Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 79 of 85
Found at i:27537995 original size:18 final size:18
Alignment explanation
Indices: 27537972--27538022 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
27537962 TCGAGTTGAT
27537972 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
27537990 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
*
27538008 TTGAATAACTCGATT
1 TCGAATAACTCGATT
27538023 CGTTTAACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (18 bp):
TCGAATAACTCGATTAAC
Found at i:27539272 original size:17 final size:18
Alignment explanation
Indices: 27539242--27539275 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27539232 AGATGTTTTG
*
27539242 ATAATTTCACATTTAAAA
1 ATAATTTCAAATTTAAAA
27539260 ATAA-TTCAAATTTAAA
1 ATAATTTCAAATTTAAA
27539276 TTGTATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTTCAAATTTAAAA
Found at i:27541845 original size:19 final size:19
Alignment explanation
Indices: 27541816--27541888 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
27541806 AATCTTCAAG
*
27541816 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
27541835 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27541854 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27541873 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27541889 AGATATAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27542139 original size:23 final size:23
Alignment explanation
Indices: 27542095--27542139 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
27542085 TCTTATTTTG
* *
27542095 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
27542118 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
27542140 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:27547404 original size:14 final size:15
Alignment explanation
Indices: 27547378--27547410 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
27547368 CCCCAAGCTG
27547378 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
27547393 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
27547407 GGAA
1 GGAA
27547411 AAGTGTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:27548896 original size:88 final size:88
Alignment explanation
Indices: 27548747--27549049 Score: 507
Period size: 88 Copynumber: 3.4 Consensus size: 88
27548737 GTGAAGATAA
* * * *
27548747 CAGATGTTGCCTTCCTGCACCGGCAGCGAAGCAGATCGAAGACACCAACCTTGCTTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
27548812 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
27548835 CAGATCTTACCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
27548900 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
27548923 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
27548988 GCAGCGAAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
27549011 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
27549050 TGACCCCAAC
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 201 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:27548911 original size:43 final size:42
Alignment explanation
Indices: 27548858--27548999 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
27548848 CCTGTACCGA
*
27548858 CAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTG
1 CAGCGAAGCAGATCGAAGACAC-AGTCTTGCCTCCCTGGGTTG
* * ** * * * ****
27548901 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCG
1 CAGCGAAGCAGATCGAAGACA-CAG-TCTTGCCTCCCTGGGTTG
27548945 ACAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTGGGTTG
1 -CAGCGAAGCAGATCGAAGACA-CAGTCTTGCCTCCCTGGGTTG
27548989 CAGCGAAGCAG
1 CAGCGAAGCAG
27549000 GTTAAAAATA
Statistics
Matches: 72, Mismatches: 24, Indels: 6
0.71 0.24 0.06
Matches are distributed among these distances:
43 28 0.39
44 26 0.36
45 18 0.25
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (42 bp):
CAGCGAAGCAGATCGAAGACACAGTCTTGCCTCCCTGGGTTG
Found at i:27548975 original size:44 final size:44
Alignment explanation
Indices: 27548747--27549049 Score: 155
Period size: 44 Copynumber: 6.9 Consensus size: 44
27548737 GTGAAGATAA
* *
27548747 CAGATGTTGCCTTCCTGCACCGGCAGCGAAGCAGATCGAAGACAC
1 CAGATCTTGCCTTCCTGCACC-GCAGCGAAGCAGATCGAAAACAC
* **** * * * ** * *
27548792 CA-ACCTTG-CTTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAG
1 CAGATCTTGCCTT-CCTGCACCGCAGCGAAGCAGATCGAAAACAC
* * *
27548835 CAGATCTTACCTTCCTGTACCGACAGCGAAGCAGATCGAAGACAC
1 CAGATCTTGCCTTCCTGCACCG-CAGCGAAGCAGATCGAAAACAC
* * * **** * * ** * *
27548880 TAG-CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAG
1 CAGATCTTGCCTTCCTGCACCGCAGCGAAGCAGATCGAAAACAC
*
27548923 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACAC
1 CAGATCTTGCCTTCCTGCACCG-CAGCGAAGCAGATCGAAAACAC
* **** * ** * *
27548968 CAG-TCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAG
1 CAGATCTTGCCTTCCTGCACCGCAGCGAAGCAGATCGAAAACAC
*
27549011 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCG-CAGCGAAGCAGATCGA
27549050 TGACCCCAAC
Statistics
Matches: 173, Mismatches: 77, Indels: 16
0.65 0.29 0.06
Matches are distributed among these distances:
43 56 0.32
44 65 0.38
45 52 0.30
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (44 bp):
CAGATCTTGCCTTCCTGCACCGCAGCGAAGCAGATCGAAAACAC
Found at i:27549112 original size:44 final size:44
Alignment explanation
Indices: 27549060--27549181 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
27549050 TGACCCCAAC
**
27549060 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAA-T
* *
27549104 CTTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAAT
*
27549148 CCTATCTCCCT-GAGCAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGGA-CAACAGTGGAATAGGTTGAA
27549182 AATAACAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:27549679 original size:88 final size:88
Alignment explanation
Indices: 27549530--27549805 Score: 426
Period size: 88 Copynumber: 3.1 Consensus size: 88
27549520 GCAATTTAAA
* *
27549530 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAGTAAGCAAGCTTA
1 AGACTGAATATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGTAAGCAAGCTTA
*
27549595 TCCTCCTGACGTTGTAGTGAGGC
66 TCCTCCTGAAGTTGTAGTGAGGC
27549618 AGACTGAATATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGTAAGCAAGCTTA
1 AGACTGAATATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGTAAGCAAGCTTA
27549683 TCCTCCTGAAGTTGTAGTGAGGC
66 TCCTCCTGAAGTTGTAGTGAGGC
* * *
27549706 AGACTGAATATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCT
1 AGACTGAATATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACT-AAGTAAGCAAG-CT
* * ** *
27549771 TATCCCCCTGAAATTACAGTGGGGC
64 TATCCTCCTGAAGTTGTAGTGAGGC
*
27549796 AGACTAAATA
1 AGACTGAATA
27549806 AACAAATCCC
Statistics
Matches: 174, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
88 134 0.77
89 9 0.05
90 31 0.18
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (88 bp):
AGACTGAATATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGTAAGCAAGCTTA
TCCTCCTGAAGTTGTAGTGAGGC
Found at i:27549772 original size:45 final size:44
Alignment explanation
Indices: 27549547--27549838 Score: 206
Period size: 45 Copynumber: 6.6 Consensus size: 44
27549537 AGATGGCGAA
* * *
27549547 TCTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAG
* * * **
27549591 -CTTATC-CTCCTGACGTTGTAGT-GAGGCAGACTGAATATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAAGC-AAG
* *
27549635 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAG
* * **
27549679 -CTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAATATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAAGC-AAG
*
27549723 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAGCAAG
* * * * * *
27549768 TCTTATCCCCCTGAAATTACAGTGGGGCAGACTAA-ATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA-AAGCAAG
** * *
27549812 TCCCATCTCCCTAAAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
27549839 TGGATTAGAA
Statistics
Matches: 190, Mismatches: 41, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
42 6 0.03
43 51 0.27
44 40 0.21
45 87 0.46
46 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAG
Found at i:27551881 original size:14 final size:14
Alignment explanation
Indices: 27551870--27551896 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27551860 TATTAATTGT
27551870 AACAATGAAATTTA
1 AACAATGAAATTTA
27551884 AACAATGAAATTT
1 AACAATGAAATTT
27551897 TATTAACTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (14 bp):
AACAATGAAATTTA
Found at i:27552016 original size:13 final size:13
Alignment explanation
Indices: 27551998--27552029 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
27551988 TAATTGTAAC
27551998 ACCCGTAACCTAT
1 ACCCGTAACCTAT
27552011 ACCCGTAACCTAT
1 ACCCGTAACCTAT
27552024 ACCCGT
1 ACCCGT
27552030 CGCTGGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.41, G:0.09, T:0.22
Consensus pattern (13 bp):
ACCCGTAACCTAT
Found at i:27557182 original size:8 final size:8
Alignment explanation
Indices: 27557169--27557196 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
27557159 TTTCATACTT
27557169 TTATTTTA
1 TTATTTTA
27557177 TTATTTTA
1 TTATTTTA
27557185 TTATTTTA
1 TTATTTTA
27557193 TTAT
1 TTAT
27557197 CAATTTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:27557346 original size:33 final size:34
Alignment explanation
Indices: 27557291--27557356 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
27557281 ATTTCAACAT
*
27557291 AAGGCCCCACATAATGAAAGCCATAGCAATATAA
1 AAGGCCCCACATAATGAAAGCCATAGAAATATAA
*
27557325 AAGGCCCCACA-GATGAAAGCCATAGAAATATA
1 AAGGCCCCACATAATGAAAGCCATAGAAATATA
27557357 GTACTTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 19 0.63
34 11 0.37
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.14
Consensus pattern (34 bp):
AAGGCCCCACATAATGAAAGCCATAGAAATATAA
Found at i:27562598 original size:107 final size:106
Alignment explanation
Indices: 27562460--27562654 Score: 245
Period size: 107 Copynumber: 1.8 Consensus size: 106
27562450 TGAGATATCC
* * *
27562460 CTTCAAATTCTCAATACTTGTTCTTGATGTC-TAATGACATC-CTTTCAAAGTC-TCAAGACAAG
1 CTTCAAAGTCTCAAGACTCGTTCTTGATGTCTTAA-GACATCTC-TTCAAAGTCTTCAA-ACAAG
27562522 TTGTCTTCTAAC-TATTATAATTTTCAACGATGTCTCAAAACATCA
63 TTGTCTTCTAACAT-TTAT-ATTTTCAACGATGTCTCAAAACATCA
* * * **
27562567 CTTCAAAGTCTTAAGACTCGTTCTTGATGTCTTGAGACATCTCTTCAAAGTCTTGAAACATTTTG
1 CTTCAAAGTCTCAAGACTCGTTCTTGATGTCTTAAGACATCTCTTCAAAGTCTTCAAACAAGTTG
27562632 TCTTCTAACATTTATATTTTCAA
66 TCTTCTAACATTTATATTTTCAA
27562655 TGATCTCTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
106 8 0.11
107 61 0.80
108 7 0.09
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (106 bp):
CTTCAAAGTCTCAAGACTCGTTCTTGATGTCTTAAGACATCTCTTCAAAGTCTTCAAACAAGTTG
TCTTCTAACATTTATATTTTCAACGATGTCTCAAAACATCA
Found at i:27562619 original size:21 final size:21
Alignment explanation
Indices: 27562561--27562627 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
27562551 ATGTCTCAAA
* *
27562561 ACATCACTTCAAAGTCTTAAG
1 ACATCTCTTCAAAGTCTTGAG
* *
27562582 AC-TCGTTCTT-GATGTCTTGAG
1 ACATC--TCTTCAAAGTCTTGAG
*
27562603 ACATCTCTTCAAAGTCTTGAA
1 ACATCTCTTCAAAGTCTTGAG
27562624 ACAT
1 ACAT
27562628 TTTGTCTTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
20 6 0.17
21 24 0.69
22 5 0.14
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (21 bp):
ACATCTCTTCAAAGTCTTGAG
Found at i:27577921 original size:21 final size:21
Alignment explanation
Indices: 27577895--27577957 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
27577885 TTGGTATTTG
27577895 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
27577916 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
27577937 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
27577958 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:27579148 original size:30 final size:30
Alignment explanation
Indices: 27579090--27579148 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27579080 TTGAAAAGGT
* *
27579090 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
27579120 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
27579149 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:27579768 original size:13 final size:13
Alignment explanation
Indices: 27579750--27579792 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
27579740 TATAAACTCT
*
27579750 TTTTCAACTTATG
1 TTTTCAAGTTATG
*
27579763 TTTTCAAGTCATG
1 TTTTCAAGTTATG
*
27579776 TTTTCAAGTTATA
1 TTTTCAAGTTATG
27579789 TTTT
1 TTTT
27579793 ATATGTGCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (13 bp):
TTTTCAAGTTATG
Found at i:27581086 original size:25 final size:25
Alignment explanation
Indices: 27581057--27581105 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27581047 TTGTGCGAAC
27581057 TCATGCTTTA-TGTTGTTATGCAAAG
1 TCATGCTTTACT-TTGTTATGCAAAG
27581082 TCATGCTTTACTTTGTTATGCAAA
1 TCATGCTTTACTTTGTTATGCAAA
27581106 CCTTTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (25 bp):
TCATGCTTTACTTTGTTATGCAAAG
Found at i:27583100 original size:6 final size:6
Alignment explanation
Indices: 27583083--27583111 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
27583073 TTAAGATAAG
27583083 TATTAA -ATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA
27583112 AACTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TATTAA
Found at i:27583101 original size:65 final size:69
Alignment explanation
Indices: 27582974--27583105 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 69
27582964 TGATTAAACT
* *
27582974 TAATCACTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAAATATTAAATTAAATTTAATATT
27583039 AAGA
66 AAGA
* * *
27583043 TAATCGCTTTAATATTAAA-TAA-ATAA-AATT-TTAAGATAAGTATTAAATT-AATATTAATAT
1 TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAAATATTAAATTAAAT-TTAATAT
27583103 TAA
65 TAA
27583106 TATTAAAACT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
64 3 0.05
65 26 0.46
66 3 0.05
67 4 0.07
68 3 0.05
69 18 0.32
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATATAATAATTATCAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:27587938 original size:147 final size:147
Alignment explanation
Indices: 27587671--27587966 Score: 511
Period size: 147 Copynumber: 2.0 Consensus size: 147
27587661 ATCAAAACAC
* * *
27587671 ACACGACACTTTTCTCCATACAGATAGTGTCTCCAAATCTTCCATGCTAATACTACGCAGCCAGT
1 ACACGACACTTTTCTCCATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAGT
* * *
27587736 TCCAAATCATGGGTTGGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGTTATAAC
66 TCCAAATCATGGGATCGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGCTATAAC
*
27587801 CTTGCCCTTCTGCATAA
131 CTTACCCTTCTGCATAA
*
27587818 ACACGACACTTTTCTCTATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAGT
1 ACACGACACTTTTCTCCATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAGT
*
27587883 TCCAAATCATGGGATCGATAGTTCCTCTCATGTGGTTTGAGTTAGCACGATGCATAAGCTATAAC
66 TCCAAATCATGGGATCGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGCTATAAC
27587948 CTTACCCTTCTGCATAA
131 CTTACCCTTCTGCATAA
27587965 AC
1 AC
27587967 CCACATCCAA
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 140 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (147 bp):
ACACGACACTTTTCTCCATACAGATAGTGTATCCAAATCTTCAATGCCAATACTACGCAGCCAGT
TCCAAATCATGGGATCGATAGTTCCTCTCATGTGGTTTCAGTTAGCACGATGCATAAGCTATAAC
CTTACCCTTCTGCATAA
Found at i:27601808 original size:31 final size:32
Alignment explanation
Indices: 27601749--27601813 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27601739 GGCAAATTAC
27601749 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27601781 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
27601812 AA
1 AA
27601814 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:27607753 original size:10 final size:10
Alignment explanation
Indices: 27607738--27607766 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
27607728 CTTTAATAAG
27607738 AAGAAAACTT
1 AAGAAAACTT
27607748 AAGAAAACTT
1 AAGAAAACTT
27607758 AAGAAAACT
1 AAGAAAACT
27607767 CTACCCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (10 bp):
AAGAAAACTT
Found at i:27607996 original size:26 final size:25
Alignment explanation
Indices: 27607956--27608033 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
27607946 GTAGGCAACT
27607956 TTTTTTTTGCGCTTTTTGCTTTTTC
1 TTTTTTTTGCGCTTTTTGCTTTTTC
* *
27607981 TTTTTTTTGCATCTTTTTGCTTCTTC
1 TTTTTTTTGC-GCTTTTTGCTTTTTC
*
27608007 -TTTTTTTACGCTTTTTGCTTTTT-
1 TTTTTTTTGCGCTTTTTGCTTTTTC
27608030 TTTT
1 TTTT
27608034 AAAGAATAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 15 0.33
25 18 0.39
26 13 0.28
ACGTcount: A:0.03, C:0.15, G:0.09, T:0.73
Consensus pattern (25 bp):
TTTTTTTTGCGCTTTTTGCTTTTTC
Found at i:27613668 original size:12 final size:12
Alignment explanation
Indices: 27613651--27613675 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27613641 CCCTAATCCC
27613651 TCAATTTTTCCT
1 TCAATTTTTCCT
27613663 TCAATTTTTCCT
1 TCAATTTTTCCT
27613675 T
1 T
27613676 GCTTCTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCAATTTTTCCT
Found at i:27620434 original size:20 final size:20
Alignment explanation
Indices: 27620409--27620514 Score: 97
Period size: 20 Copynumber: 5.3 Consensus size: 20
27620399 TATTGGATTT
27620409 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* ** *
27620429 CAGGGGCACGTATGTACAAA
1 CAGGGGTACCAAAGTACAAA
*
27620449 TAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * *
27620469 CAGGGGTA-TATATGTTCAAA
1 CAGGGGTACCA-AAGTACAAA
* * *
27620489 CAAGGGTATCGAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
27620509 CAGGGG
1 CAGGGG
27620515 CACGTATGTA
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
19 1 0.02
20 64 0.98
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:27620454 original size:40 final size:40
Alignment explanation
Indices: 27620409--27620535 Score: 173
Period size: 40 Copynumber: 3.2 Consensus size: 40
27620399 TATTGGATTT
27620409 CAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAAA
1 CAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAAA
* * ** *
27620449 TAGGGGTACCAAAGTACAAACAGGGGTATATATGTTCAAA
1 CAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAAA
* * *
27620489 CAAGGGTATCGAAGTACAAACAGGGGCACGTATGTACAAA
1 CAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAAA
*
27620529 CAAGGGT
1 CAGGGGT
27620536 TCAATAATTA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAAA
Found at i:27620525 original size:20 final size:20
Alignment explanation
Indices: 27620422--27620535 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
27620412 GGGTACCAAA
*
27620422 GTACAAACAGGGGCACGTAT
1 GTACAAACAGGGGTACGTAT
* ** *
27620442 GTACAAATAGGGGTACCAAA
1 GTACAAACAGGGGTACGTAT
**
27620462 GTACAAACAGGGGTATATAT
1 GTACAAACAGGGGTACGTAT
* * *
27620482 GTTCAAACAAGGGTATCG-AA
1 GTACAAACAGGGGTA-CGTAT
*
27620502 GTACAAACAGGGGCACGTAT
1 GTACAAACAGGGGTACGTAT
*
27620522 GTACAAACAAGGGT
1 GTACAAACAGGGGT
27620536 TCAATAATTA
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
19 2 0.03
20 69 0.97
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (20 bp):
GTACAAACAGGGGTACGTAT
Found at i:27620597 original size:32 final size:32
Alignment explanation
Indices: 27620561--27620629 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
27620551 TGACCTTTAA
27620561 AAACACTATGAACTTACCTAATATTCAACTCT
1 AAACACTATGAACTTACCTAATATTCAACTCT
27620593 AAACACTATGAACTTACCTAATATTCAACTCT
1 AAACACTATGAACTTACCTAATATTCAACTCT
27620625 AAACA
1 AAACA
27620630 ACACGTAGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.29
Consensus pattern (32 bp):
AAACACTATGAACTTACCTAATATTCAACTCT
Found at i:27624299 original size:29 final size:29
Alignment explanation
Indices: 27624266--27624323 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
27624256 ATAATCTATA
*
27624266 CATAGTTTCATTGACTCATCTTTCTTTTT
1 CATAGTTTCATTGACCCATCTTTCTTTTT
27624295 CATAGTTTCATTGACCCATCTTTCTTTTT
1 CATAGTTTCATTGACCCATCTTTCTTTTT
27624324 TATGAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.07, T:0.53
Consensus pattern (29 bp):
CATAGTTTCATTGACCCATCTTTCTTTTT
Found at i:27625160 original size:20 final size:20
Alignment explanation
Indices: 27625135--27625173 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27625125 ATCGACCTAC
*
27625135 AAACAGGGGTACTAAAGTAG
1 AAACAGGGGTACCAAAGTAG
27625155 AAACAGGGGTACCAAAGTA
1 AAACAGGGGTACCAAAGTA
27625174 CAAGCATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.28, T:0.13
Consensus pattern (20 bp):
AAACAGGGGTACCAAAGTAG
Found at i:27629897 original size:3 final size:3
Alignment explanation
Indices: 27629889--27629943 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
27629879 GGCATCTCCA
27629889 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
27629937 CTT CTT C
1 CTT CTT C
27629944 CCAGCCCAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:27630715 original size:38 final size:38
Alignment explanation
Indices: 27630655--27630731 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
27630645 TCAATGCATA
* *
27630655 TGCTCTGTTTTGTCATAAATTCTCACCATTGATGTTAG
1 TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
27630693 TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
1 TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
27630731 T
1 T
27630732 ATTAACATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (38 bp):
TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
Found at i:27632824 original size:9 final size:9
Alignment explanation
Indices: 27632810--27632834 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27632800 ATCATATAAG
27632810 ATTATTATC
1 ATTATTATC
27632819 ATTATTATC
1 ATTATTATC
27632828 ATTATTA
1 ATTATTA
27632835 GGTAGCGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATTATC
Found at i:27644642 original size:34 final size:34
Alignment explanation
Indices: 27644599--27644666 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
27644589 AAAAAAAAAA
27644599 ATAAAAACAGCCAACACTAAATTAAGTGAGAATT
1 ATAAAAACAGCCAACACTAAATTAAGTGAGAATT
27644633 ATAAAAACAGCCAACACTAAATTAAGTGAGAATT
1 ATAAAAACAGCCAACACTAAATTAAGTGAGAATT
27644667 GCACCAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (34 bp):
ATAAAAACAGCCAACACTAAATTAAGTGAGAATT
Found at i:27647268 original size:35 final size:35
Alignment explanation
Indices: 27647185--27647346 Score: 182
Period size: 35 Copynumber: 4.6 Consensus size: 35
27647175 GTACATTGTC
* * * * * *
27647185 AGTCCAACCAAAACACAACAGATGCTCATAGGAACC
1 AGTCCAACCGAAACACACCA-ATACTCATAAGATCT
* * * *
27647221 AATCCAAACGAAACATACCAATACTCATAAGATCC
1 AGTCCAACCGAAACACACCAATACTCATAAGATCT
* * *
27647256 AGTTCAACCGAAACACACCAATGCTCATAAGAGCT
1 AGTCCAACCGAAACACACCAATACTCATAAGATCT
27647291 AGTCCAACCGAAACACACCAATACTCATAAGAGT-T
1 AGTCCAACCGAAACACACCAATACTCATAAGA-TCT
27647326 AGTCCAACCGAAACACACCAA
1 AGTCCAACCGAAACACACCAA
27647347 ACAGAGAGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
35 92 0.86
36 15 0.14
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.14
Consensus pattern (35 bp):
AGTCCAACCGAAACACACCAATACTCATAAGATCT
Found at i:27647282 original size:70 final size:70
Alignment explanation
Indices: 27647182--27647346 Score: 215
Period size: 70 Copynumber: 2.3 Consensus size: 70
27647172 AAAGTACATT
* * * *
27647182 GTCAGTCCAACCAAAACACAACAGATGCTCATAGGAACCAATCCAAACGAAACATACCAATACTC
1 GTCAGTCCAACCGAAACACACCA-ATGCTCATAAGAACCAATCCAAACGAAACACACCAATACTC
27647247 ATAAGA
65 ATAAGA
* * * * *
27647253 -TCCAGTTCAACCGAAACACACCAATGCTCATAAGAGCTAGTCCAACCGAAACACACCAATACTC
1 GT-CAGTCCAACCGAAACACACCAATGCTCATAAGAACCAATCCAAACGAAACACACCAATACTC
27647317 ATAAGA
65 ATAAGA
*
27647323 GTTAGTCCAACCGAAACACACCAA
1 GTCAGTCCAACCGAAACACACCAA
27647347 ACAGAGAGTA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
70 62 0.77
71 19 0.23
ACGTcount: A:0.44, C:0.30, G:0.12, T:0.15
Consensus pattern (70 bp):
GTCAGTCCAACCGAAACACACCAATGCTCATAAGAACCAATCCAAACGAAACACACCAATACTCA
TAAGA
Found at i:27650817 original size:20 final size:20
Alignment explanation
Indices: 27650794--27650842 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
27650784 TTCCTTCGTT
27650794 TTTTTATTTCAATCTTTCTA
1 TTTTTATTTCAATCTTTCTA
** * *
27650814 TTTTTATTTTTATTTTTTTA
1 TTTTTATTTCAATCTTTCTA
27650834 TTTTTATTT
1 TTTTTATTT
27650843 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTATTTCAATCTTTCTA
Found at i:27650823 original size:6 final size:6
Alignment explanation
Indices: 27650812--27650858 Score: 58
Period size: 6 Copynumber: 7.2 Consensus size: 6
27650802 TCAATCTTTC
27650812 TATTTT TATTTT TATTTTTT TATTTT TATTTTT TATTTTT TATTTT T
1 TATTTT TATTTT TA--TTTT TATTTT TA-TTTT TA-TTTT TATTTT T
27650859 GTATACGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 19 0.50
7 13 0.34
8 6 0.16
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TATTTT
Found at i:27650830 original size:7 final size:7
Alignment explanation
Indices: 27650814--27650858 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
27650804 AATCTTTCTA
27650814 TTTTTA-
1 TTTTTAT
27650820 TTTTTAT
1 TTTTTAT
27650827 TTTTT-T
1 TTTTTAT
27650833 ATTTTTAT
1 -TTTTTAT
27650841 TTTTTAT
1 TTTTTAT
27650848 TTTTTAT
1 TTTTTAT
27650855 TTTT
1 TTTT
27650859 GTATACGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 7 0.19
7 28 0.78
8 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:27650831 original size:14 final size:14
Alignment explanation
Indices: 27650814--27650858 Score: 74
Period size: 14 Copynumber: 3.2 Consensus size: 14
27650804 AATCTTTCTA
27650814 TTTTTATTTTTATT
1 TTTTTATTTTTATT
27650828 TTTTTATTTTTA-T
1 TTTTTATTTTTATT
27650841 TTTTTATTTTTTATT
1 TTTTTA-TTTTTATT
27650856 TTT
1 TTT
27650859 GTATACGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.24
14 18 0.62
15 4 0.14
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:27650843 original size:20 final size:20
Alignment explanation
Indices: 27650812--27650858 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
27650802 TCAATCTTTC
27650812 TATTTTTA-TTTTTATTTTTT
1 TATTTTTATTTTTTA-TTTTT
27650832 TATTTTTATTTTTTATTTTT
1 TATTTTTATTTTTTATTTTT
27650852 TATTTTT
1 TATTTTT
27650859 GTATACGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (20 bp):
TATTTTTATTTTTTATTTTT
Found at i:27652228 original size:71 final size:72
Alignment explanation
Indices: 27652109--27652250 Score: 223
Period size: 71 Copynumber: 2.0 Consensus size: 72
27652099 TCTTTTCAAA
*
27652109 CTCAAATTTCAAACGATCTAGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGAGCATGAT-CC
1 CTCAAATTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGAGCATGATCCC
27652173 TTTTTTC
66 TTTTTTC
* * * * *
27652180 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCTTAACTTACTGGGCATGATCCC
1 CTCAAATTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGAGCATGATCCC
27652245 TTTTTT
66 TTTTTT
27652251 AAATCCGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
71 56 0.88
72 8 0.12
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (72 bp):
CTCAAATTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGAGCATGATCCC
TTTTTTC
Found at i:27655496 original size:47 final size:46
Alignment explanation
Indices: 27655363--27655498 Score: 134
Period size: 47 Copynumber: 2.9 Consensus size: 46
27655353 AAGAGAAAGG
* * *
27655363 GACCAAAGTGAAAACCCGCAAAGGGGTGTTTTGAGTCCT---AAAAAA
1 GACCAAGGTGAAAACCCGCAAA-GGGCGCTTTGAGT-CTAAAAAAAAA
** * * *
27655408 GATTAAGGTGAAAACCCGCAAAGGACGCCTTAAGTTCTAAAAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG-TCTAAAAAAAAA
*
27655455 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCGTAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTC-TAAAAAA
27655499 TAATAAAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
44 9 0.12
45 20 0.28
46 2 0.03
47 41 0.57
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (46 bp):
GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCTAAAAAAAAA
Found at i:27655653 original size:42 final size:42
Alignment explanation
Indices: 27655587--27655705 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
27655577 AAAAGGGCGT
* * * * *
27655587 CTCAAATGTT-GATCAGAATGGGGCATGATGTTATCAGAGTAG
1 CTCAAAT-TTCGATCAAAATAGGGCATGATGTGATCAGAGCAA
* *
27655629 CTCAAATTTCGATTAAAATAGGGCATGATGTGATCATAGCAA
1 CTCAAATTTCGATCAAAATAGGGCATGATGTGATCAGAGCAA
* * * *
27655671 CTCAAATTTTGATCAGATTAGGGCATGTTGTGATC
1 CTCAAATTTCGATCAAAATAGGGCATGATGTGATC
27655706 TTGCTATACC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (42 bp):
CTCAAATTTCGATCAAAATAGGGCATGATGTGATCAGAGCAA
Found at i:27656507 original size:24 final size:24
Alignment explanation
Indices: 27656472--27656529 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
27656462 ATGTCCCAAA
*
27656472 ATTACAGCGGATTGAACATTGAAG
1 ATTACAGTGGATTGAACATTGAAG
* *
27656496 ATTACAGTGGATTGAACTTTGAAT
1 ATTACAGTGGATTGAACATTGAAG
27656520 ATTACAGTGG
1 ATTACAGTGG
27656530 GGAGAATCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (24 bp):
ATTACAGTGGATTGAACATTGAAG
Found at i:27657179 original size:123 final size:123
Alignment explanation
Indices: 27656906--27657463 Score: 428
Period size: 123 Copynumber: 4.4 Consensus size: 123
27656896 TTTCTTGGCA
* * * ** * * *
27656906 TTGTAGTGGAACAGATTAAAGCTAAAAGCAGCGAATCTTATTTCCCTAGCGTCACAGTAGATTAA
1 TTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAG
* * * * * *
27656971 AGTTGAAG-TGGAGTAGATTAAAGCTGGCGTT-AAGACTG-AGAGCAGCGAATCTTATTTCCTTG
66 A-TTAAAGCT-GA--AG-TT-GAGC-GG-ATTAAAG-CTGAAG-GCAGCGGATCTTATCTCTTTG
*
27657033 ACG
121 ATG
* * * *
27657036 TTGTAGCT-GAACAAATTAAAGCTAAAGGTAGCGAATATTATTTCCCTACCGTTGCAGTGGAATA
1 TTGTAG-TGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATA
*
27657100 GATTAAAGCTGAAGTTGAGCGGATTAAAGCAGAAGGCAGCGGATCTTATCTCTTTGATG
65 GATTAAAGCTGAAGTTGAGCGGATTAAAGCTGAAGGCAGCGGATCTTATCTCTTTGATG
* * * *
27657159 TTGTGGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAATAG
1 TTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAG
* * *
27657224 ATTAAAGCTGAAGGCAGCTAATCTTATCTCCCTGGCATT-AAGACTG-AGAGCAGCGAATCTTAT
66 ATTAAAGCTG-A---AG----T-TGA----GC-GG-ATTAAAG-CTGAAG-GCAGCGGATCTTAT
* ** *
27657287 TTCCCTGACG
114 CTCTTTGATG
* * *
27657297 TTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCTCTAGCGTTGTAGTGGAATAG
1 TTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAG
* * * * *
27657362 GTTAAAGCTGAAGTGGAGCGAATTAAAGCTGAAGGCAGCGGATCCTATCTCTTTGGT-
66 ATTAAAGCTGAAGTTGAGCGGATTAAAGCTGAAGGCAGCGGATCTTATCTCTTTGATG
* * *
27657419 TTCATAGTGGAACAAATTAAAGTTAAAGGTAGCGAATCTTGTTTC
1 TT-GTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC
27657464 TTTGGCGTTG
Statistics
Matches: 346, Mismatches: 57, Indels: 57
0.75 0.12 0.12
Matches are distributed among these distances:
122 3 0.01
123 149 0.43
124 14 0.04
125 4 0.01
126 2 0.01
127 4 0.01
129 8 0.02
130 56 0.16
131 2 0.01
132 2 0.01
134 2 0.01
136 1 0.00
137 8 0.02
138 91 0.26
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (123 bp):
TTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAG
ATTAAAGCTGAAGTTGAGCGGATTAAAGCTGAAGGCAGCGGATCTTATCTCTTTGATG
Found at i:27657221 original size:51 final size:51
Alignment explanation
Indices: 27657166--27657262 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
27657156 ATGTTGTGGT
* * *
27657166 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGC
1 GGAATAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTGCAGC
* * *
27657217 GGAATAGATTAAAGCTGAAGGCAGCTAATCTTATCTCCCTGGCATT
1 GGAATAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATT
27657263 AAGACTGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (51 bp):
GGAATAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTGCAGC
Found at i:27657350 original size:51 final size:52
Alignment explanation
Indices: 27657275--27657384 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 52
27657265 GACTGAGAGC
*
27657275 AGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTAAAG-GT
1 AGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTAAAGTGG
* * * * * *
27657326 AGCGAATCTTGTTTCTCT-AGCGTTGTAGTGGAATAGGTTAAAGCTGAAGTGG
1 AGCGAATCTTATTTCCCTGA-CGTTGCAGTGGAACAGATTAAAGCTAAAGTGG
27657378 AGCGAAT
1 AGCGAAT
27657385 TAAAGCTGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.02
51 41 0.82
52 8 0.16
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (52 bp):
AGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTAAAGTGG
Found at i:27657358 original size:261 final size:261
Alignment explanation
Indices: 27656994--27657514 Score: 733
Period size: 261 Copynumber: 2.0 Consensus size: 261
27656984 TAGATTAAAG
* * *
27656994 CTGGCGTTAAGACTGAGAGCAGCGAATCTTATTTCCTTGACGTTGTAGCTGAACAAATTAAAGCT
1 CTGGCATTAAGACTGAGAGCAGCGAATCTTATTTCCCTGACGTTGCAGCTGAACAAATTAAAGCT
* *
27657059 AAAGGTAGCGAATATTATTTCCCTACCGTTGCAGTGGAATAGATTAAAGCTGAAGTTGAGCGGAT
66 AAAGGTAGCGAATATTATTTCCCTACCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGAAT
* * * * *
27657124 TAAAGCAGAAGGCAGCGGATCTTATCTCTTTGATGTT-GTGGTGGAATAGATTAAAGCTAAAGGT
131 TAAAGCAGAAGGCAGCGGATCCTATCTCTTTGAT-TTCATAGTGGAACAAATTAAAGCTAAAGGT
* * *
27657188 AGCGAATCTTGTTTCCCTAGCATTGCAGCGGAA-TAGATTAAAGCTGAAGGCAGCTAATCTTATC
195 AGCGAATCTTGTTTCCCTAGCATTGCAGC-GAAGCAGATTAAAGCTGAAGGCAACGAATCTTATC
27657252 TCC
259 TCC
*
27657255 CTGGCATTAAGACTGAGAGCAGCGAATCTTATTTCCCTGACGTTGCAG-TGGAACAGATTAAAGC
1 CTGGCATTAAGACTGAGAGCAGCGAATCTTATTTCCCTGACGTTGCAGCT-GAACAAATTAAAGC
* * * * * *
27657319 TAAAGGTAGCGAATCTTGTTTCTCTAGCGTTGTAGTGGAATAGGTTAAAGCTGAAGTGGAGCGAA
65 TAAAGGTAGCGAATATTATTTCCCTACCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGAA
* * *
27657384 TTAAAGCTGAAGGCAGCGGATCCTATCTCTTTGGTTTCATAGTGGAACAAATTAAAGTTAAAGGT
130 TTAAAGCAGAAGGCAGCGGATCCTATCTCTTTGATTTCATAGTGGAACAAATTAAAGCTAAAGGT
** * * * *
27657449 AGCGAATCTTGTTTCTTTGGCGTTGCAGCTAAGCAGTTTAAAGCTGAAGGCAACGAATCTTATCT
195 AGCGAATCTTGTTTCCCTAGCATTGCAGCGAAGCAGATTAAAGCTGAAGGCAACGAATCTTATCT
27657514 C
260 C
27657515 TTTGGTGTTA
Statistics
Matches: 228, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
260 5 0.02
261 223 0.98
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (261 bp):
CTGGCATTAAGACTGAGAGCAGCGAATCTTATTTCCCTGACGTTGCAGCTGAACAAATTAAAGCT
AAAGGTAGCGAATATTATTTCCCTACCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGAAT
TAAAGCAGAAGGCAGCGGATCCTATCTCTTTGATTTCATAGTGGAACAAATTAAAGCTAAAGGTA
GCGAATCTTGTTTCCCTAGCATTGCAGCGAAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTC
C
Found at i:27657838 original size:132 final size:131
Alignment explanation
Indices: 27657576--27657844 Score: 305
Period size: 132 Copynumber: 2.0 Consensus size: 131
27657566 AGACAGACTA
* * *
27657576 AAGATGACGAATCTTATCTTCCCAAGGTAGTTGGGAAGCAGATTTAAGCCACCAGTCCTATCTCT
1 AAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCC
*** * * *
27657641 CTGAGCAGCAGTGGAGTAGGTTGAAGATTACAGATCCTGTCTCCTTAAGCAGTAGTGGAGCAGAT
66 CTGAGCAGCAGTGGAGTAAACTGAAGATTACAGATCCTGTCTCCTTAAG-AGCAGCGAAGCAGAT
27657706 CG
130 CG
* *
27657708 TAGACGACGAATCTTA-CTTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACCAG-CCTTATCT
1 AAGACGACGAATCTTATC-TTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCC-TATCT
* * *
27657771 CCCTGAGCAGTAGTGGAGTAAACTGAAGA-TAGCAGA-CTTGTCTTCCTGTATTG-GCAGCGAAG
64 CCCTGAGCAGCAGTGGAGTAAACTGAAGATTA-CAGATCCTGTC-TCCT-TA-AGAGCAGCGAAG
*
27657833 TAGATCG
125 CAGATCG
27657840 AAGAC
1 AAGAC
27657845 ACCAGCCTTA
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
131 10 0.09
132 102 0.89
133 2 0.02
134 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (131 bp):
AAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCC
CTGAGCAGCAGTGGAGTAAACTGAAGATTACAGATCCTGTCTCCTTAAGAGCAGCGAAGCAGATC
G
Found at i:27657940 original size:88 final size:88
Alignment explanation
Indices: 27657757--27658405 Score: 696
Period size: 88 Copynumber: 7.4 Consensus size: 88
27657747 AGATTTAAGC
* **
27657757 CACCAGCCTTATCTCCCTGAGCAGTAGTGGAGTAAACTGAAGATAGCAGA-CTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTGGACTGAAGATAGCAGATCTTGTCTTCCTGTA
27657821 TTGGCAGCGAAGTAGATCGAAGA
66 TTGGCAGCGAAGTAGATCGAAGA
* * *
27657844 CACCAGCCTTATCTCCCTGAGCAGTAGTGGAGTGGACTGAAGATAACATATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTGGACTGAAGATAGCAGATCTTGTCTTCCTGTA
*
27657909 TTGGCAGCAAAGTAGATCGAAGA
66 TTGGCAGCGAAGTAGATCGAAGA
* ** * * ** * * * *
27657932 CACTAGCCTTATCTCCCTGAGTTTGCAGCGGGGCAGACTAAAGATAACAGATTTTGTTTTCCTGT
1 CACCAGCCTTATCTCCCTGAG-CAGCAGTGGAGTGGACTGAAGATAGCAGATCTTGTCTTCCTGT
27657997 ATTGGCAGCGAAGTAGATCGAAGA
65 ATTGGCAGCGAAGTAGATCGAAGA
** * *** ** * **
27658021 CACCAGCCTTGCCTCCCTAAATTTGCAACGGGGCAGACTGAAGATAGCAGATCTTGTCTTCCTGT
1 CACCAGCCTTATCTCCCT-GAGCAGCAGTGGAGTGGACTGAAGATAGCAGATCTTGTCTTCCTGT
*
27658086 -TTGGCAGTGAAGTAGATCGAAGA
65 ATTGGCAGCGAAGTAGATCGAAGA
* * * * *
27658109 TACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGG-TTGAAGATAACAAATCTTGTCTTCCTGT
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT-GGACTGAAGATAGCAGATCTTGTCTTCCTGT
*
27658173 ATTGGCAGCGAAGTAGATCGAATA
65 ATTGGCAGCGAAGTAGATCGAAGA
* * * *
27658197 TACCAGCCTTATCTCTCTGAGTAGCAGTGGAGTAGG-TTGAAGATAGCAGATCTTGTCTTCCTGT
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT-GGACTGAAGATAGCAGATCTTGTCTTCCTGT
27658261 ATTGGCAGCGAAGTAGATCGAAGA
65 ATTGGCAGCGAAGTAGATCGAAGA
* *** * * * * *
27658285 TACCAATTTTATCTCCCCGAGCAGCAGTGGAGTAGG-TTGAAAATAGCAGATTTTGTCTTCCTAT
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGT-GGACTGAAGATAGCAGATCTTGTCTTCCTGT
* * * *
27658349 ACTGACAGTGAAGTAGATCGAATA
65 ATTGGCAGCGAAGTAGATCGAAGA
* ** *
27658373 AACCAATCTTATCTCTCTGAAGCAGCAGTGGAG
1 CACCAGCCTTATCTCCCTG-AGCAGCAGTGGAG
27658406 CAGATTAAAG
Statistics
Matches: 486, Mismatches: 70, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
87 77 0.16
88 287 0.59
89 121 0.25
90 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (88 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTGGACTGAAGATAGCAGATCTTGTCTTCCTGTA
TTGGCAGCGAAGTAGATCGAAGA
Found at i:27658138 original size:43 final size:43
Alignment explanation
Indices: 27658089--27658319 Score: 174
Period size: 43 Copynumber: 5.3 Consensus size: 43
27658079 TTCCTGTTTG
* *
27658089 GCAGTGAAGTAGATCGAAGATACCAGCCTTATCTCCCTGAGCA
1 GCAGTGAAGTAGATCGAAGATACCAGTCTTATCTCCCTGAGTA
* * * * * * * *
27658132 GCAGTGAAGTAGGTTGAAGATAACAAATCTTGTCTTCCTGTATTG
1 GCAGTGAAGTAGATCGAAGAT-ACCAGTCTTATCTCCCTG-AGTA
* * * *
27658177 GCAGCGAAGTAGATCGAATATACCAGCCTTATCTCTCTGAGTA
1 GCAGTGAAGTAGATCGAAGATACCAGTCTTATCTCCCTGAGTA
* * * * * * * *
27658220 GCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 GCAGTGAAGTAGATCGAAGATACCAG-TCTTATCTCCCTG-AGTA
* * * * *
27658265 GCAGCGAAGTAGATCGAAGATACCAATTTTATCTCCCCGAGCA
1 GCAGTGAAGTAGATCGAAGATACCAGTCTTATCTCCCTGAGTA
*
27658308 GCAGTGGAGTAG
1 GCAGTGAAGTAG
27658320 GTTGAAAATA
Statistics
Matches: 135, Mismatches: 49, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
43 52 0.39
44 43 0.32
45 40 0.30
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (43 bp):
GCAGTGAAGTAGATCGAAGATACCAGTCTTATCTCCCTGAGTA
Found at i:27658364 original size:45 final size:44
Alignment explanation
Indices: 27658220--27658364 Score: 114
Period size: 45 Copynumber: 3.3 Consensus size: 44
27658210 TCTCTGAGTA
* * * *
27658220 GCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATT
1 GCAGTGAAGTAGGTTGAAGATAGCAGATTTTGTCTTCCTATACT
* * * * * * * * *
27658264 GGCAGCGAAGTAGATCGAAGATACCA-ATTTTATCTCCCCGA-GCA
1 -GCAGTGAAGTAGGTTGAAGATAGCAGATTTTGTCT-TCCTATACT
* *
27658308 GCAGTGGAGTAGGTTGAAAATAGCAGATTTTGTCTTCCTATACT
1 GCAGTGAAGTAGGTTGAAGATAGCAGATTTTGTCTTCCTATACT
27658352 GACAGTGAAGTAG
1 G-CAGTGAAGTAG
27658365 ATCGAATAAA
Statistics
Matches: 71, Mismatches: 25, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 22 0.31
44 17 0.24
45 32 0.45
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (44 bp):
GCAGTGAAGTAGGTTGAAGATAGCAGATTTTGTCTTCCTATACT
Found at i:27658399 original size:265 final size:265
Alignment explanation
Indices: 27657757--27658402 Score: 769
Period size: 265 Copynumber: 2.4 Consensus size: 265
27657747 AGATTTAAGC
* * * *
27657757 CACCAGCCTTATCTCCCTGAGCAGTAGTGGAGTAAACTGAAGATAGCAGA-CTTGTCTTCCTGTA
1 CACCAACCTTATCTCCCAGAGCAGCAGTGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
27657821 TTGGCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCCCTGAGCAGTAGTGGAGTGGACTGAAG
66 TTGGCAGTGAAGTAGATCGAAGAAACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTGGACTGAAG
* *
27657886 ATAACATATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACACTAGCCTTATCTCCCTG
131 ATAACAAATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACACCAGCCTTATCTCCCTG
* * * *
27657951 AGTTTGCAGCGGGGCAGACTAAAGATAACAGATTTTGTTTTCCTGTATTGGCAGCGAAGTAGATC
196 AGTTAGCAGCGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
27658016 GAAGA
261 GAAGA
* ** * *** ** * *
27658021 CACCAGCCTTGCCTCCCTAAATTTGCAACGGGGCAGACTGAAGATAGCAGATCTTGTCTTCCTGT
1 CACCAACCTTATCTCCC-AGAGCAGCAGTGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGT
* *
27658086 -TTGGCAGTGAAGTAGATCGAAGATACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGG-TTGA
65 ATTGGCAGTGAAGTAGATCGAAGAAACCAGCCTTATCTCCCTGAGCAGCAGTGAAGT-GGACTGA
* * * *
27658149 AGATAACAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAATATACCAGCCTTATCTCTC
129 AGATAACAAATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACACCAGCCTTATCTCCC
* * ** * *
27658214 TGAG-TAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
194 TGAGTTAGCAGCGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
27658278 TCGAAGA
259 TCGAAGA
* ** * ** * * *
27658285 TACCAATTTTATCTCCCCGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATTTTGTCTTCCTATA
1 CACCAACCTTATCTCCCAGAGCAGCAGTGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTA
* * * ** *
27658350 CTGACAGTGAAGTAGATCGAATAAACCAATCTTATCTCTCTGAAGCAGCAGTG
66 TTGGCAGTGAAGTAGATCGAAGAAACCAGCCTTATCTCCCTG-AGCAGCAGTG
27658403 GAGCAGATTA
Statistics
Matches: 316, Mismatches: 61, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
263 33 0.10
264 118 0.37
265 150 0.47
266 15 0.05
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (265 bp):
CACCAACCTTATCTCCCAGAGCAGCAGTGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTA
TTGGCAGTGAAGTAGATCGAAGAAACCAGCCTTATCTCCCTGAGCAGCAGTGAAGTGGACTGAAG
ATAACAAATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACACCAGCCTTATCTCCCTG
AGTTAGCAGCGGAGCAGACTAAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
GAAGA
Found at i:27658776 original size:44 final size:44
Alignment explanation
Indices: 27658639--27658890 Score: 169
Period size: 44 Copynumber: 5.8 Consensus size: 44
27658629 CAGATAATAT
* * *
27658639 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGTC-GGTT---TA-A
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAG-CAGATTGAAGATA
* * * * * * *
27658679 CCAATCTTATCTCCCTAAACTTGCAGT-GGGACAGGTTGAAGATG
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAG-CAGATTGAAGATA
** *
27658723 CAAGTCTTATC-CCCTGAAGTTGCAGTAGAGCAGACTGAAGATAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT-A
* * * * *
27658767 CAAACCTTATCTCCCTAAACTTGCAGTGGGGCAGGTTGAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATA
*** * *
27658811 CAAGTTTTATCTCCCTGAAGTTGCAGTAGAGAAGATTGAAGCTA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATA
* * * *
27658855 CTAATCC-TATCTCCATAAAGTTGCAGTGGAGCAGAT
1 C-AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
27658891 AAAAACGATG
Statistics
Matches: 162, Mismatches: 41, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
39 3 0.02
40 27 0.17
43 24 0.15
44 81 0.50
45 27 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATA
Found at i:27658789 original size:88 final size:89
Alignment explanation
Indices: 27658684--27658883 Score: 289
Period size: 88 Copynumber: 2.3 Consensus size: 89
27658674 TTTAACCAAT
*
27658684 CTTATCTCCCTAAACTTGCAGTGGGACAGGTTGAAGATGCAAGTCTTATC-CCCTGAAGTTGCAG
1 CTTATCTCCCTAAACTTGCAGTGGGACAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
*
27658748 TAGAGCAGACTGAAGATAAC-AAAC
66 TAGAGAAGACTGAAGAT-ACTAAAC
* *
27658772 CTTATCTCCCTAAACTTGCAGTGGGGCAGGTTGAAGATACAAGTTTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAACTTGCAGTGGGACAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
27658837 TAGAGAAGATTGAAGCTACTAATC
66 TAGAGAAGACTGAAGATACTAAAC
* *
27658861 C-TATCTCCATAAAGTTGCAGTGG
1 CTTATCTCCCTAAACTTGCAGTGG
27658884 AGCAGATAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
88 69 0.68
89 32 0.32
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (89 bp):
CTTATCTCCCTAAACTTGCAGTGGGACAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
TAGAGAAGACTGAAGATACTAAAC
Found at i:27659761 original size:6 final size:6
Alignment explanation
Indices: 27659738--27659776 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
27659728 TCAATCTTTC
*
27659738 TATTTC TATTTT TATTTT TATTTTT TATTTTT TATTTT T
1 TATTTT TATTTT TATTTT TA-TTTT TA-TTTT TATTTT T
27659777 GTATACGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:27659762 original size:7 final size:7
Alignment explanation
Indices: 27659746--27659776 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
27659736 TCTATTTCTA
27659746 TTTTTA-
1 TTTTTAT
27659752 TTTTTAT
1 TTTTTAT
27659759 TTTTTAT
1 TTTTTAT
27659766 TTTTTAT
1 TTTTTAT
27659773 TTTT
1 TTTT
27659777 GTATACGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:27661191 original size:70 final size:72
Alignment explanation
Indices: 27661063--27661200 Score: 226
Period size: 71 Copynumber: 1.9 Consensus size: 72
27661053 TTTCAAACTC
* * * *
27661063 AAGTTTTAAACGATCTCGGGAATTAATAAGATATCGTGTCCTAACTTACTGGGCATGAT-CCTTT
1 AAGTTTTAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTT
27661127 TTTCCTT
66 TTTCCTT
27661134 AAGTTTTAAACGATCTAGGGAATTAAGAAAAGA-CGTGTCCTAACTTACTGGGCATGATCCCTTT
1 AAGTTTTAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTT
27661198 TTT
66 TTT
27661201 AAATCCGAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 25 0.40
71 37 0.60
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (72 bp):
AAGTTTTAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTT
TTTCCTT
Found at i:27662372 original size:13 final size:13
Alignment explanation
Indices: 27662354--27662379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27662344 GGCTTCCCCT
27662354 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662367 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662380 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:27662398 original size:39 final size:39
Alignment explanation
Indices: 27662354--27662585 Score: 464
Period size: 39 Copynumber: 5.9 Consensus size: 39
27662344 GGCTTCCCCT
27662354 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
1 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
27662393 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
1 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
27662432 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
1 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
27662471 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
1 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
27662510 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
1 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
27662549 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGC
1 TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGC
27662586 TTCACAACCT
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 193 1.00
ACGTcount: A:0.05, C:0.28, G:0.15, T:0.52
Consensus pattern (39 bp):
TTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAGCTGCCG
Found at i:27662411 original size:13 final size:13
Alignment explanation
Indices: 27662393--27662418 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27662383 TTAGCTGCCG
27662393 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662406 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662419 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:27662450 original size:13 final size:13
Alignment explanation
Indices: 27662432--27662457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27662422 TTAGCTGCCG
27662432 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662445 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662458 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:27662489 original size:13 final size:13
Alignment explanation
Indices: 27662471--27662496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27662461 TTAGCTGCCG
27662471 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662484 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662497 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:27662528 original size:13 final size:13
Alignment explanation
Indices: 27662510--27662535 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27662500 TTAGCTGCCG
27662510 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662523 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662536 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:27662567 original size:13 final size:13
Alignment explanation
Indices: 27662549--27662574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27662539 TTAGCTGCCG
27662549 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662562 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
27662575 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:27670150 original size:44 final size:45
Alignment explanation
Indices: 27670085--27670175 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27670075 ACCTCTATTC
* * *
27670085 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
27670129 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
27670174 CA
1 CA
27670176 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:27670190 original size:17 final size:16
Alignment explanation
Indices: 27670156--27670208 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
27670146 GATTAGCTAT
27670156 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27670172 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
27670189 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27670205 TACA
1 TACA
27670209 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27676455 original size:26 final size:25
Alignment explanation
Indices: 27676381--27676455 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 25
27676371 TTAAACATAA
*
27676381 AATTAAATTAAAAAATAATTATTGGT
1 AATTAAATTAAATAATAATTATT-GT
*
27676407 AATATATAATTAAATACAAAATTATT-T
1 AAT-TA-AATTAAATA-ATAATTATTGT
27676434 AAGTTAAATTAAATGAATAATT
1 AA-TTAAATTAAAT-AATAATT
27676456 TTTTTAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 16 0.39
27 8 0.20
28 9 0.22
29 8 0.20
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (25 bp):
AATTAAATTAAATAATAATTATTGT
Found at i:27677679 original size:20 final size:20
Alignment explanation
Indices: 27677642--27677691 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
27677632 GGCACTTTCA
*
27677642 TATCGATACTTAACAAAATT
1 TATCGATACTAAACAAAATT
* * **
27677662 TATCGCTACTAAAGAAAAAA
1 TATCGATACTAAACAAAATT
27677682 TATCGATACT
1 TATCGATACT
27677692 TATCTATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (20 bp):
TATCGATACTAAACAAAATT
Found at i:27679448 original size:17 final size:19
Alignment explanation
Indices: 27679428--27679462 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27679418 TTAAAATAGT
27679428 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
27679445 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
27679463 TCCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:27679553 original size:19 final size:20
Alignment explanation
Indices: 27679521--27679569 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
27679511 CAAAATAGTG
*
27679521 AAAAAAATAACAAGAAA-A-T
1 AAAAAAA-AGCAAGAAACAGT
27679540 AATAAAAAAGCAAGAAACAGT
1 AA-AAAAAAGCAAGAAACAGT
27679561 AAAAAAAAG
1 AAAAAAAAG
27679570 TAGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.38
20 13 0.50
21 3 0.12
ACGTcount: A:0.76, C:0.06, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAAAAAGCAAGAAACAGT
Found at i:27680030 original size:51 final size:52
Alignment explanation
Indices: 27679970--27680075 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 52
27679960 ATAATAAATT
** * * * *
27679970 TAACCCTCAATTTTTACATATTATAT-CAATTTAGTCATAATTTTAAAA-AAA
1 TAACCCTCAAAATTTACAAATGAT-TCCAATTTAATCATAATTCTAAAATAAA
* *
27680021 TAACTCTCAAAATTTACAAATGATTCCAATTTAATCCTAATTCTAAAATAAA
1 TAACCCTCAAAATTTACAAATGATTCCAATTTAATCATAATTCTAAAATAAA
27680073 TAA
1 TAA
27680076 AAAATACATA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
50 1 0.02
51 38 0.84
52 6 0.13
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (52 bp):
TAACCCTCAAAATTTACAAATGATTCCAATTTAATCATAATTCTAAAATAAA
Found at i:27687924 original size:20 final size:20
Alignment explanation
Indices: 27687865--27687926 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
27687855 GGTTAAGAAA
27687865 TTTGATATTT-GATT-TAAAT
1 TTTGATATTTAG-TTATAAAT
** * *
27687884 TTCAATACTTA-TTAGAAAT
1 TTTGATATTTAGTTATAAAT
27687903 TTTGATATTTAGTTATAAAT
1 TTTGATATTTAGTTATAAAT
27687923 TTTG
1 TTTG
27687927 GTACTATCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
18 2 0.06
19 19 0.59
20 11 0.34
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTGATATTTAGTTATAAAT
Found at i:27688615 original size:19 final size:19
Alignment explanation
Indices: 27688587--27688624 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
27688577 ATTTATTTAT
27688587 TAAAATAATATTTTTATAAA
1 TAAAATAATATTTTT-TAAA
27688607 TAAAA-AATATTTTTTAAA
1 TAAAATAATATTTTTTAAA
27688625 AAACCTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATAATATTTTTTAAA
Found at i:27689257 original size:15 final size:16
Alignment explanation
Indices: 27689239--27689268 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27689229 ACATTTAAAT
27689239 AATTTTTT-ATTTTTC
1 AATTTTTTAATTTTTC
27689254 AATTTTTTAATTTTT
1 AATTTTTTAATTTTT
27689269 AAGAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
AATTTTTTAATTTTTC
Found at i:27689661 original size:19 final size:19
Alignment explanation
Indices: 27689614--27689670 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
27689604 ATATGATGCG
*
27689614 ATACCAATATTTTTAAAGCA-
1 ATACCAATATTTAT-AA-CAT
27689634 ATACCAATATTTATAACAT
1 ATACCAATATTTATAACAT
* *
27689653 ATACTAATATTTCTAACA
1 ATACCAATATTTATAACA
27689671 AGAATACCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.06
19 18 0.55
20 13 0.39
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACCAATATTTATAACAT
Found at i:27689788 original size:18 final size:19
Alignment explanation
Indices: 27689767--27689806 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27689757 CAAAAATTGT
27689767 TAAT-GATAACAAAATTTC
1 TAATAGATAACAAAATTTC
* *
27689785 TAATAGATTACAATATTTC
1 TAATAGATAACAAAATTTC
27689804 TAA
1 TAA
27689807 CGCGATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATAGATAACAAAATTTC
Found at i:27694079 original size:26 final size:26
Alignment explanation
Indices: 27694043--27694094 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27694033 GAATGCTAAG
27694043 CTCAGAAATGAAATTACCACATTTCA
1 CTCAGAAATGAAATTACCACATTTCA
27694069 CTCAGAAATGAAATTACCACATTTCA
1 CTCAGAAATGAAATTACCACATTTCA
27694095 GCAATTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (26 bp):
CTCAGAAATGAAATTACCACATTTCA
Found at i:27697081 original size:9 final size:9
Alignment explanation
Indices: 27697067--27697092 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27697057 ATTAAAGATT
27697067 TCTCCAAAA
1 TCTCCAAAA
27697076 TCTCCAAAA
1 TCTCCAAAA
27697085 TCTCCAAA
1 TCTCCAAA
27697093 TCACCCTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (9 bp):
TCTCCAAAA
Found at i:27700823 original size:42 final size:42
Alignment explanation
Indices: 27700776--27700874 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
27700766 CATGGCATAG
* *
27700776 CACACGGACGTGTGGAGCTATTTCGAGAGTTACACGGCCTGA
1 CACACGGACGTGTGAAGCTATTTCAAGAGTTACACGGCCTGA
* * *
27700818 CACACGGGCGTGTGAAGCTATTTCAAGAGTTACACGGCTTGG
1 CACACGGACGTGTGAAGCTATTTCAAGAGTTACACGGCCTGA
27700860 CACACAGGA-GTGTGA
1 CACAC-GGACGTGTGA
27700875 CTTGGCTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (42 bp):
CACACGGACGTGTGAAGCTATTTCAAGAGTTACACGGCCTGA
Found at i:27702903 original size:17 final size:17
Alignment explanation
Indices: 27702867--27702909 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
27702857 TATAACTAAG
*
27702867 ATAAATAAAATAGAATA
1 ATAAATAAAATAGAAGA
**
27702884 ATAAATAAAATATTAGA
1 ATAAATAAAATAGAAGA
27702901 AT-AATAAAA
1 ATAAATAAAA
27702910 AAAGATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAAATAAAATAGAAGA
Found at i:27703158 original size:20 final size:20
Alignment explanation
Indices: 27703130--27703183 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
27703120 TTAAAAAGAA
*
27703130 AACTCAAAGAGAATTTTATT
1 AACTCAAAGTGAATTTTATT
*
27703150 AACTTAAAGTGAATTTTATT
1 AACTCAAAGTGAATTTTATT
27703170 AACTCAAAGTGAAT
1 AACTCAAAGTGAAT
27703184 AATGAATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (20 bp):
AACTCAAAGTGAATTTTATT
Found at i:27715053 original size:26 final size:27
Alignment explanation
Indices: 27715019--27715070 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
27715009 TCATGAATTA
*
27715019 TATTACAA-TATTTATTTTATTTTATTC
1 TATTACAATTA-TAATTTTATTTTATTC
27715046 TATT-CAATTATAATTTTATTTTATT
1 TATTACAATTATAATTTTATTTTATT
27715071 TCATTTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTACAATTATAATTTTATTTTATTC
Found at i:27725176 original size:23 final size:23
Alignment explanation
Indices: 27725150--27725201 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
27725140 TGATTTTTAA
* *
27725150 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATAATAAT
*
27725173 ATTTATAATTATTTAATAATAAT
1 ATTTAGAATTATTTAATAATAAT
27725196 ATTTAG
1 ATTTAG
27725202 GGAAAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATAATAAT
Found at i:27728963 original size:44 final size:44
Alignment explanation
Indices: 27728913--27729088 Score: 352
Period size: 44 Copynumber: 4.0 Consensus size: 44
27728903 CAATAATGTA
27728913 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
1 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
27728957 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
1 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
27729001 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
1 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
27729045 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
1 AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
27729089 CAAATGAATA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 132 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.25
Consensus pattern (44 bp):
AGAATTCCAAGTGAACATAATGGAAGAATTAATTCTTGAGAAAC
Found at i:27730639 original size:23 final size:23
Alignment explanation
Indices: 27730620--27730664 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27730610 TAAATTTAAT
* *
27730620 ATTATTTAGTGATAATATTTAGA
1 ATTATTTAATAATAATATTTAGA
27730643 ATTATTTAATAATAATATTTAG
1 ATTATTTAATAATAATATTTAG
27730665 GAAAAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTATTTAATAATAATATTTAGA
Found at i:27753755 original size:25 final size:26
Alignment explanation
Indices: 27753673--27753813 Score: 116
Period size: 25 Copynumber: 5.7 Consensus size: 26
27753663 GGATATATAA
27753673 CGGGAAGCTCAT-AAGAGCCA-TAAT
1 CGGGAAGCTCATGAAGAGCCATTAAT
* * * * *
27753697 CGGGAAGCTCATG-CGAACGAATGA-
1 CGGGAAGCTCATGAAGAGCCATTAAT
*
27753721 CGGGTAGCTC-TGAAGAGCCATTAAT
1 CGGGAAGCTCATGAAGAGCCATTAAT
* *
27753746 CGGGAAGCTC-CGGAGAGCCATTAAT
1 CGGGAAGCTCATGAAGAGCCATTAAT
* ** *
27753771 CAGGAAGCTCACAAAGAGCCTTTAAT
1 CGGGAAGCTCATGAAGAGCCATTAAT
*
27753797 CGGGATGCTCAT-AAGAG
1 CGGGAAGCTCATGAAGAG
27753814 TTGCGGTGTG
Statistics
Matches: 92, Mismatches: 20, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
23 2 0.02
24 31 0.34
25 38 0.41
26 21 0.23
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (26 bp):
CGGGAAGCTCATGAAGAGCCATTAAT
Found at i:27761647 original size:26 final size:25
Alignment explanation
Indices: 27761537--27761649 Score: 85
Period size: 25 Copynumber: 4.6 Consensus size: 25
27761527 GATAGCTCTT
*
27761537 AAGAGCCATTAATC-GAGAAGCTCCG
1 AAGAGCCATTAATCAG-GAAGCTCCA
* * *
27761562 AATAGCCA-TATATCGGGAAG-TTC-
1 AAGAGCCATTA-ATCAGGAAGCTCCA
27761585 AAGCTAGCCA-T-ATCAGGAAGCTCCA
1 AAG--AGCCATTAATCAGGAAGCTCCA
*
27761610 GAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTC-CA
*
27761636 AAGAGCCTTTAATC
1 AAGAGCCATTAATC
27761650 GAGATGCTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
23 15 0.21
24 7 0.10
25 34 0.48
26 15 0.21
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (25 bp):
AAGAGCCATTAATCAGGAAGCTCCA
Found at i:27764449 original size:27 final size:28
Alignment explanation
Indices: 27764372--27764449 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
27764362 ATTGAGCTAG
* * * *
27764372 ATCAAGTATAACACGTATAAAACGTTGA
1 ATCAAATATAACACGCATAAAGCATTGA
* *
27764400 ATCAAATATAACACACATGAAGCATTGA
1 ATCAAATATAACACGCATAAAGCATTGA
*
27764428 ATC-AATGTAACACGCATAAAGC
1 ATCAAATATAACACGCATAAAGC
27764450 GCAGGATCTC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 16 0.39
28 25 0.61
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (28 bp):
ATCAAATATAACACGCATAAAGCATTGA
Found at i:27767656 original size:42 final size:42
Alignment explanation
Indices: 27767585--27767681 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
27767575 GTGTCACAAG
** *
27767585 CCGTGT-GCCAGGCCATGTAAGTCTCTAACTT-GTGACACACGA
1 CCGTGTCG-CAGGCCATGTAACACTCTAACTTAAT-ACACACGA
27767627 CCGTGTCGCAGGCCATGTAACACAT-TAACTTAATACACACGA
1 CCGTGTCGCAGGCCATGTAACAC-TCTAACTTAATACACACGA
**
27767669 CTATGTCGCAGGC
1 CCGTGTCGCAGGC
27767682 TGTGTGTGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
42 44 0.94
43 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (42 bp):
CCGTGTCGCAGGCCATGTAACACTCTAACTTAATACACACGA
Found at i:27768654 original size:37 final size:37
Alignment explanation
Indices: 27768583--27768738 Score: 197
Period size: 37 Copynumber: 4.2 Consensus size: 37
27768573 AGTACACAAG
* * * *
27768583 TAATCCAACCGA-AACATGTCAATCGCTTATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
* *
27768619 TAATCCACCCGATAACACGCCAATTGCTAATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
* *
27768656 TAATCCACTCGATAACACACCAATCGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
* **
27768693 TAATCAACTTGATAACACGCCAATCGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
*
27768730 CAATCCACC
1 TAATCCACC
27768739 TAAAAACACA
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
36 11 0.11
37 93 0.89
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (37 bp):
TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
Found at i:27768733 original size:17 final size:17
Alignment explanation
Indices: 27768675--27768734 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
27768665 CGATAACACA
27768675 CCAATCGCTCATAAGAG
1 CCAATCGCTCATAAGAG
* * * *
27768692 CTAATCAACTTGATAACACG
1 CCAATC-GC-TCATAAGA-G
27768712 CCAATCGCTCATAAGAG
1 CCAATCGCTCATAAGAG
27768729 CCAATC
1 CCAATC
27768735 CACCTAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 12 0.38
18 7 0.22
19 7 0.22
20 6 0.19
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (17 bp):
CCAATCGCTCATAAGAG
Found at i:27771241 original size:19 final size:19
Alignment explanation
Indices: 27771217--27771255 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27771207 TAGAATATCG
27771217 TGTTTCAAGTCTAAATTAT
1 TGTTTCAAGTCTAAATTAT
*
27771236 TGTTTCAAGTCTATATTAT
1 TGTTTCAAGTCTAAATTAT
27771255 T
1 T
27771256 TGAATCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TGTTTCAAGTCTAAATTAT
Found at i:27776056 original size:37 final size:35
Alignment explanation
Indices: 27775974--27776101 Score: 125
Period size: 37 Copynumber: 3.5 Consensus size: 35
27775964 CGAGTACACA
* *
27775974 AGTAATCCAACCGA-AACATGCCAATCGCTCATAAG
1 AGTAATCC-ACCGATAACACGCAAATCGCTCATAAG
* *
27776009 AGGTAGTCCACTCGATAACACGTCAAAT-GCTTATAAG
1 A-GTAATCCAC-CGATAACACG-CAAATCGCTCATAAG
*
27776046 AGCTAATCCACCCGATAACACGCCAATCGCTCATAAG
1 AG-TAATCCA-CCGATAACACGCAAATCGCTCATAAG
27776083 AGTGAATCCACCTGATAAC
1 AGT-AATCCACC-GATAAC
27776102 TCGCCAAAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
35 3 0.04
36 17 0.22
37 52 0.68
38 5 0.06
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.20
Consensus pattern (35 bp):
AGTAATCCACCGATAACACGCAAATCGCTCATAAG
Found at i:27777414 original size:16 final size:16
Alignment explanation
Indices: 27777395--27777429 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27777385 GTTGATACAA
27777395 AAACATAAGTTTAATG
1 AAACATAAGTTTAATG
* *
27777411 AAACATAATTTTATTG
1 AAACATAAGTTTAATG
27777427 AAA
1 AAA
27777430 AGGAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
AAACATAAGTTTAATG
Found at i:27778110 original size:39 final size:39
Alignment explanation
Indices: 27778003--27778118 Score: 126
Period size: 39 Copynumber: 2.9 Consensus size: 39
27777993 ATTTACATGG
* * * * *
27778003 TAATCATATTCACTTTTGAGCATGTATCACATTA-TACATA
1 TAATCATA-TAACATTTAAGCATATATCACAATACT-CATA
* * * *
27778043 TAATCACATAACATTTAGGTATACATCACAATACTCATA
1 TAATCATATAACATTTAAGCATATATCACAATACTCATA
27778082 TAATCATATAACATTTAAGCATATATCACAATACTCA
1 TAATCATATAACATTTAAGCATATATCACAATACTCA
27778119 AAAACATGTT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 54 0.87
40 8 0.13
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (39 bp):
TAATCATATAACATTTAAGCATATATCACAATACTCATA
Found at i:27783218 original size:16 final size:16
Alignment explanation
Indices: 27783197--27783228 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27783187 GTTTTGTTGC
*
27783197 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
27783213 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
27783229 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:27783514 original size:51 final size:51
Alignment explanation
Indices: 27783446--27783646 Score: 239
Period size: 51 Copynumber: 4.0 Consensus size: 51
27783436 ATTAATGATA
* * *
27783446 CTGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
27783497 CTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * * *
27783548 CTGGTACGCATAGTAGCCTGCACATAGTACTAAACATGCGACCTATC-GT-T
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
27783598 CTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
27783647 TTCACTTTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.02
50 41 0.33
51 78 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:27783636 original size:101 final size:102
Alignment explanation
Indices: 27783454--27783638 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
27783444 TACTGGTTCA
* * *
27783454 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTACA
27783519 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* *
27783556 CATAGTAGCCTGCACATAGTACTAAACATGCGACCTATC-GT-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTAAACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTAC
27783619 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
27783639 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 34 0.44
103 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:27783661 original size:101 final size:102
Alignment explanation
Indices: 27783449--27783672 Score: 267
Period size: 101 Copynumber: 2.2 Consensus size: 102
27783439 AATGATACTG
* *
27783449 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGC
* * **
27783514 CTGCACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * * *
27783551 GTACGCATAGTAGCCTGCACATAGTACTAAACATGCGACCTATC-GT-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTAAACATGCGACC-ATCACTATCTGATACACGTAGTAG
*
27783614 CCTACACATAGTACTACACACGTGA-CCATCA-CTTTCAC
65 CCTACACATAGTACTACACACGTGATCCA--AGCTATCAC
* * *
27783652 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
27783673 CAGTCCATGC
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
100 2 0.02
101 60 0.58
102 38 0.37
103 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:27783893 original size:15 final size:16
Alignment explanation
Indices: 27783864--27783895 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27783854 AATGCAGTCC
27783864 AAAAATCACATTTTTG
1 AAAAATCACATTTTTG
*
27783880 AAAAATTACATTTTTG
1 AAAAATCACATTTTTG
27783896 CCTCTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAAATCACATTTTTG
Found at i:27786603 original size:67 final size:67
Alignment explanation
Indices: 27786476--27786603 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
27786466 AAGCAATAAA
* * * * * *
27786476 ATCGAGCTAATATGTCAATTATACAATAGTAATGATTAGTAGTATGGGTTAATTCATATATTTCC
1 ATCGAGCTAATAAGTCAATTATACAATAGCAATGATCAGCAGTATGGATTAATCCATATATTTCC
27786541 AC
66 AC
*
27786543 ATCGAGCTAATAAGTCAATTATACAAGTA-CAATGATCAGCAGTATGGATTAATCCTTATAT
1 ATCGAGCTAATAAGTCAATTATACAA-TAGCAATGATCAGCAGTATGGATTAATCCATATAT
27786604 GTCCTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
67 51 0.96
68 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (67 bp):
ATCGAGCTAATAAGTCAATTATACAATAGCAATGATCAGCAGTATGGATTAATCCATATATTTCC
AC
Found at i:27788644 original size:21 final size:20
Alignment explanation
Indices: 27788620--27788658 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
27788610 GTTAAAAATA
27788620 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
27788641 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
27788659 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:27791597 original size:2 final size:2
Alignment explanation
Indices: 27791590--27791628 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
27791580 TATAGTAAAA
*
27791590 AC AC AC AC AC AC AC AC AC AC A- AC AC AC AC AT AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
27791629 CATCATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:27791615 original size:21 final size:21
Alignment explanation
Indices: 27791589--27791628 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27791579 TTATAGTAAA
27791589 AACACACACACACACACACAC
1 AACACACACACACACACACAC
*
27791610 AACACACACATACACACAC
1 AACACACACACACACACAC
27791629 CATCATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.45, G:0.00, T:0.03
Consensus pattern (21 bp):
AACACACACACACACACACAC
Found at i:27791616 original size:19 final size:19
Alignment explanation
Indices: 27791592--27791628 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27791582 TAGTAAAAAC
27791592 ACACACACACACACACACA
1 ACACACACACACACACACA
*
27791611 ACACACACATACACACAC
1 ACACACACACACACACAC
27791629 CATCATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (19 bp):
ACACACACACACACACACA
Found at i:27794852 original size:31 final size:31
Alignment explanation
Indices: 27794814--27794876 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
27794804 TTAAATTGTG
27794814 ACACCAACTCAATTAACAACAATATTAATAT
1 ACACCAACTCAATTAACAACAATATTAATAT
27794845 ACACCAACTCAATTAACAACAATATTAATAT
1 ACACCAACTCAATTAACAACAATATTAATAT
27794876 A
1 A
27794877 TACAACTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.25
Consensus pattern (31 bp):
ACACCAACTCAATTAACAACAATATTAATAT
Found at i:27819623 original size:14 final size:13
Alignment explanation
Indices: 27819601--27819634 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
27819591 GAAGTATTTT
*
27819601 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
27819615 AAAAATAAAAATA
1 AAAAATAAAAATA
27819628 AAAAATA
1 AAAAATA
27819635 TATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:27824430 original size:18 final size:17
Alignment explanation
Indices: 27824373--27824430 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
27824363 AATAAAATAA
27824373 AAAT-TATTTAAAAATT
1 AAATATATTTAAAAATT
* *
27824389 ACATATATTAAAAAAATCTT
1 AAATATATT-TAAAAA--TT
27824409 AAATAATATTTAAAAATT
1 AAAT-ATATTTAAAAATT
27824427 AAAT
1 AAAT
27824431 TTAACACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 11 0.33
20 10 0.30
21 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATTTAAAAATT
Found at i:27832870 original size:267 final size:267
Alignment explanation
Indices: 27832389--27833194 Score: 1180
Period size: 267 Copynumber: 3.0 Consensus size: 267
27832379 GTAGCAATGG
* * * * * *
27832389 AAAAGATTGAAGCCACAATGGCGAATCGTATTTCCCTGGCGTTATAGCGGAGTAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
27832454 TGACGGCGAATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* ** *
27832519 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATT-AAGGCCGCAACGGTGAATC
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGCGAATC
* * *
27832583 TTACTCCCCTGGCAGTGTAGTGGAATAGATTGAATCTACGACGACGAATCTTGTTTCCTCAACAT
195 TTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACAT
27832648 TGCCATTA
260 TGCCATTA
** *
27832656 AAAAGATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* * *
27832721 CGATGACGAATCTTATCTCCCTGGCGTTAAGGTTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
*
27832786 GTGGGCAACGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
* * *
27832851 TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCTCAACATT
196 TACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
27832916 G-C----
261 GCCATTA
* * * *
27832918 --AATATTGAAGCTGCAACGGCGAATCTTGCTTCCCTAGCGTTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
*
27832981 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
66 CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* * * *
27833046 GTGGTCAGCGAATCCTATCTCGTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACAGCAAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
* * *
27833111 TACTTCCTTGGTAGTGTAGTGGAACT-GATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACAT
196 TACTTCCCTGGCAGTGTAGTGGAA-TAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACAT
*
27833175 TGCAATTA
260 TGCCATTA
*
27833183 AAAAGACTGAAG
1 AAAAGATTGAAG
27833195 ATGGCGAATC
Statistics
Matches: 480, Mismatches: 50, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
260 236 0.49
266 1 0.00
267 241 0.50
268 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (267 bp):
AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
CGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCT
TACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
GCCATTA
Found at i:27833060 original size:260 final size:260
Alignment explanation
Indices: 27832394--27833180 Score: 1144
Period size: 260 Copynumber: 3.0 Consensus size: 260
27832384 AATGGAAAAG
* * * * * * * *
27832394 ATTGAAGCCACAATGGCGAATCGTATTTCCCTGGCGTTATAGCGGAGTAGATTGAAGCCATGACG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
*
27832459 GCGAATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
66 GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
* ** *
27832524 CAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATT-AAGGCCGCAACGGTGAATCTTACT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGCGAATCTTACT
* * * *
27832588 CCCCTGGCAGTGTAGTGGAATAGATTGAATCTACGACGACGAATCTTGTTTCCTCAACATTGCCA
195 TCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTG-C-
*
27832653 TTAAAAAG
258 -----AAT
* * *
27832661 ATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGATG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
* *
27832726 ACGAATCTTATCTCCCTGGCGTTAAGGTTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
66 GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
*
27832791 CAACGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
* *
27832856 CCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCTCAACATTGCAAT
196 CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
* * * *
27832921 ATTGAAGCTGCAACGGCGAATCTTGCTTCCCTAGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
* *
27832986 GTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGT
66 GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
* * *
27833051 CAGCGAATCCTATCTCGTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACAGCAAATCTTACTT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
* * * *
27833116 CCTTGGTAGTGTAGTGGAACTGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAAT
196 CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
27833181 TAAAAAGACT
Statistics
Matches: 472, Mismatches: 47, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
260 241 0.51
266 1 0.00
267 228 0.48
268 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (260 bp):
ATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
GCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGCGAATCTTACTT
CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
Found at i:27833256 original size:44 final size:44
Alignment explanation
Indices: 27833201--27833527 Score: 190
Period size: 44 Copynumber: 7.5 Consensus size: 44
27833191 GAAGATGGCG
27833201 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * **
27833245 AATCCTATCTCCCTGAAGTAGCAATGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* ** ** * *
27833289 GATCTTATCTCTTTGAAGTTGCA-AAGAGCAGATCT-CA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCCAAT
* * * * *
27833329 AGTCTTATCTCCCTGAAGTTGGAGTGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * *****
27833372 AAGTTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGGTGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAGCCAAT
*
27833418 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
27833462 AATCCTATCTCCCTGAAGTTGCAGCGGAACGGATTAAATCCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* *
27833506 GATCTTATCTCTCTGAAGTTGC
1 AATCTTATCTCCCTGAAGTTGC
27833528 TGTAGAGTAG
Statistics
Matches: 211, Mismatches: 55, Indels: 34
0.70 0.18 0.11
Matches are distributed among these distances:
40 20 0.09
41 7 0.03
42 2 0.01
43 12 0.06
44 138 0.65
45 25 0.12
46 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:27833437 original size:45 final size:44
Alignment explanation
Indices: 27833203--27833618 Score: 152
Period size: 44 Copynumber: 9.6 Consensus size: 44
27833193 AGATGGCGAA
* * *
27833203 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAG
* * * * * *
27833247 TCCTATCTCCCTGAAGTAGCAATGGAGCGGATTAA--AATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
** ** * *
27833290 ATCTTATCTCTTTGAAGTTGCA-AAGAGCAGATCTCA-T---CTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAG
*
27833331 TCTTATCTCCCTGAAGTTGGAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
* * *
27833375 TTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGGT-GGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-GTAAGC-AAG
* * * *
27833420 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAG
* * * * * **
27833464 TCCTATCTCCCTGAAGTTGCAGCGGAACGGATTAA--ATCCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG
* * * * * * * **
27833507 ATCTTATCTCTCTGAAGTTGCTGTAGAGTAGA-TCA--CATCGGG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
* * *
27833549 TCTTATCTCTCTGAAGTTGCAGTGGAGTAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAG
* * *
27833594 TCTTATCCCCCTGAAATTACAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
27833619 GGCAAAAAAA
Statistics
Matches: 279, Mismatches: 65, Indels: 55
0.70 0.16 0.14
Matches are distributed among these distances:
40 24 0.09
41 41 0.15
42 5 0.02
43 17 0.06
44 131 0.47
45 54 0.19
46 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
Found at i:27835017 original size:10 final size:10
Alignment explanation
Indices: 27834994--27835026 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
27834984 TTTAGTCTTT
27834994 TTATTTA-T-
1 TTATTTATTA
27835002 TTATTTATTA
1 TTATTTATTA
27835012 TTATTTATTA
1 TTATTTATTA
27835022 TTATT
1 TTATT
27835027 AAATTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
10 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTATTA
Found at i:27835064 original size:16 final size:16
Alignment explanation
Indices: 27835037--27835070 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27835027 AAATTTGATT
*
27835037 TTATTGTTATTAAGTA
1 TTATTGTTATTAAATA
27835053 TTATTGTTATTAAATA
1 TTATTGTTATTAAATA
27835069 TT
1 TT
27835071 CATTTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTATTGTTATTAAATA
Done.