954 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
139490993 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
139491032 ATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
139491071 ATATCCGGGCTTAAGTCCCG
1 ATATCCGGGC-TAAGTCCCG
139491091 CATGCATTGT
Statistics
Matches: 198, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 189 0.95
40 9 0.05
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:139490870 original size:78 final size:77
Alignment explanation
Indices: 139490714--139491090 Score: 282
Period size: 78 Copynumber: 4.8 Consensus size: 77
139490704 GGGTGTTACA
* * * * *
139490714 GGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCTGGAAATATATCTGGACTTGAAGT-C
1 GGAAATATATCCGGAC-T-AAGTCCGAAGGCATTAGTGCTGGAAATATATCCGG-CCT-AAGTCC
* *
139490777 CGTAGGC-TTTATGCT
62 CGAAGGCATTCATGCT
* * *
139490792 GGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATCCGGCCTAAGTCCCG
1 GGAAATATATCCGGAC-T-AAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGCCTAAGTCCCG
*
139490856 AAGGCATTCGTGCT
64 AAGGCATTCATGCT
*** * * * *
139490870 GGTGTTATATCC-GAGCTAAGTCCTGAAGGCATTCGTGCT-GATATTATATCCGGGCTAAGTCCT
1 GGAAATATATCCGGA-CTAAGTCC-GAAGGCATTAGTGCTGGA-AATATATCCGGCCTAAGTCCC
*
139490933 GAAGGCATTCGTGCT
63 GAAGGCATTCATGCT
* * * * *** *
139490948 GGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCGGGCTAAGTCCCGA
1 GGAAATATATCCGGACTAAGT-CCGAAGGCATTAGTGCTGGAAATATATCCGGCCTAAGTCCCGA
139491013 AGGCATTCATGCT
65 AGGCATTCATGCT
*** * * * *
139491026 GGTGTTATATCCAGG-CTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTTAAGTCCC
1 GGAAATATATCC-GGACTAAGT-CCGAAGGCATTAGTGCTGGAAATATATCC-GGCCTAAGTCCC
139491090 G
63 G
139491091 CATGCATTGT
Statistics
Matches: 256, Mismatches: 31, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
76 10 0.04
77 21 0.08
78 208 0.81
79 17 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (77 bp):
GGAAATATATCCGGACTAAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGCCTAAGTCCCGAA
GGCATTCATGCT
Found at i:139490920 original size:117 final size:117
Alignment explanation
Indices: 139490797--139491107 Score: 342
Period size: 117 Copynumber: 2.7 Consensus size: 117
139490787 ATGCTGGAAA
*
139490797 TATATCCGGACTTAAAGTCC-GCAGGC-TAAGTGCTGGAAAAATATCCGGCCTAAGTCCCGAAGG
1 TATATCCGGAC-T-AAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGCCTAAGTCCCGAAGG
* * *
139490860 CATTCGTGCTGGTGTTATATCCGAGCTAAGTCCTGAAGGCATTCGTGCTGATAT
64 CATTCGTGCTGGTGCTATATCCGAGCTAAGTCCCGAAGGCATTCATGCTGATAT
* ** * ** *
139490914 TATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCA
1 TATATCCGGACTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGCCTAAGTCCCGAAGGCA
* * *
139490979 TTCGTGCTGGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGT
66 TTCGTGCTGGTGCTATATCCGAGCTAAGTCCCGAAGGCATTCATGCTGATAT
* ** * ** * * *
139491031 TATATCCAGG-CTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTTAAGTCCCGCATG
1 TATATCC-GGACTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCC-GGCCTAAGTCCCGAAGG
*
139491095 CATT-GTGGTGGTG
64 CATTCGTGCTGGTG
139491108 ATTTGATTTT
Statistics
Matches: 170, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
115 6 0.04
116 6 0.04
117 139 0.82
118 19 0.11
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (117 bp):
TATATCCGGACTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGGCCTAAGTCCCGAAGGCA
TTCGTGCTGGTGCTATATCCGAGCTAAGTCCCGAAGGCATTCATGCTGATAT
Found at i:139496793 original size:39 final size:39
Alignment explanation
Indices: 139496739--139496849 Score: 204
Period size: 39 Copynumber: 2.8 Consensus size: 39
139496729 TGCATGGTAT
*
139496739 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
139496778 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
139496817 TGGAAATATATCCGGACTTAAAGTCCGCAGGCT
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCT
139496850 AAGTGCTGAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:139496857 original size:39 final size:39
Alignment explanation
Indices: 139496739--139496869 Score: 203
Period size: 39 Copynumber: 3.4 Consensus size: 39
139496729 TGCATGGTAT
139496739 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
139496778 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
139496817 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
139496856 T-GAAAAATATCCGG
1 TGGAAAAATATCCGG
139496870 GCTAAGTCCC
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
38 14 0.16
39 73 0.84
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:139496907 original size:39 final size:39
Alignment explanation
Indices: 139496862--139497109 Score: 382
Period size: 39 Copynumber: 6.5 Consensus size: 39
139496852 GTGCTGAAAA
139496862 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
139496901 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCT-GTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
139496939 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
139496978 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
139497017 ATAT-CGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
139497055 ATATCTAGGC----TCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
139497090 ATATCCGGGCTTAAGTCCCG
1 ATATCCGGGC-TAAGTCCCG
139497110 CATGCTTTGT
Statistics
Matches: 192, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
35 32 0.17
38 75 0.39
39 80 0.42
40 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:139496933 original size:77 final size:78
Alignment explanation
Indices: 139496862--139497109 Score: 382
Period size: 77 Copynumber: 3.2 Consensus size: 78
139496852 GTGCTGAAAA
*
139496862 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCAT
139496927 TCGTGCT-GTATT
66 TCGTGCTGGTATT
*
139496939 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCAT
**
139497004 TCGTGCTGGTGCT
66 TCGTGCTGGTATT
* **
139497017 ATAT-CGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCTAGGC----TCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCAT
139497077 TCGTGCTGGTATT
66 TCGTGCTGGTATT
139497090 ATATCCGGGCTTAAGTCCCG
1 ATATCCGGGC-TAAGTCCCG
139497110 CATGCTTTGT
Statistics
Matches: 158, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
73 27 0.17
74 5 0.03
75 9 0.06
77 110 0.70
78 7 0.04
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (78 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TCGTGCTGGTATT
Found at i:139499166 original size:16 final size:18
Alignment explanation
Indices: 139499139--139499172 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
139499129 TTAGAATTGG
139499139 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
139499156 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
139499173 TTTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:139502660 original size:40 final size:40
Alignment explanation
Indices: 139502615--139502781 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
139502605 CGGAATATAA
139502615 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
139502655 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
139502695 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
139502735 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
139502774 CCGGATAT
1 CCGGATAT
139502782 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:139502765 original size:80 final size:79
Alignment explanation
Indices: 139502631--139502781 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
139502621 ATAATCACGT
*
139502631 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
139502696 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
139502711 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
139502774 CCGGATAT
64 CCGGATAT
139502782 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:139510671 original size:40 final size:40
Alignment explanation
Indices: 139510626--139510792 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
139510616 CGGAATATAA
139510626 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
139510666 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
139510706 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
139510746 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
139510785 CCGGATAT
1 CCGGATAT
139510793 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:139510776 original size:80 final size:79
Alignment explanation
Indices: 139510642--139510792 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
139510632 ATAATCACGT
*
139510642 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
139510707 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
139510722 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
139510785 CCGGATAT
64 CCGGATAT
139510793 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:139512045 original size:56 final size:53
Alignment explanation
Indices: 139511982--139512090 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
139511972 CCCCCTTTTC
139511982 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
139512038 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
139512091 TTTTTTTCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 6 0.12
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:139519663 original size:40 final size:40
Alignment explanation
Indices: 139519619--139519706 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
139519609 GTTCAAAACA
* * ***
139519619 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
139519659 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
139519699 CCTTCGGG
1 CCTTCGGG
139519707 CTTAGCCGGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:139519745 original size:49 final size:50
Alignment explanation
Indices: 139519663--139519762 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 50
139519653 CAAATGCCTT
139519663 CGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
1 CGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
* * * *
139519713 CGGG-CTTAGCCCGGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGC
1 CGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
139519762 C
1 C
139519763 CGAATATCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 42 0.91
50 4 0.09
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (50 bp):
CGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
Found at i:139519771 original size:39 final size:39
Alignment explanation
Indices: 139519713--139519810 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
139519703 CGGGCTTAGC
*
139519713 CGGGCTTAGCCCGGGTATCATAGCTCGCACAATTGCCTT
1 CGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTT
*
139519752 CGGGCTTAGCCCGAATATCATAGCTCGCACAATTGCCTT
1 CGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTT
*
139519791 CTGGCTTAGCCCGGATATCA
1 CGGGCTTAGCCCGGATATCA
139519811 CTCGAACATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (39 bp):
CGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTT
Found at i:139524514 original size:27 final size:26
Alignment explanation
Indices: 139524474--139524525 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
139524464 CTTGCTGCAA
*
139524474 TCTGGTGGCCTCGTCACATATATCTGT
1 TCTGGTGACCTCGTCAC-TATATCTGT
*
139524501 TCTGGTGACTTCGTCACTATATCTG
1 TCTGGTGACCTCGTCACTATATCTG
139524526 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACTATATCTGT
Found at i:139524622 original size:27 final size:26
Alignment explanation
Indices: 139524570--139524628 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
139524560 ATATATATAT
*
139524570 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
139524596 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
139524623 ATATCT
1 ATATCT
139524629 AGCAACCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:139531963 original size:26 final size:27
Alignment explanation
Indices: 139531934--139531993 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
139531924 CCACTTATAT
*
139531934 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
139531960 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
139531987 ATATCTG
1 ATATCTG
139531994 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:139538256 original size:14 final size:14
Alignment explanation
Indices: 139538237--139538266 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
139538227 AAGTATGAAA
139538237 TATATGTATTTAGT
1 TATATGTATTTAGT
*
139538251 TATATGTATTTGGT
1 TATATGTATTTAGT
139538265 TA
1 TA
139538267 CCATGACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
TATATGTATTTAGT
Found at i:139541953 original size:21 final size:20
Alignment explanation
Indices: 139541915--139541953 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
139541905 CCCTTGAAAC
* *
139541915 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCATGTGGA
139541935 AGGGCAACACACCCATGTG
1 AGGGC-ACACACCCATGTG
139541954 TTTATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.31, G:0.33, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCATGTGGA
Found at i:139541997 original size:30 final size:30
Alignment explanation
Indices: 139541963--139542023 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
139541953 GTTTATTATA
139541963 ACACGGCCGTGCTGATGGCCTGTGTGACAC
1 ACACGGCCGTGCTGATGGCCTGTGTGACAC
139541993 ACACGGCCGTGCTGATGGCCTGTGTGACAC
1 ACACGGCCGTGCTGATGGCCTGTGTGACAC
139542023 A
1 A
139542024 TCCCTGTCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.30, G:0.33, T:0.20
Consensus pattern (30 bp):
ACACGGCCGTGCTGATGGCCTGTGTGACAC
Found at i:139542959 original size:45 final size:47
Alignment explanation
Indices: 139542849--139543071 Score: 156
Period size: 46 Copynumber: 4.7 Consensus size: 47
139542839 TTGGGTATAA
*
139542849 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA--CACACATAT-CG
*
139542899 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-A-ACACATCAT-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACACAT-ATCG
* * * ** *
139542944 TAGCCGATG-CATGTCCCAGGCAT-GTCTTACATTGGCTTACATCTCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCG
* * * * * * * *
139542990 AGGCTGATG-CATGTCCCAGGCAT-GTCTTACACT-AGCCCTCGTCTCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACACATATC-G
* *
139543037 TTCCAATGCCATGTCCCAGACATGGTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
139543072 GCTCTCATAA
Statistics
Matches: 139, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
44 9 0.06
45 16 0.12
46 55 0.40
47 15 0.11
48 10 0.07
49 1 0.01
50 33 0.24
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCG
Done.