Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 103 of 344
Found at i:34739136 original size:20 final size:20
Alignment explanation
Indices: 34739100--34739140 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34739090 AAATATTTTA
*
34739100 TTTATTTAATTGCTCTATTT
1 TTTATTTAATTGATCTATTT
34739120 TTTATCTTAATT-ATCTATTT
1 TTTAT-TTAATTGATCTATTT
34739140 T
1 T
34739141 AATTGTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATTTAATTGATCTATTT
Found at i:34741752 original size:39 final size:40
Alignment explanation
Indices: 34741657--34741879 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
34741647 TTGAATGATG
*
34741657 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34741695 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34741736 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34741775 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
34741814 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34741853 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34741880 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34741843 original size:79 final size:81
Alignment explanation
Indices: 34741657--34741879 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
34741647 TTGAATGATG
* * *
34741657 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
34741719 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
34741736 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
34741797 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
34741814 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
34741878 TG
66 TG
34741880 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:34741901 original size:79 final size:79
Alignment explanation
Indices: 34741657--34741912 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
34741647 TTGAATGATG
* * * *
34741657 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
34741718 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
34741736 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
34741800 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
34741814 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
34741877 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
34741894 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34741913 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:34763631 original size:22 final size:22
Alignment explanation
Indices: 34763606--34763728 Score: 56
Period size: 22 Copynumber: 5.3 Consensus size: 22
34763596 ACATGCATAT
34763606 ATGTGATAAGGCCGAATGGCAA
1 ATGTGATAAGGCCGAATGGCAA
* * *
34763628 ATGTGGTGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGCA-A
* *
34763652 TATGAGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCAA
*
34763675 ATGTGATGAAGG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGCA-A
* *
34763699 TGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCAA
34763722 ATGTGAT
1 ATGTGAT
34763729 GAATGTGAAC
Statistics
Matches: 72, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
22 20 0.28
23 20 0.28
24 19 0.26
25 13 0.18
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCAA
Found at i:34763725 original size:24 final size:24
Alignment explanation
Indices: 34763657--34763726 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
34763647 GCATATATGA
34763657 GATAAGGCCGAATGGCCAA--TGT
1 GATAAGGCCGAATGGCCAATGTGT
*
34763679 GATGAAGG-TGAACAT-G-CATATGTGT
1 GAT-AAGGCCG-A-ATGGCCA-ATGTGT
34763704 GATAAGGCCGAATGGCCAATGTG
1 GATAAGGCCGAATGGCCAATGTG
34763727 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 13 0.35
25 9 0.24
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.21
Consensus pattern (24 bp):
GATAAGGCCGAATGGCCAATGTGT
Found at i:34763890 original size:47 final size:47
Alignment explanation
Indices: 34763487--34763872 Score: 601
Period size: 47 Copynumber: 8.2 Consensus size: 47
34763477 TTAGGATTTT
** * * *
34763487 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
34763534 ATGTGATGAATGTGAACATGCATATGTGTGACAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34763581 ATGTCATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34763628 ATGTGGTGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34763675 ATGTGATGAAGGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
34763722 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34763769 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34763816 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
34763863 ATGTGATGAA
1 ATGTGATGAA
34763873 CGTGGAAGTG
Statistics
Matches: 310, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 310 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:34763950 original size:46 final size:46
Alignment explanation
Indices: 34763886--34764068 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
34763876 GGAAGTGTAT
* * *
34763886 ATATGGGGAAAAGTCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
34763932 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
34763978 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
34764024 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
34764069 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:34765610 original size:40 final size:40
Alignment explanation
Indices: 34765558--34765913 Score: 514
Period size: 40 Copynumber: 8.9 Consensus size: 40
34765548 GTTATATATG
* *
34765558 ATCCGGGCTAAGTCCCAAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
34765598 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
34765638 ATCCGGGCTAAGTCCCGAAGAGCATACGCGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
34765678 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
34765718 ATCCGGGCTAAGTCCTGAAGAGCATACGTGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
34765758 ATCCGGGCTAAGTCTCGAAGAGTATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
34765798 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * * **
34765838 ATCAGGGTTAAGTCCCAAAGAGCATTCGCACTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
34765878 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
34765914 ATGTGTATTC
Statistics
Matches: 283, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 283 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:34769922 original size:47 final size:47
Alignment explanation
Indices: 34769868--34770248 Score: 532
Period size: 47 Copynumber: 8.1 Consensus size: 47
34769858 TTAGGATTTT
** * * *
34769868 ATGTGATGAATGTGAATGTGTATATTTGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
34769915 ATGTGATGAATGTGAACATGCATATGTGTGACAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34769962 ATGTGATGAATGTGAA-ATGCATATATGTGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34770008 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34770055 ATGTGATGAAGGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
34770102 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34770149 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
34770196 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
34770243 ATGTGA
1 ATGTGA
34770249 AATGTGTATG
Statistics
Matches: 302, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 42 0.14
47 257 0.85
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:34769989 original size:24 final size:24
Alignment explanation
Indices: 34769962--34770035 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 24
34769952 CGAATGGCCA
34769962 ATGTGATGAATGTGAAATGCATAT
1 ATGTGATGAATGTGAAATGCATAT
* *
34769986 ATGTGAT-AAGGCCG-AATGGCA-A-
1 ATGTGATGAATG-TGAAAT-GCATAT
34770008 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAA-ATGCATAT
34770033 ATG
1 ATG
34770036 AGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
22 8 0.21
23 14 0.36
24 14 0.36
25 3 0.08
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.28
Consensus pattern (24 bp):
ATGTGATGAATGTGAAATGCATAT
Found at i:34770014 original size:22 final size:22
Alignment explanation
Indices: 34769986--34770108 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
34769976 AAATGCATAT
34769986 ATGTGATAAGGCCGAATGGCAA
1 ATGTGATAAGGCCGAATGGCAA
* *
34770008 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGCA-A
* *
34770032 TATGAGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCAA
*
34770055 ATGTGATGAAGG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGCA-A
* *
34770079 TGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCAA
34770102 ATGTGAT
1 ATGTGAT
34770109 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
22 21 0.28
23 20 0.27
24 19 0.26
25 14 0.19
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCAA
Found at i:34770021 original size:140 final size:141
Alignment explanation
Indices: 34769868--34770205 Score: 543
Period size: 140 Copynumber: 2.4 Consensus size: 141
34769858 TTAGGATTTT
** * * *
34769868 ATGTGATGAATGTGAATGTGTATATTTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAGGTGAACA
34769933 TGCATATGTGTGACAAGGACGAATGGCCAATGTGATGAATGTGAA-ATGCATATATGTGATAAGG
66 TGCATATGTGTGACAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
*
34769997 CCGAATGGCAA
131 CAGAATGGCAA
34770008 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAGGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAGGTGAACA
* * * *
34770073 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
66 TGCATATGTGTGACAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
**
34770138 CAGAATGGCCG
131 CAGAATGGCAA
* *
34770149 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAA
34770206 CGTGGAAGTG
Statistics
Matches: 183, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
140 103 0.56
141 80 0.44
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAGGTGAACA
TGCATATGTGTGACAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
CAGAATGGCAA
Found at i:34770105 original size:24 final size:24
Alignment explanation
Indices: 34770037--34770106 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
34770027 GCATATATGA
34770037 GATAAGGCCGAATGGCCAA--TGT
1 GATAAGGCCGAATGGCCAATGTGT
*
34770059 GATGAAGG-TGAACAT-G-CATATGTGT
1 GAT-AAGGCCG-A-ATGGCCA-ATGTGT
34770084 GATAAGGCCGAATGGCCAATGTG
1 GATAAGGCCGAATGGCCAATGTG
34770107 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 13 0.35
25 9 0.24
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.21
Consensus pattern (24 bp):
GATAAGGCCGAATGGCCAATGTGT
Found at i:34770279 original size:46 final size:46
Alignment explanation
Indices: 34770219--34770355 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
34770209 GGAAGTGTAT
34770219 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* *
34770265 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
34770311 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATG
34770356 TGTATATATA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:34770283 original size:234 final size:232
Alignment explanation
Indices: 34769868--34770291 Score: 575
Period size: 234 Copynumber: 1.8 Consensus size: 232
34769858 TTAGGATTTT
** * * *
34769868 ATGTGATGAATGTGAATGTGTATATTTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
* * *
34769933 TGCATATGTGTGACAAGGACGAATGGCCAATGTGATGAATGTGAAATGCATATATGTGATAAGGC
66 TGCATATATGTGACAAGGACGAATGGCCAATGTGATGAACGTGAAATGCATATATGTGATAAAGC
* *
34769998 CGAATGGCAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
131 CGAATGGCAAATGTGA-GAATGTGAACATG-AGATATGAGATAAAGCCGAATGGCCAATGTGATG
34770063 AAGGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
194 AAGGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
34770102 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCGATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
* * * *
34770167 TGCATATATGTGATAAGG-CAGAATGGCCAATGTGATGAACGTGGAAGTGTATATATGTGGTAAA
66 TGCATATATGTGACAAGGAC-GAATGGCCAATGTGATGAACGT-GAAATGCATATATGTGATAAA
* * * *
34770231 GCCGAATGGCTAATGTGA-AATGTGTATGAGATG-GATATGAGGTAAAGCCGAATGGCTAATG
129 GCCGAATGGCAAATGTGAGAATGTG-A--ACATGAGATATGAGATAAAGCCGAATGGCCAATG
34770292 CGAAATGTGT
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
233 7 0.04
234 119 0.73
235 34 0.21
236 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (232 bp):
ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCAGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGACAAGGACGAATGGCCAATGTGATGAACGTGAAATGCATATATGTGATAAAGC
CGAATGGCAAATGTGAGAATGTGAACATGAGATATGAGATAAAGCCGAATGGCCAATGTGATGAA
GGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:34778132 original size:11 final size:11
Alignment explanation
Indices: 34778116--34778141 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34778106 ATTTTTTCTC
34778116 ACATGTACATA
1 ACATGTACATA
34778127 ACATGTACATA
1 ACATGTACATA
34778138 ACAT
1 ACAT
34778142 CTCCATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (11 bp):
ACATGTACATA
Found at i:34783984 original size:30 final size:28
Alignment explanation
Indices: 34783930--34783988 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
34783920 CACATGAGAG
*
34783930 AGAAAAAAGAAAATAAAAGTGAAAAAGAA
1 AGAAAAAAGAAAATAAAAGAG-AAAAGAA
**
34783959 AGAAAAGAAGAAAATATGAGAGAAAAGAA
1 AGAAAA-AAGAAAATAAAAGAGAAAAGAA
34783988 A
1 A
34783989 ACGAGTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (28 bp):
AGAAAAAAGAAAATAAAAGAGAAAAGAA
Found at i:34804746 original size:46 final size:46
Alignment explanation
Indices: 34804678--34804768 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
34804668 TATATATACA
* * *
34804678 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
34804724 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
34804769 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:34804811 original size:22 final size:22
Alignment explanation
Indices: 34804785--34804860 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
34804775 TTCCACGTTC
34804785 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
34804807 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
34804832 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
34804854 ATCACAT
1 ATCACAT
34804861 ATCTGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:34804813 original size:47 final size:47
Alignment explanation
Indices: 34804782--34804980 Score: 344
Period size: 47 Copynumber: 4.2 Consensus size: 47
34804772 CACTTCCACG
*
34804782 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
34804829 TTTATCACATTGGCCATTCGGCCTTATCACATATCTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
34804876 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
34804923 TTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
34804970 TTCATCACATT
1 TTCATCACATT
34804981 AAATCCTAAA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 143 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:34804861 original size:94 final size:94
Alignment explanation
Indices: 34804748--34804980 Score: 351
Period size: 94 Copynumber: 2.5 Consensus size: 94
34804738 TTCGCATTAA
* ** * * *
34804748 CCATTCGGCTTTCCCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTGCCTTATCAC
1 CCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
34804812 ATATATGCATGTTCACATTTATCACATTGG
65 ACATATGCATGTTCACATTCATCACATTGG
* *
34804842 CCATTCGGCCTTATCACATATCTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
34804907 CATATGCATGTTCACATTCATCACATTGG
66 CATATGCATGTTCACATTCATCACATTGG
*
34804936 CCATTCGGCCTTATCACATATGTACATGTTCACATTCATCACATT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATT
34804981 AAATCCTAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
93 1 0.01
94 125 0.99
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (94 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
CATATGCATGTTCACATTCATCACATTGG
Found at i:34804953 original size:22 final size:22
Alignment explanation
Indices: 34804830--34804954 Score: 71
Period size: 22 Copynumber: 5.4 Consensus size: 22
34804820 ATGTTCACAT
34804830 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
* * *
34804852 TTATCACATATCTG-CATGTTC-ACA
1 TTATCACAT-T-GGCCA--TTCGGCC
34804876 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
* *
34804899 TTATCACACATAT-G-CATGTTC-ACA
1 TTAT--CACAT-TGGCCA--TTCGGCC
34804923 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
34804946 TTATCACAT
1 TTATCACAT
34804955 ATGTACATGT
Statistics
Matches: 77, Mismatches: 10, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
22 25 0.32
23 18 0.23
24 18 0.23
25 16 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.34
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGGCC
Found at i:34808102 original size:27 final size:27
Alignment explanation
Indices: 34808071--34808275 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
34808061 TAAATTGTAC
34808071 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34808098 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34808124 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34808152 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
34808180 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34808207 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34808234 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34808261 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34808276 GACTCGATAT
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 135 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34808266 original size:109 final size:109
Alignment explanation
Indices: 34808071--34808275 Score: 286
Period size: 109 Copynumber: 1.9 Consensus size: 109
34808061 TAAATTGTAC
*
34808071 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
* *
34808136 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
34808180 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
* ** * *
34808244 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAATTGACCATACAGCACTAAGTGTGCG
34808276 GACTCGATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 1 0.01
109 82 0.99
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:34811196 original size:31 final size:31
Alignment explanation
Indices: 34811153--34811217 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
34811143 GCGCATGTTC
* * *
34811153 TTAGCCTTGTCCCATGATTTCCATATTCCCT
1 TTAGCCTCGTCCCATGATTGCCATATCCCCT
34811184 TTAGCCTCGTCCCATGATTGCCATATCCCCT
1 TTAGCCTCGTCCCATGATTGCCATATCCCCT
34811215 TTA
1 TTA
34811218 ACTCATCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.34, G:0.11, T:0.38
Consensus pattern (31 bp):
TTAGCCTCGTCCCATGATTGCCATATCCCCT
Found at i:34813735 original size:32 final size:32
Alignment explanation
Indices: 34813698--34813760 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
34813688 ATATAAGTAT
34813698 AAATTATTTATTAAAGATGGAAACAAAATGAA
1 AAATTATTTATTAAAGATGGAAACAAAATGAA
34813730 AAATTATTTATTAAAGATGGAAACAAAATGA
1 AAATTATTTATTAAAGATGGAAACAAAATGA
34813761 CATAGCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.29
Consensus pattern (32 bp):
AAATTATTTATTAAAGATGGAAACAAAATGAA
Found at i:34815219 original size:32 final size:32
Alignment explanation
Indices: 34815141--34815223 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
34815131 AGAAATTTTG
* * *
34815141 GGCCCACACGGTCCAAATTGCCATGCTCATGT
1 GGCCCACACTGCCCAAATTGCCATGCCCATGT
* * *
34815173 GGCCTATA-TGGCCCAAATTGCCATGCCCGTGT
1 GGCCCACACT-GCCCAAATTGCCATGCCCATGT
34815205 GGCCCACACTGCCCAAATT
1 GGCCCACACTGCCCAAATT
34815224 ACCCTGTCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 40 0.98
33 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (32 bp):
GGCCCACACTGCCCAAATTGCCATGCCCATGT
Found at i:34820162 original size:42 final size:43
Alignment explanation
Indices: 34820052--34820190 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 43
34820042 TATGAGTTTA
* * * **
34820052 CGTGTAATACCATA-TTT-GGATATGGCATC-ATTATTAGATTT
1 CGTGTAAGACCATAGTTTGGGACATGGCATCGA-TATGAGATAC
34820093 CGTGTAAGACCAT-GTTTGGGACATGGCATCGATATGAGA-AC
1 CGTGTAAGACCATAGTTTGGGACATGGCATCGATATGAGATAC
*
34820134 CGTGTAAGACCATAG-TTGGG-CTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATAGTTTGGGAC-A-TGGCATCGATATGAGATAC
*
34820177 CATGTAAGACCATA
1 CGTGTAAGACCATA
34820191 TATGGGATAT
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
40 1 0.01
41 34 0.40
42 34 0.40
43 15 0.18
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATAGTTTGGGACATGGCATCGATATGAGATAC
Found at i:34820213 original size:42 final size:40
Alignment explanation
Indices: 34820054--34820201 Score: 127
Period size: 42 Copynumber: 3.5 Consensus size: 40
34820044 TGAGTTTACG
* * * ** *
34820054 TGTAATACCATATTTGGATATGGCATC-ATTATTAGATTTCG
1 TGTAAGACCATATTGGGATATGGCATCGA-TATGAGA-ACCA
* * *
34820095 TGTAAGACCATGTTTGGGACATGGCATCGATATGAGAACCG
1 TGTAAGACCAT-ATTGGGATATGGCATCGATATGAGAACCA
* *
34820136 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATA-TTGGGATA-TGGCATCGATATGAGA-ACCA
34820179 TGTAAGACCATATATGGGATATG
1 TGTAAGACCATAT-TGGGATATG
34820202 ACATTGGTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
41 29 0.33
42 38 0.43
43 21 0.24
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (40 bp):
TGTAAGACCATATTGGGATATGGCATCGATATGAGAACCA
Found at i:34824582 original size:77 final size:77
Alignment explanation
Indices: 34824488--34824644 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 77
34824478 TCTAAAAGTA
*
34824488 AAACCTTTTGTACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
1 AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
34824553 GGATATTAATTC
66 GGATATTAATTC
34824565 AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
1 AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
34824630 GGATATTAATTC
66 GGATATTAATTC
34824642 AAA
1 AAA
34824645 TTAAATCGCG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (77 bp):
AAACCTTTTATACGGGGTTTGCAAATCATCTCGTCACGTACGTTTGCTCAAAATATTTTCCTTTG
GGATATTAATTC
Found at i:34825043 original size:33 final size:34
Alignment explanation
Indices: 34824996--34825067 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
34824986 AACAGTGCAT
* * * * *
34824996 ACAGTAACGGTCTGGGCTTGAGCCCTATTCATTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
34825030 ACAGT-ACAGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
34825063 ACAGT
1 ACAGT
34825068 GTGGGCCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:34826853 original size:20 final size:21
Alignment explanation
Indices: 34826828--34826874 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
34826818 CGGCCCATAT
34826828 ACATGGGCATGTGAGATCA-C
1 ACATGGGCATGTGAGATCAGC
* *
34826848 ACATGGGCATGTGGGATGAGC
1 ACATGGGCATGTGAGATCAGC
34826869 ACATGG
1 ACATGG
34826875 CCATATCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (21 bp):
ACATGGGCATGTGAGATCAGC
Found at i:34828733 original size:26 final size:26
Alignment explanation
Indices: 34828704--34828760 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
34828694 GCACAACTCT
34828704 TGTGAACA-AGCCTAATTCATAGCTCG
1 TGTGAACATA-CCTAATTCATAGCTCG
* * * *
34828730 TGTGAGCATACTTATTTCGTAGCTCG
1 TGTGAACATACCTAATTCATAGCTCG
34828756 TGTGA
1 TGTGA
34828761 GCAATGATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (26 bp):
TGTGAACATACCTAATTCATAGCTCG
Found at i:34830178 original size:31 final size:31
Alignment explanation
Indices: 34830140--34830218 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
34830130 TTTAACGGTT
*
34830140 ACTGGGCCGAAGCCTTTTCATAAGTCAAATA
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATA
* *
34830171 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATA
34830202 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
34830219 ATTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATA
Found at i:34830305 original size:42 final size:42
Alignment explanation
Indices: 34830246--34830333 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
34830236 CCATAGGCCT
* *
34830246 ATTTCAATAACACATGAAATATCAATGAATGTATGCAAGCCC
1 ATTTCAATAACACATGAAATACCAATGAATGTAGGCAAGCCC
*
34830288 ATTTCAATATCACATGAAATACCAATGAATGTAGGCAAGCCC
1 ATTTCAATAACACATGAAATACCAATGAATGTAGGCAAGCCC
34830330 ATTT
1 ATTT
34830334 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (42 bp):
ATTTCAATAACACATGAAATACCAATGAATGTAGGCAAGCCC
Found at i:34830542 original size:26 final size:26
Alignment explanation
Indices: 34830478--34830652 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
34830468 CCTCTTTAAT
**
34830478 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
34830503 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
34830528 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
34830554 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
34830580 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
34830606 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
34830632 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34830653 GCACTTCCTC
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
25 32 0.24
26 104 0.76
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:34830615 original size:78 final size:77
Alignment explanation
Indices: 34830478--34830652 Score: 289
Period size: 78 Copynumber: 2.3 Consensus size: 77
34830468 CCTCTTTAAT
** *
34830478 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTTAATAAACTGGGGCATAAG
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAG
34830542 CCCTTTTCGGTA
66 CCCTTTTCGGTA
*
34830554 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAATTGGGGCATAA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAA
34830619 GCCCTTTTCGGTA
65 GCCCTTTTCGGTA
*
34830632 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34830653 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 10 0.11
77 23 0.25
78 59 0.64
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (77 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAG
CCCTTTTCGGTA
Found at i:34830727 original size:20 final size:20
Alignment explanation
Indices: 34830702--34830777 Score: 113
Period size: 20 Copynumber: 3.9 Consensus size: 20
34830692 TTATGAATTC
*
34830702 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
34830722 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34830742 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
34830762 ATCATGT--ATATCATAC
1 ATCATGTGCATATCATAC
34830778 CCCACGTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 43 0.80
21 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34830733 original size:11 final size:11
Alignment explanation
Indices: 34830702--34830757 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34830692 TTATGAATTC
34830702 ATCATGTGCAT
1 ATCATGTGCAT
* *
34830713 TTCA--TACAT
1 ATCATGTGCAT
34830722 ATCATGTGCAT
1 ATCATGTGCAT
*
34830733 ATCA--TACAT
1 ATCATGTGCAT
34830742 ATCATGTGCAT
1 ATCATGTGCAT
34830753 ATCAT
1 ATCAT
34830758 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:34830832 original size:25 final size:25
Alignment explanation
Indices: 34830804--34830851 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34830794 ATAATTAAAC
* * *
34830804 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
34830829 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
34830852 CACATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:34831468 original size:27 final size:28
Alignment explanation
Indices: 34831438--34831503 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
34831428 GGGCATATTC
34831438 GTCATTTTACCATACAAGGG-TATTAC-G
1 GTCATTTTACCATACAAGGGCT-TTACGG
* * *
34831465 GTCACTTTACCCTACAGGGGCTTTACGG
1 GTCATTTTACCATACAAGGGCTTTACGG
*
34831493 GTCTTTTTACC
1 GTCATTTTACC
34831504 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (28 bp):
GTCATTTTACCATACAAGGGCTTTACGG
Found at i:34831595 original size:27 final size:27
Alignment explanation
Indices: 34831535--34832012 Score: 355
Period size: 27 Copynumber: 17.7 Consensus size: 27
34831525 TTCATCCTAC
* * * *
34831535 AAGGGTGTTTTGCTAAATCTACAAAAC-
1 AAGGGTATTTTGGTAATTTTAC-AAACT
* **
34831562 AAGGGTATTTTAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
34831589 AATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AAGGGTATTT-TGGTAA-TTTTACAAA-CT
* * *
34831618 AATGGTATTTTTGTAACTTTGTA-AATC-
1 AAGGGTATTTTGGTAA-TTT-TACAAACT
* * *
34831645 AGGGGTATTTTGGTAATTTTATAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
34831672 GAGGGTATTTTGGTAATTTTACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
34831698 CAGTGGTA-TTTGGTAACTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
34831725 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
34831752 GAGGGTATTTCGATAATTTTACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
34831778 CAGTGGTATTTTGGTAACTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
34831806 AGGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
34831833 AGGGGTATTTTAGCAATTTTACAGAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
34831859 CAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
34831886 GAGGGTATTTCGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
34831913 AAGGGTATTTTAGCAATTTTACAGA-T
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
34831939 TAGGGTATTTTGGTAATTTTACTGA-T
1 AAGGGTATTTTGGTAATTTTACAAACT
* * **
34831965 CGATGGTATTTTGGTAATTTTGTAAACT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
34831993 GAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
34832013 GTAAATCGAG
Statistics
Matches: 360, Mismatches: 75, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 76 0.21
27 250 0.69
28 11 0.03
29 19 0.05
30 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:34831738 original size:80 final size:79
Alignment explanation
Indices: 34831621--34832012 Score: 439
Period size: 80 Copynumber: 4.9 Consensus size: 79
34831611 GAAAGTTAAT
* ** * * *
34831621 GGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTTGGT
1 GGTATTTTGGTAACTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGT
34831686 AATTTTACAAACCAG
65 AATTTTACAAACCAG
* *
34831701 TGGTA-TTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCG
1 -GGTATTTTGGTAACTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAG
34831764 ATAATTTTACAAACCAG
64 -TAATTTTACAAACCAG
*
34831781 TGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC-CAGGGGTATTTTA
1 -GGTATTTTGGTAACTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACTGA-GGGTATTTTA
* *
34831845 GCAATTTTACAGACCAG
63 GTAATTTTACAAACCAG
* * * ** *
34831862 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGC
1 GGTATTTTGGTAACTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGT
* **
34831927 AATTTTACAGATTAG
65 AATTTTACAAACCAG
* ** * * **
34831942 GGTATTTTGGTAATTTTACTGATCGATGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTTAGT
1 GGTATTTTGGTAACTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGT
34832007 AATTTT
65 AATTTT
34832013 GTAAATCGAG
Statistics
Matches: 278, Mismatches: 26, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
79 6 0.02
80 199 0.72
81 69 0.25
82 4 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (79 bp):
GGTATTTTGGTAACTTTACAAATAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTA
ATTTTACAAACCAG
Found at i:34831973 original size:107 final size:108
Alignment explanation
Indices: 34831647--34832012 Score: 445
Period size: 107 Copynumber: 3.4 Consensus size: 108
34831637 TGTAAATCAG
*
34831647 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTTGGTAATTTTACAAACC-AGTGGTA-TTTG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTG
* * *
34831710 GTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGA
65 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAGATCGA
* * ** * * *
34831754 GGGTATTTCGATAATTTTACAAA-CCAGTGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTGAG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
* * * *
34831818 GTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGA-CCA
65 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAGATCGA
* *
34831861 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* * * *
34831926 CAATTTTACAGATTA-GGGTATTTTGGTAATTTTACTGATCGA
66 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAGATCGA
* ** * *
34831968 TGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTT
34832013 GTAAATCGAG
Statistics
Matches: 216, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
106 22 0.10
107 152 0.70
108 42 0.19
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (108 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAGATCGA
Found at i:34832017 original size:27 final size:27
Alignment explanation
Indices: 34831647--34832012 Score: 363
Period size: 27 Copynumber: 13.7 Consensus size: 27
34831637 TGTAAATCAG
* *
34831647 GGGTATTTTGGTAATTTTATAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTGA
*
34831674 GGGTATTTTGGTAATTTTACAAAC-CA
1 GGGTATTTTGGTAATTTTACAAACTGA
*
34831700 GTGGTA-TTTGGTAACTTTACAAACT-A
1 G-GGTATTTTGGTAATTTTACAAACTGA
*
34831726 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAACTGA
* * *
34831754 GGGTATTTCGATAATTTTACAAAC-CA
1 GGGTATTTTGGTAATTTTACAAACTGA
*
34831780 GTGGTATTTTGGTAACTTTACAAACT-A
1 G-GGTATTTTGGTAATTTTACAAACTGA
*
34831807 GGGGTATTTTGGTAATTTTACAAAC-CA
1 -GGGTATTTTGGTAATTTTACAAACTGA
* * * *
34831834 GGGGTATTTTAGCAATTTTACAGAC-CA
1 -GGGTATTTTGGTAATTTTACAAACTGA
*
34831861 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTGA
* **
34831888 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTGA
* * * *
34831915 GGGTATTTTAGCAATTTTACAGA-TTA
1 GGGTATTTTGGTAATTTTACAAACTGA
**
34831941 GGGTATTTTGGTAATTTTACTGA-TCGA
1 GGGTATTTTGGTAATTTTACAAACT-GA
* **
34831968 TGGTATTTTGGTAATTTTGTAAACTGA
1 GGGTATTTTGGTAATTTTACAAACTGA
*
34831995 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
34832013 GTAAATCGAG
Statistics
Matches: 284, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
26 68 0.24
27 213 0.75
28 3 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTGA
Found at i:34832023 original size:27 final size:27
Alignment explanation
Indices: 34831621--34832173 Score: 336
Period size: 27 Copynumber: 20.6 Consensus size: 27
34831611 GAAAGTTAAT
* * *
34831621 GGTATTTTTGTAACTTTGTAAATC-AGG
1 GGTATTTTGGTAATTTTATAAATCGA-G
*
34831648 GGTATTTTGGTAATTTTATAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* *
34831675 GGTATTTTGGTAATTTTACAAA-CCAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * *
34831701 TGGTA-TTTGGTAACTTTACAAA-CTAGG
1 -GGTATTTTGGTAATTTTATAAATCGA-G
* *
34831728 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * * *
34831755 GGTATTTCGATAATTTTACAAA-CCAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * *
34831781 TGGTATTTTGGTAACTTTACAAA-CTAGG
1 -GGTATTTTGGTAATTTTATAAATCGA-G
* *
34831809 GGTATTTTGGTAATTTTACAAA-CCAGG
1 GGTATTTTGGTAATTTTATAAATCGA-G
* * * * *
34831836 GGTATTTTAGCAATTTTACAGA-CCAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* *
34831862 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * * *
34831889 GGTATTTCGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * * * *
34831916 GGTATTTTAGCAATTTTACAGAT-TAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* *
34831942 GGTATTTTGGTAATTTTACT-GATCGAT
1 GGTATTTTGGTAATTTTA-TAAATCGAG
*
34831969 GGTATTTTGGTAATTTTGTAAA-CTGAG
1 GGTATTTTGGTAATTTTATAAATC-GAG
* *
34831996 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
***** * *
34832023 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTGGTAATTTTATAAATCGAG
*** *
34832050 GGTAAAATAGTAATTTTATAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
**** * * *
34832077 GGTAAAACGATAATTCTGTAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
*** *
34832104 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
* * * *
34832131 GGTACTTTGGTAATTTTACAATTTGAG
1 GGTATTTTGGTAATTTTATAAATCGAG
**
34832158 GGTATTTCAGTAATTT
1 GGTATTTTGGTAATTT
34832174 GGTAAACAAA
Statistics
Matches: 436, Mismatches: 77, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
26 69 0.16
27 363 0.83
28 4 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAATCGAG
Found at i:34832037 original size:134 final size:132
Alignment explanation
Indices: 34831647--34832026 Score: 478
Period size: 134 Copynumber: 2.8 Consensus size: 132
34831637 TGTAAATCAG
*
34831647 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTTGGTAATTTTACAAACCAGTGGTA-TTTGG
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGG
*
34831711 TAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAA
65 TAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG-TAATTTTACAA
34831776 ACC-A
128 ACCAA
* * * *
34831780 GTGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTA
1 G-GGTATTTTGGTAATTTTACAAATTA-GGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTG
* * *
34831845 GCAATTTTACAGACCAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAA
64 GTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GTAATTTTACAA
34831910 ACCAA
128 ACCAA
* * * ** *
34831915 GGGTATTTTAGCAATTTTACAGATTAGGGTATTTTGGTAATTTTACTGATC-GATGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATTAGGGTATTTTGGTAATTTTACAAACCAG-TGGTATTTTGG
** * ** *
34831979 TAATTTTGTAAACTGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
65 TAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAATTGAGGGTA
34832027 AAACAGTAAT
Statistics
Matches: 212, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
132 1 0.00
133 42 0.20
134 151 0.71
135 18 0.08
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (132 bp):
GGGTATTTTGGTAATTTTACAAATTAGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGT
AATTTTACAAACTAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTAATTTTACAAACC
AA
Found at i:34836908 original size:15 final size:15
Alignment explanation
Indices: 34836888--34836919 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34836878 TAGCCAGACT
*
34836888 TTCGACTTTTCGGCA
1 TTCGACTTTTCAGCA
34836903 TTCGACTTTTCAGCA
1 TTCGACTTTTCAGCA
34836918 TT
1 TT
34836920 TCGGGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (15 bp):
TTCGACTTTTCAGCA
Found at i:34840355 original size:26 final size:26
Alignment explanation
Indices: 34840308--34840357 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
34840298 TGGATGAATT
* * * *
34840308 TTTTTCTTTTTCTTCTTCTTTTTAAG
1 TTTTTATTTTGCTACTTATTTTTAAG
34840334 TTTTTATTTTGCTACTTATTTTTA
1 TTTTTATTTTGCTACTTATTTTTA
34840358 TTTTATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTTATTTTGCTACTTATTTTTAAG
Found at i:34841941 original size:2 final size:2
Alignment explanation
Indices: 34841936--34841960 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34841926 AATATATATA
34841936 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
34841961 CTTATGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34842728 original size:40 final size:39
Alignment explanation
Indices: 34842622--34842729 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
34842612 TAGATATATT
* * * *
34842622 GTATATCCGGATTAAATCCCGCAGGCATCGTACTGGTAAT
1 GTATATCCGG-TTAAATCCCGCAGGCTTCATACTAGTAAA
*
34842662 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTAGTAAA
1 GTATATCC-GGTTAAATCCCGCAGGCTTCATACTAGTAAA
*
34842702 GTATATCCGAGTTAAATCCCACAGGCTT
1 GTATATCCG-GTTAAATCCCGCAGGCTT
34842730 AGTGCTGGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
39 1 0.02
40 57 0.95
41 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (39 bp):
GTATATCCGGTTAAATCCCGCAGGCTTCATACTAGTAAA
Found at i:34850546 original size:40 final size:40
Alignment explanation
Indices: 34850503--34850660 Score: 237
Period size: 40 Copynumber: 4.0 Consensus size: 40
34850493 TCGATATATT
* * *
34850503 GTATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAAT
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
*
34850543 GTATATCTGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
* * *
34850583 GTATATCCGAGTTAAATCCCGTAGGCTTCATGCTAGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
34850623 GTATATCCGGGTTAAATCCCGCAGGCTT-AGTGCTGGTA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTA
34850661 CTATATCCGG
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:34850688 original size:80 final size:79
Alignment explanation
Indices: 34850504--34850701 Score: 211
Period size: 80 Copynumber: 2.5 Consensus size: 79
34850494 CGATATATTG
* * ** * * * * *
34850504 TATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATGTATATCTGGGTTAAATCCCGCAGGC
1 TATATCCGAGCTAAATCCCATAGGCTTCATGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGGC
*
34850569 TTCATGCTGGTAAAG
66 TTCATGCTGGT-AAC
* *
34850584 TATATCCGAGTTAAATCCCGTAGGCTTCATGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGGC
1 TATATCCGAGCTAAATCCCATAGGCTTCATGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGGC
34850649 TT-AGTGCTGGT-AC
66 TTCA-TGCTGGTAAC
* **
34850662 TATATCCGGGCCTAAAGTCCCATAGGCTTTGTGCTAGTAA
1 TATATCCGAG-CTAAA-TCCCATAGGCTTCATGCTAGTAA
34850702 CTGGATTCGG
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 10 0.10
79 5 0.05
80 87 0.85
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (79 bp):
TATATCCGAGCTAAATCCCATAGGCTTCATGCTAGTAAAGTATATCCGGGTTAAATCCCGCAGGC
TTCATGCTGGTAAC
Found at i:34852242 original size:21 final size:21
Alignment explanation
Indices: 34852212--34852268 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
34852202 TGAGTTACAC
*
34852212 TACCTG-TTCACACGGTCGTG
1 TACCTGCTTCACACGGGCGTG
*
34852232 TCCCTGCTTCACACGGGCGTG
1 TACCTGCTTCACACGGGCGTG
* *
34852253 TACCTACGTCACACGG
1 TACCTGCTTCACACGG
34852269 CCATGTGCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
TACCTGCTTCACACGGGCGTG
Found at i:34853206 original size:13 final size:14
Alignment explanation
Indices: 34853188--34853219 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
34853178 CAAAAACAAC
34853188 TTAATAAG-CTTAA
1 TTAATAAGTCTTAA
34853201 TTAAT-AGTCTTAA
1 TTAATAAGTCTTAA
34853214 TTAATA
1 TTAATA
34853220 GACACATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 15 0.88
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (14 bp):
TTAATAAGTCTTAA
Found at i:34855423 original size:19 final size:19
Alignment explanation
Indices: 34855387--34855424 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34855377 GATGAATGAG
*
34855387 ATGTGTTAGGTACATGTAT
1 ATGTGTTAGGTAAATGTAT
34855406 ATGT-TTAGGTAAATTGTAT
1 ATGTGTTAGGTAAA-TGTAT
34855425 GTTTGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (19 bp):
ATGTGTTAGGTAAATGTAT
Found at i:34859210 original size:23 final size:23
Alignment explanation
Indices: 34859148--34859287 Score: 113
Period size: 23 Copynumber: 5.9 Consensus size: 23
34859138 GGACTCACCA
34859148 CAGCTCA-TATGAGCTTACCGATATAT
1 CAGCTCATTA-GAGCTTACCG-T-T-T
* * *
34859174 CAGCTCATAAGAGCTTTCAGTTT
1 CAGCTCATTAGAGCTTACCGTTT
* *
34859197 TAGCTCATTGGAGCTTACCGTTT
1 CAGCTCATTAGAGCTTACCGTTT
*
34859220 CAGCTC-CTATGAGCTTACCGTTT
1 CAGCTCATTA-GAGCTTACCGTTT
* *
34859243 CAGCTCATTAGAGCTTACTGCTAT
1 CAGCTCATTAGAGCTTACCG-TTT
**
34859267 CAGCTCAGGAGGAGCTTACCG
1 CAGCTCATTA-GAGCTTACCG
34859288 ATCATGGCTT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.01
23 52 0.57
24 13 0.14
25 10 0.11
26 15 0.16
27 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (23 bp):
CAGCTCATTAGAGCTTACCGTTT
Found at i:34859248 original size:46 final size:48
Alignment explanation
Indices: 34859148--34859260 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 48
34859138 GGACTCACCA
*
34859148 CAGCTCATATGAGCTTACCGATATATCAGCTCATAAGAGCTTTCAGTTT
1 CAGCTCAT-TGAGCTTACCGATATATCAGCTCATAAGAGCTTACAGTTT
* * * *
34859197 TAGCTCATTGGAGCTTACCG-T-T-TCAGCTCCTATGAGCTTACCGTTT
1 CAGCTCATT-GAGCTTACCGATATATCAGCTCATAAGAGCTTACAGTTT
34859243 CAGCTCATTAGAGCTTAC
1 CAGCTCATT-GAGCTTAC
34859261 TGCTATCAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
46 36 0.64
47 1 0.02
48 2 0.04
49 17 0.30
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (48 bp):
CAGCTCATTGAGCTTACCGATATATCAGCTCATAAGAGCTTACAGTTT
Found at i:34859517 original size:71 final size:71
Alignment explanation
Indices: 34859439--34859574 Score: 254
Period size: 71 Copynumber: 1.9 Consensus size: 71
34859429 GGATGGCTTC
*
34859439 ATGTATTTGTCAAATGACTAACATATGATGGATACTTCTGATTAAGTGTTGGTTAATTGAATTGT
1 ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAAGTGTTGGTTAATTGAATTGT
34859504 GGTTTT
66 GGTTTT
*
34859510 ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAGGTGTTGGTTAATTGAATTGT
1 ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAAGTGTTGGTTAATTGAATTGT
34859575 TGGCATTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (71 bp):
ATGTATTTGTCAAATGACTAACATATGATGGATACTTATGATTAAGTGTTGGTTAATTGAATTGT
GGTTTT
Found at i:34861699 original size:40 final size:40
Alignment explanation
Indices: 34861618--34861877 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
34861608 AAACCAAGTA
** * *
34861618 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
34861657 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
34861697 CCTTTGGGACTTAACCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
34861737 CCTTCGAGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
34861777 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
34861817 CCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
34861856 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
34861878 CAATCCGAAT
Statistics
Matches: 201, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 64 0.32
40 137 0.68
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:34871053 original size:39 final size:41
Alignment explanation
Indices: 34870982--34871148 Score: 132
Period size: 39 Copynumber: 4.2 Consensus size: 41
34870972 CTCGTTCAAG
* * * *
34870982 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * *
34871021 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAT
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
34871061 TGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * *
34871101 GGCCTTCGGG-CTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAGAAACTCACACGAA
34871140 TGCCTTCGG
1 TGCCTTCGG
34871149 ATCTTAGTCC
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
39 58 0.54
40 49 0.46
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:34871071 original size:40 final size:39
Alignment explanation
Indices: 34871019--34871148 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
34871009 TAACTCATAC
* *
34871019 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* * *
34871059 ATTGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
34871099 AAGGCCTTCGGG-CTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
34871138 AATGCCTTCGG
1 AATGCCTTCGG
34871149 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 37 0.47
40 41 0.53
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:34871081 original size:79 final size:79
Alignment explanation
Indices: 34870982--34871148 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 79
34870972 CTCGTTCAAG
* * * * *
34870982 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGG-CTTAACCCGGA-A
* *
34871045 TTAA-AACTCGCACGAT
63 TTAATAACTCGCACAAA
* * *
34871061 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGCTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGCTTAACCCGGAATTA
34871126 ATAACTCGCACAAA
66 ATAACTCGCACAAA
34871140 TGCCTTCGG
1 TGCCTTCGG
34871149 ATCTTAGTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 4 0.05
79 59 0.79
80 12 0.16
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGCTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:34889248 original size:43 final size:43
Alignment explanation
Indices: 34889153--34889274 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 43
34889143 ATTGAGATGT
*
34889153 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTATT-A
34889196 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAATT-
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC-TGT-ATTA
* * * * *
34889239 GATTTCGTGTAAGACCCTTTCTAGGACAGTGGCATC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC
34889275 GATATGTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
43 65 0.93
44 1 0.01
45 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTATTA
Found at i:34892689 original size:27 final size:28
Alignment explanation
Indices: 34892653--34892720 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
34892643 GATATTGTAA
*
34892653 CGAAGTCACCAGATACAGATAT-TGTGG
1 CGAAGCCACCAGATACAGATATATGTGG
* * * *
34892680 CTAGGCCACCAGA-ATATATATATGTGG
1 CGAAGCCACCAGATACAGATATATGTGG
34892707 CGAAGCCACCAGAT
1 CGAAGCCACCAGAT
34892721 TGCAGCGAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (28 bp):
CGAAGCCACCAGATACAGATATATGTGG
Found at i:34893459 original size:27 final size:27
Alignment explanation
Indices: 34893429--34893601 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
34893419 GGGGCAAAAT
* * * *
34893429 GGTAATTTTACCCCATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34893456 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34893483 AGTACTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34893510 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
34893537 AATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34893564 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34893591 GGTAATTCTAC
1 GGTAATTCTAC
34893602 AACTTATCCA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:34901813 original size:27 final size:26
Alignment explanation
Indices: 34901773--34901878 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
34901763 AGGAAGCGTC
*
34901773 CTGGTGGCTATGCCACAGTTATCTGAT
1 CTGGTGGCTCTGCCACA-TTATCTGAT
* *
34901800 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
34901827 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
34901855 TTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
34901879 TTCTAGCAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.01
27 51 0.75
28 16 0.24
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:34901879 original size:54 final size:54
Alignment explanation
Indices: 34901773--34901882 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
34901763 AGGAAGCGTC
* *
34901773 CTGGTGGCTATGCCACAGTTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAGTTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
34901827 CTGGTGGCTCTGCCAC-GATTATCTGTATTTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAG-TTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
34901881 CT
1 CT
34901883 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.63
55 17 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAGTTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:34902970 original size:11 final size:10
Alignment explanation
Indices: 34902942--34902975 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34902932 AGCCTGTAAG
34902942 TATTCTGAAT
1 TATTCTGAAT
*
34902952 TTTTCTGAAT
1 TATTCTGAAT
34902962 ATATTCTGAAT
1 -TATTCTGAAT
34902973 TAT
1 TAT
34902976 CTGTATGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:34908180 original size:24 final size:24
Alignment explanation
Indices: 34908148--34908218 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
34908138 CTGTCAGGAG
34908148 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
34908172 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
34908196 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
34908219 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:34908230 original size:48 final size:48
Alignment explanation
Indices: 34908148--34908241 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
34908138 CTGTCAGGAG
** * *
34908148 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
34908196 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
34908242 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:34909739 original size:28 final size:26
Alignment explanation
Indices: 34909647--34909758 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
34909637 AGGAAGCGTC
* * * *
34909647 CTGGTGGCTATGCCACAGTTATCTGAT
1 CTGGTGGCTCTGTCACA-TTTTCTGTT
* *
34909674 CTGGTGGCTCTGCCACATATTTTTGTT
1 CTGGTGGCTCTGTCACAT-TTTCTGTT
34909701 CTGGTGGCTCTGTCACGATTTTCTGTAT
1 CTGGTGGCTCTGTCAC-ATTTTCTGT-T
* *
34909729 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGTCACATTTTCTGTT
34909755 CTGG
1 CTGG
34909759 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 18 0.24
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGTCACATTTTCTGTT
Found at i:34911023 original size:27 final size:26
Alignment explanation
Indices: 34910975--34911034 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
34910965 GCGAGGCTGC
*
34910975 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
34911002 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
34911028 CAGATAT
1 CAGATAT
34911035 ATATATATGT
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:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34911047 original size:33 final size:32
Alignment explanation
Indices: 34910996--34911059 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
34910986 ACGAAGTCAC
* *
34910996 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
34911028 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
34911060 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:34911084 original size:73 final size:67
Alignment explanation
Indices: 34911002--34911145 Score: 171
Period size: 67 Copynumber: 2.1 Consensus size: 67
34910992 TCACCAGATA
* * *
34911002 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCGAAGCCACCAGATTGCAGC
1 CAGATATTGTGACAAAGCCACCAGAACAG--ATAT-T-TA--TGGCGAAGCCACCAGATTGCAGC
*
34911067 GAGGCTGC
60 GAAGCTGC
* * *
34911075 CAGATATTGTGACAAAGTCACCAGAACAGATATTTATGGTGAGGCCACCAGATTGCAGCGAAGCT
1 CAGATATTGTGACAAAGCCACCAGAACAGATATTTATGGCGAAGCCACCAGATTGCAGCGAAGCT
34911140 GC
66 GC
34911142 CAGA
1 CAGA
34911146 ACACTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 32 0.50
69 2 0.03
70 1 0.02
71 4 0.06
73 25 0.39
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACAAAGCCACCAGAACAGATATTTATGGCGAAGCCACCAGATTGCAGCGAAGCT
GC
Found at i:34911808 original size:27 final size:27
Alignment explanation
Indices: 34911778--34911896 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
34911768 GGGGAAAAAT
* * *
34911778 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34911805 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
34911832 AATAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34911859 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34911886 GGTAATTCTAC
1 GGTAATTCTAC
34911897 AACTTATCCA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34914650 original size:46 final size:45
Alignment explanation
Indices: 34914549--34914637 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
34914539 TGTAACCCGC
* * *
34914549 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGGTGTTCCCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG-TCCCAT
34914595 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG-CCCA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGTCCCA
34914638 AATATCCTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 4 0.10
46 36 0.90
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGTCCCAT
Found at i:34917816 original size:28 final size:28
Alignment explanation
Indices: 34917750--34917877 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
34917740 CATGAGATTG
* * **
34917750 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
34917779 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34917807 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
34917836 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34917864 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
34917878 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34917839 original size:57 final size:57
Alignment explanation
Indices: 34917750--34917877 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
34917740 CATGAGATTG
*
34917750 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
34917807 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
34917864 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
34917878 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:34920286 original size:15 final size:15
Alignment explanation
Indices: 34920238--34920317 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
34920228 CAAAGATAAC
*
34920238 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
*
34920252 AAGAAAT-CAAAGATA
1 AAGAAATCCAGA-ATA
* *
34920267 GAGAAATCTAGAATA
1 AAGAAATCCAGAATA
*
34920282 AAGAATTCCAGAATA
1 AAGAAATCCAGAATA
* *
34920297 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
34920312 AAGAAA
1 AAGAAA
34920318 CCCAAGATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
13 2 0.04
14 7 0.13
15 41 0.79
16 2 0.04
ACGTcount: A:0.60, C:0.10, G:0.16, T:0.14
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:34920326 original size:15 final size:15
Alignment explanation
Indices: 34920238--34920326 Score: 67
Period size: 15 Copynumber: 6.0 Consensus size: 15
34920228 CAAAGATAAC
*
34920238 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
*
34920252 AAGAAATCAAAGATA
1 AAGAAATCCAAGATA
* *
34920267 GAGAAAT-CTAGAATA
1 AAGAAATCCAAG-ATA
*
34920282 AAGAATTCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
34920297 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
34920312 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
34920327 TGATACTATG
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
14 11 0.19
15 45 0.78
16 2 0.03
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:34922169 original size:29 final size:27
Alignment explanation
Indices: 34922150--34922217 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
34922140 ATATTAAGTC
34922150 CACACACTCAGTGCTATATAATCAACT
1 CACACACTCAGTGCTATATAATCAACT
* *
34922177 CGCACACTTAGTGCTATATAATCAAACT
1 CACACACTCAGTGCTATATAATC-AACT
* *
34922205 CGCACACTTAGTG
1 CACACACTCAGTG
34922218 GTGTACAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (27 bp):
CACACACTCAGTGCTATATAATCAACT
Found at i:34922213 original size:28 final size:28
Alignment explanation
Indices: 34922152--34922247 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
34922142 ATTAAGTCCA
*
34922152 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
34922179 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * * *
34922207 CACACTTAGTGGTGTACAATTTAAACCCG
1 CACACTTAGTGCTATATAA-TCAAACTCG
34922236 CACACTTAGTGC
1 CACACTTAGTGC
34922248 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.33
28 22 0.37
29 18 0.30
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:34922711 original size:12 final size:12
Alignment explanation
Indices: 34922694--34922720 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34922684 TGGGCATACT
34922694 TATGTATATATA
1 TATGTATATATA
34922706 TATGTATATATA
1 TATGTATATATA
34922718 TAT
1 TAT
34922721 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:34930079 original size:27 final size:26
Alignment explanation
Indices: 34930063--34930131 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
34930053 TATTAAGTCC
34930063 GCACACTCAGTGCTATATAATCAACTA
1 GCACACTCAGTGCTATAT-ATCAACTA
* *
34930090 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTCAGTGCTATAT-ATC-AACTA
*
34930118 GCACACTTAGTGCT
1 GCACACTCAGTGCT
34930132 GTACAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (26 bp):
GCACACTCAGTGCTATATATCAACTA
Found at i:34930125 original size:28 final size:28
Alignment explanation
Indices: 34930062--34930159 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
34930052 ATATTAAGTC
*
34930062 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
34930089 AGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34930117 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34930146 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34930160 CGAGATCAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34941173 original size:27 final size:27
Alignment explanation
Indices: 34941129--34941246 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
34941119 ACACTAGACC
* * *
34941129 CCCTTATATGATAGAATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * *
34941156 CCCTTTTGTGTTAAAATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* * *
34941183 CCCTCATGTGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
34941210 CCCTTATATGGTAAAATGACAGTTTTGG
1 CCCTTATGTGGTAAAATGACTGTTTT-G
34941238 CCC-TATGTG
1 CCCTTATGTG
34941247 ATATATGTTT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
27 70 0.96
28 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTGTTTTG
Found at i:34941594 original size:18 final size:18
Alignment explanation
Indices: 34941571--34941605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34941561 GGACTTGCAT
34941571 ACTGTTTACTATTACTGC
1 ACTGTTTACTATTACTGC
*
34941589 ACTGTTTACTGTTACTG
1 ACTGTTTACTATTACTG
34941606 TAATGGGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTATTACTGC
Found at i:34949390 original size:40 final size:40
Alignment explanation
Indices: 34949313--34949534 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
34949303 AAACCAAGTA
* * *
34949313 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* * *
34949352 CCTTTGGGATTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
34949392 CCTTTGGGACTTCGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
34949432 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
34949472 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
34949512 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
34949535 CATCCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 13 0.08
40 156 0.92
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:34961169 original size:43 final size:44
Alignment explanation
Indices: 34960972--34961170 Score: 203
Period size: 44 Copynumber: 4.6 Consensus size: 44
34960962 TGTTATCCTA
34960972 TAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACGTG
* * * * *
34961016 TAAAACCATGTCTAGGACGTTGGCATTGACTTATGATTTATGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACGTG
* *
34961060 TAAGACCACGTCTGGGACGTTGACATTGTA-TT-TGATTT-CGTG
1 TAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTACGTG
*** * *
34961102 TAAGACTTTGTCTGGGACAG-TGGCATCGA-TATTTGA-TTACATG
1 TAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTACGTG
* *
34961145 TAAGACCACATCTGGGATGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
34961171 TGTACGAGAT
Statistics
Matches: 128, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.22
43 32 0.25
44 65 0.51
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
TAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACGTG
Found at i:34964120 original size:56 final size:56
Alignment explanation
Indices: 34964060--34964245 Score: 255
Period size: 56 Copynumber: 3.3 Consensus size: 56
34964050 AGATAGGGTT
* * * *
34964060 TTACTCGTACACATAAATCAGAGTCACATATCGATGCAAACATATTAAACGTGGTC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGTC
* *
34964116 TTACTTGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACATGGTC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGTC
* * * * *
34964172 TTACTCGCACACATATATCGGAGTTACATATTGAGGCCAACGTATTAAATGTGGTC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGTC
* *
34964228 TTACCCACACACATATAT
1 TTACTCGCACACATATAT
34964246 TGATGCCATG
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 115 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (56 bp):
TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGTC
Found at i:34971151 original size:55 final size:54
Alignment explanation
Indices: 34971064--34971318 Score: 210
Period size: 55 Copynumber: 4.8 Consensus size: 54
34971054 ATTAGGGTTT
*
34971064 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAA-GTTTCTAAGGC
* * ** *
34971119 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTAATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTT--TCTAAGGC
* * * *
34971174 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGG-CATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTC-TAAGGC
* * *
34971227 AATGATACCATGTAAGACCATGTCGAGACAT-GACAA-TGGTAAGTTTC--A---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-AATTGGTAAGTTTCTAAGGC
* * * *
34971275 AAGTGATACCACGTAAGACCATGACACGTCATGGAAA-TGGTAAG
1 AAG-GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAG
34971319 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
48 2 0.01
49 32 0.20
50 2 0.01
51 1 0.01
52 5 0.03
53 37 0.23
54 11 0.07
55 70 0.43
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCTAAGGC
Found at i:34971514 original size:20 final size:20
Alignment explanation
Indices: 34971489--34971528 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
34971479 AGGTAAGTAA
*
34971489 AATGTATTAGTAAATTTGAT
1 AATGTATTAATAAATTTGAT
34971509 AATGTATTAATAAATTTGAT
1 AATGTATTAATAAATTTGAT
34971529 TAAGTAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (20 bp):
AATGTATTAATAAATTTGAT
Found at i:34971549 original size:16 final size:16
Alignment explanation
Indices: 34971528--34971558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34971518 ATAAATTTGA
34971528 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
34971544 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
34971559 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:34974684 original size:49 final size:49
Alignment explanation
Indices: 34974622--34974855 Score: 265
Period size: 49 Copynumber: 4.7 Consensus size: 49
34974612 CAAAGCTATT
*
34974622 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTA-C
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATC
* * * ** **
34974670 TCGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTGACCTAACCATC
1 T-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATC
* * **
34974721 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATTCAAGTTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATC
* * * *
34974772 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATC
34974821 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
34974856 CGTGACCTCA
Statistics
Matches: 153, Mismatches: 26, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 74 0.48
50 40 0.26
51 37 0.24
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATC
Found at i:34974849 original size:100 final size:100
Alignment explanation
Indices: 34974622--34974860 Score: 315
Period size: 100 Copynumber: 2.4 Consensus size: 100
34974612 CAAAGCTATT
* *
34974622 TGGTACGCATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAATTACTCGGTACACGTAGTA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG-AACCAATTACTCGGTACACATAGTA
* * *
34974685 GCCTGCACTTAGTGCTACACACGTGACCTAACCATC
65 GCCTGCACTTAGTACTACACACGCGACCTAACAATC
* * ** *
34974721 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTCAAGTTA-TCGGGTACGCATAGT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAACCAA-TTACTC-GGTACACATAGT
* *
34974785 AGCCTGCACTTAGTACTACACATGCGACC-AATAATC
64 AGCCTGCACTTAGTACTACACACGCGACCTAACAATC
34974821 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
34974861 CCTCACAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
99 32 0.26
100 49 0.40
101 41 0.34
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAACCAATTACTCGGTACACATAGTAG
CCTGCACTTAGTACTACACACGCGACCTAACAATC
Found at i:34975025 original size:10 final size:10
Alignment explanation
Indices: 34975010--34975040 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
34975000 ATTTCATATG
34975010 ATAACAAAAT
1 ATAACAAAAT
34975020 ATAACAAAAT
1 ATAACAAAAT
*
34975030 ATAATAAAAT
1 ATAACAAAAT
34975040 A
1 A
34975041 AAAAGAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAACAAAAT
Found at i:34978079 original size:43 final size:42
Alignment explanation
Indices: 34977970--34978080 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
34977960 TGTTATCGTG
* * * *
34977970 TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCGTT
1 TAAGACCACGTCTGGGACATTGGCATCGTATTTGATTACATA
* * *
34978012 TAAGACC-CTGTCTAGGATAGTGGCATCGATATTTGATTACATA
1 TAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTACATA
34978055 TAAGACCACGTCTGGGACATTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
34978081 TATACGAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 22 0.39
43 32 0.57
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATTGGCATCGTATTTGATTACATA
Found at i:34980186 original size:32 final size:32
Alignment explanation
Indices: 34980139--34980201 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
34980129 ACGGGATTGT
**
34980139 TGTTGTCACTGAGAAAGAAAGATGATGTATCC
1 TGTTGTCACCAAGAAAGAAAGATGATGTATCC
*
34980171 TGTTGTCACCAAGAAAGAAAGATGCTGTATC
1 TGTTGTCACCAAGAAAGAAAGATGATGTATC
34980202 AGTTGTAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (32 bp):
TGTTGTCACCAAGAAAGAAAGATGATGTATCC
Found at i:34984469 original size:19 final size:18
Alignment explanation
Indices: 34984445--34984480 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
34984435 TTAAATTTAG
*
34984445 TAAATTAATTGAGTTATGT
1 TAAATTAAATGA-TTATGT
34984464 TAAATTAAATGATTATG
1 TAAATTAAATGATTATG
34984481 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (18 bp):
TAAATTAAATGATTATGT
Found at i:34989559 original size:27 final size:27
Alignment explanation
Indices: 34989529--34989706 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34989519 ATATTGAGTC
* * * *
34989529 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34989556 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34989583 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34989611 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34989638 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34989665 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34989692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34989707 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34989668 original size:82 final size:81
Alignment explanation
Indices: 34989550--34989705 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34989540 TGCTATATAA
* *
34989550 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34989615 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34989632 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34989696 CACTTAGTGC
65 CACTTAGTGC
34989706 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35005610 original size:27 final size:27
Alignment explanation
Indices: 35005580--35005696 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
35005570 TACTGAAATG
* *
35005580 CCCTCGATTTGTAGAATTACCATTTTT
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
35005607 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
35005634 CCTTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
35005661 CGCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
35005688 CCCTCGATT
1 CCCTCGATT
35005697 ATGAAATTAC
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:35005758 original size:27 final size:27
Alignment explanation
Indices: 35005728--35005853 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
35005718 TGTAGGATAG
35005728 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
35005755 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
35005782 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
35005809 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
35005836 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
35005854 TATTTACAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 79 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:35005772 original size:54 final size:54
Alignment explanation
Indices: 35005700--35005850 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 54
35005690 CTCGATTATG
* * *
35005700 AAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTA
* ** * * * *
35005754 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGTTTGTG
1 AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
* **
35005808 AAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 AAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
35005851 CCTTATTTAC
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.05
54 74 0.91
55 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (54 bp):
AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
Found at i:35005874 original size:54 final size:55
Alignment explanation
Indices: 35005728--35005879 Score: 159
Period size: 54 Copynumber: 2.8 Consensus size: 55
35005718 TGTAGGATAG
*
35005728 AATTACCAAAATACCCC-TAGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTTA-TTTGTAAAATTA-CAGAAATACCCTCTAATTTGTAA
* * * ** * *
35005782 AATTATCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTTATTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
** *
35005836 AATTACCAAAATACCCCTTATTTACAAAAGTACAGAAATACCCT
1 AATTACCAAAATACCCCTTATTTGTAAAATTACAGAAATACCCT
35005880 TGACTTTCTA
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.01
54 75 0.97
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (55 bp):
AATTACCAAAATACCCCTTATTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
Found at i:35005874 original size:81 final size:81
Alignment explanation
Indices: 35005728--35005877 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
35005718 TGTAGGATAG
* ** *
35005728 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAAGTATCGAAA
35005793 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
*
35005809 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTTA-TTTACAAAAGTA-CAG
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCC-TAGTTTACAAAAGTATC-G
35005871 AAATACC
63 AAATACC
35005878 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 5 0.08
81 54 0.89
82 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAAGTATCGAAA
TACCACTGGTTTGTGA
Found at i:35005929 original size:27 final size:27
Alignment explanation
Indices: 35005890--35005941 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35005880 TGACTTTCTA
35005890 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
35005917 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
35005942 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:35006949 original size:24 final size:23
Alignment explanation
Indices: 35006866--35006963 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 23
35006856 GAGGAAGTGC
* *
35006866 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAG-TTA-T
* *
35006891 GAAAAGGGCTTTGCCCCAATTTAT
1 TAAAAGGGCTTTGCCCC-AGTTAT
35006915 TAGAAAGGGCTTTGCCCCAGTTAT
1 TA-AAAGGGCTTTGCCCCAGTTAT
**
35006939 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAG-GGCTTTGCC-CCAGTTAT
35006964 ATGATAAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.07
24 15 0.25
25 41 0.67
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
TAAAAGGGCTTTGCCCCAGTTAT
Found at i:35007143 original size:42 final size:42
Alignment explanation
Indices: 35007084--35007177 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
35007074 TAGTCTCCCC
* *
35007084 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
*
35007126 AAATGGGCTTGCATACATCCATTGACATTACGTGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
35007168 AAATGGGCTT
1 AAATGGGCTT
35007178 AAGGGCCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
Found at i:35007234 original size:31 final size:31
Alignment explanation
Indices: 35007199--35007313 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
35007189 CATTTACAGT
35007199 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35007230 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
35007261 AAAGGCTTCGACCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35007292 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35007314 TCAAGACTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35015562 original size:40 final size:39
Alignment explanation
Indices: 35015476--35015592 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 39
35015466 AGTGCCAAAG
* * *
35015476 CATAGCTGAAGCTATTATAATCTCGCACACTAAGTGCCTTT
1 CATAGCCGAAGCTATTCTGAT-TCGCACACTAAGTG-CTTT
*
35015517 CATAGCCGAAGCTATTCTGATTCGTACACTAAGTGCTTT
1 CATAGCCGAAGCTATTCTGATTCGCACACTAAGTGCTTT
* *
35015556 ATATAGCCGAAGCTA-TCTCGATACGCACACTAAGTGC
1 -CATAGCCGAAGCTATTCT-GATTCGCACACTAAGTGC
35015593 CAAACATAGT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 7 0.10
40 42 0.63
41 18 0.27
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (39 bp):
CATAGCCGAAGCTATTCTGATTCGCACACTAAGTGCTTT
Found at i:35020193 original size:23 final size:23
Alignment explanation
Indices: 35020149--35020240 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
35020139 GTAATATAGC
* **
35020149 CGAAGCTATCACTA-TAACGTAG
1 CGAAGCTACCACTAGTATTGTAG
35020171 TCGAAGCTACCAC-AGTATTGTAG
1 -CGAAGCTACCACTAGTATTGTAG
35020194 CCGAAGCTACCACTGAG-A-TGTAG
1 -CGAAGCTACCACT-AGTATTGTAG
35020217 CTGAAGCTACCACTA-TATTGTAG
1 C-GAAGCTACCACTAGTATTGTAG
35020240 C
1 C
35020241 CGATAGATTC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
22 4 0.07
23 52 0.88
24 1 0.02
25 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (23 bp):
CGAAGCTACCACTAGTATTGTAG
Found at i:35032313 original size:23 final size:23
Alignment explanation
Indices: 35032270--35032314 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35032260 TGCCACAACC
* *
35032270 AAATACTCACATCCATTAACCAT
1 AAATACTCACATACATAAACCAT
35032293 AAATAC-CACATACATCAAACCA
1 AAATACTCACATACAT-AAACCA
35032315 CAAGTTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATACTCACATACATAAACCAT
Found at i:35038005 original size:40 final size:40
Alignment explanation
Indices: 35037922--35038144 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
35037912 TTGAATGCTG
* * * * *
35037922 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
35037962 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
35038002 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
35038042 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
35038082 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
35038121 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35038145 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:35038059 original size:80 final size:79
Alignment explanation
Indices: 35037922--35038146 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
35037912 TTGAATGCTG
* * * * * *
35037922 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
35037985 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
35038002 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
35038067 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
35038082 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
35038146 G
65 G
35038147 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:35038164 original size:79 final size:80
Alignment explanation
Indices: 35037997--35038179 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
35037987 GTGCGAGATA
** *
35037997 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
35038062 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
35038077 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
35038141 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
35038156 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
35038180 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:35038164 original size:119 final size:120
Alignment explanation
Indices: 35037922--35038179 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
35037912 TTGAATGCTG
* * * * *
35037922 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
35037987 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
35038042 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
35038104 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
35038161 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35038180 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:35058006 original size:26 final size:26
Alignment explanation
Indices: 35057977--35058028 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
35057967 TGTGATCGAA
35057977 GCTATCGGGTACGCATAGTAGCCTGC
1 GCTATCGGGTACGCATAGTAGCCTGC
*
35058003 GCTATCGGGTACGTATAGTAGCCTGC
1 GCTATCGGGTACGCATAGTAGCCTGC
35058029 ACTTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (26 bp):
GCTATCGGGTACGCATAGTAGCCTGC
Done.