Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 33 of 276
Found at i:10311081 original size:26 final size:27
Alignment explanation
Indices: 10311003--10311103 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
10310993 ATACCCATAG
**
10311003 TTGTAAAATTACC-AAAGTACCACCGAT
1 TTGTAAAATTACCGAAA-TACCGTCGAT
* *
10311030 TTATAAAATTACCGAGATACCGTCGA-
1 TTGTAAAATTACCGAAATACCGTCGAT
*
10311056 TTGTAAAATTACTGAAATAGCC-TCGAT
1 TTGTAAAATTACCGAAATA-CCGTCGAT
* *
10311083 TTGTAAAATTAGCAAAATACC
1 TTGTAAAATTACCGAAATACC
10311104 CTTGTAGGGT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
26 22 0.36
27 37 0.61
28 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCGTCGAT
Found at i:10311119 original size:27 final size:27
Alignment explanation
Indices: 10311097--10311201 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
10311087 AAAATTAGCA
10311097 AAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTATCG
*
10311124 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCTTGTAGGGTAGAATTATCG
* * * *
10311151 AGATACCCCTATGGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTATCG
* *
10311178 AGATACCCTTGTAGGGTAAAATTA
1 AAATACCCTTGTAGGGTAGAATTA
10311202 CCATTTTGCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTATCG
Found at i:10312650 original size:37 final size:37
Alignment explanation
Indices: 10312600--10312678 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
10312590 TTATTACGAA
* * *
10312600 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
10312637 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
10312674 GTCTT
1 GTCTT
10312679 TAGAACTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:10312875 original size:47 final size:47
Alignment explanation
Indices: 10312797--10313187 Score: 566
Period size: 47 Copynumber: 8.2 Consensus size: 47
10312787 CCCTTCGGGA
* * * * * *
10312797 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
10312844 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
10312891 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10312938 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
10312987 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10313034 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
10313083 CTTATTCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10313131 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10313179 CTTATCACA
1 CTTATCACA
10313188 ATTTAGAATT
Statistics
Matches: 311, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
47 142 0.46
48 81 0.26
49 78 0.25
50 10 0.03
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10312991 original size:96 final size:96
Alignment explanation
Indices: 10312797--10313187 Score: 565
Period size: 96 Copynumber: 4.1 Consensus size: 96
10312787 CCCTTCGGGA
** * * * * ** * *
10312797 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
10312860 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
10312891 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
10312956 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
10312987 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
10313052 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
10313083 CTTATTCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--ATATAT
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACATATATAT
10313146 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
10313179 CTTATCACA
1 CTTATCACA
10313188 ATTTAGAATT
Statistics
Matches: 270, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
94 43 0.16
95 5 0.02
96 175 0.65
97 43 0.16
98 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10315851 original size:22 final size:22
Alignment explanation
Indices: 10315799--10315863 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
10315789 GCCAATTATT
*
10315799 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
10315821 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
10315843 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
10315864 ACGTATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:10316110 original size:27 final size:26
Alignment explanation
Indices: 10316022--10316129 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
10316012 ATTCTATTAA
* * *
10316022 GTGGCTTTGCCACATTATCAGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* *
10316049 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
10316076 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
10316103 GTGACTCTGTCATAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
10316129 G
1 G
10316130 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 50 0.74
28 5 0.07
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:10316307 original size:31 final size:25
Alignment explanation
Indices: 10316247--10316338 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
10316237 TTGCATTCAC
10316247 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
10316272 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
* * *
10316297 ATTATGATTCTGATTCTGCCACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
* *
10316322 ATTCTTATTCCGATTCT
1 ATTCTGATTCTGATTCT
10316339 CATTTTGATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:10318394 original size:53 final size:53
Alignment explanation
Indices: 10318295--10318417 Score: 135
Period size: 53 Copynumber: 2.3 Consensus size: 53
10318285 TTTAGTTTTC
* * *
10318295 TAAAA-TACTGAAATACC-CCCAGTTGTAAAATGACCAAAGTACCCTCGATTTA
1 TAAAATTACTGAAATACCGTCGA-TTGTAAAATGACCAAAATACCCTCGATTTA
* * * * *
10318347 TAACATTA-TCGAAATACCGTCGATTGTAAAATTACTAAAATAGCCTCGATTTG
1 TAAAATTACT-GAAATACCGTCGATTGTAAAATGACCAAAATACCCTCGATTTA
10318400 TAAAATTACTGAAATACC
1 TAAAATTACTGAAATACC
10318418 CTTGTAGGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
52 5 0.09
53 50 0.86
54 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (53 bp):
TAAAATTACTGAAATACCGTCGATTGTAAAATGACCAAAATACCCTCGATTTA
Found at i:10318407 original size:27 final size:26
Alignment explanation
Indices: 10318295--10318417 Score: 90
Period size: 27 Copynumber: 4.7 Consensus size: 26
10318285 TTTAGTTTTC
* * * *
10318295 TAAAA-TACTGAAATACCCCCAGTTG
1 TAAAATTACTAAAATACCTCGATTTG
* * * *
10318320 TAAAATGACCAAAGTACCCTCGATTTA
1 TAAAATTACTAAAATA-CCTCGATTTG
* *
10318347 TAACATTA-TCGAAATACCGTCGA-TTG
1 TAAAATTACT-AAAATACC-TCGATTTG
10318373 TAAAATTACTAAAATAGCCTCGATTTG
1 TAAAATTACTAAAATA-CCTCGATTTG
*
10318400 TAAAATTACTGAAATACC
1 TAAAATTACTAAAATACC
10318418 CTTGTAGGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
25 5 0.07
26 28 0.38
27 41 0.55
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (26 bp):
TAAAATTACTAAAATACCTCGATTTG
Found at i:10318433 original size:27 final size:27
Alignment explanation
Indices: 10318403--10318516 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
10318393 CGATTTGTAA
10318403 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
10318430 AATTA-TCGAAATACTCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* *
10318457 AAATATCT-AAATACCCCTGTAGGGTAG
1 AATTA-CTGAAATACCCTTGTAGGGTAG
* * * *
10318484 AATTATTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
10318511 AATTAC
1 AATTAC
10318517 CATTTTGCCC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.03
27 69 0.96
29 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:10318469 original size:54 final size:53
Alignment explanation
Indices: 10318411--10318513 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
10318401 AAAATTACTG
* *
10318411 AAATACCCTTGTAGGGTAGAATTATCGAAATACTCTTGTAGGGTAGAAATATCT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTA-AAATATCT
* * *
10318465 AAATACCCCTGTAGGGTAGAATTATTGAGATACCCTTGTGGGGTAAAAT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAAAAT
10318514 TACCATTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (53 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAAAATATCT
Found at i:10318946 original size:22 final size:22
Alignment explanation
Indices: 10318921--10318969 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
10318911 ATGGTTTTGC
* *
10318921 GCCAACCTACA-TATGGCTCTGT
1 GCCAACCTA-ATTATGGATATGT
10318943 GCCAACCTAATTATGGATATGT
1 GCCAACCTAATTATGGATATGT
10318965 GCCAA
1 GCCAA
10318970 ACATATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
GCCAACCTAATTATGGATATGT
Found at i:10319171 original size:27 final size:26
Alignment explanation
Indices: 10319141--10319227 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 26
10319131 CATTATCTGT
10319141 TTCTGGTGGCTATGCCACAAATATTTG
1 TTCTGGTGGCTATGCCAC-AATATTTG
* * * *
10319168 TTCTGGAGGCTCTACCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATTTG
* * * * *
10319194 TATCTAGTGACTCTGTCACAATATTTT
1 T-TCTGGTGGCTATGCCACAATATTTG
10319221 TTCTGGT
1 TTCTGGT
10319228 AGCCATGCTA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 13 0.28
27 34 0.72
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATTTG
Found at i:10319353 original size:6 final size:6
Alignment explanation
Indices: 10319344--10319446 Score: 68
Period size: 6 Copynumber: 16.7 Consensus size: 6
10319334 TTGCATTCAC
* * * *
10319344 ATTCTG ATTCCG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
10319394 ATTCTG ATTCTG ATTCTG CCA-CCTG ATTCTG ATTTTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
10319443 ATTC
1 ATTC
10319447 AAGTTCTGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
5 4 0.05
6 59 0.80
7 8 0.11
8 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:10319375 original size:25 final size:25
Alignment explanation
Indices: 10319344--10319436 Score: 132
Period size: 25 Copynumber: 3.7 Consensus size: 25
10319334 TTGCATTCAC
* *
10319344 ATTCTGATTCCGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
10319369 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTG
*
10319394 ATTCTGATTCTGATTCTGCCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
10319419 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
10319437 ATTTTGATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:10324143 original size:17 final size:18
Alignment explanation
Indices: 10324103--10324144 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
10324093 TAGGCCTCGA
10324103 TGGGCCAAAATGGGCTATG
1 TGGGCCAAAATGGGC-ATG
10324122 TGGGCC-AAATGGG-ATCG
1 TGGGCCAAAATGGGCAT-G
10324139 TGGGCC
1 TGGGCC
10324145 CTACATGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 7 0.32
18 7 0.32
19 6 0.27
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.19
Consensus pattern (18 bp):
TGGGCCAAAATGGGCATG
Found at i:10324423 original size:27 final size:27
Alignment explanation
Indices: 10324393--10324444 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10324383 GAGCAAAATA
10324393 CCCCTAAAGGGTAAATTGACT-ATTTTG
1 CCCCTAAAGGGTAAA-TGACTGATTTTG
**
10324420 CCCCTCGAGGGTAAATGACTGATTT
1 CCCCTAAAGGGTAAATGACTGATTT
10324445 GTTTGATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
CCCCTAAAGGGTAAATGACTGATTTTG
Found at i:10324793 original size:32 final size:32
Alignment explanation
Indices: 10324739--10324810 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
10324729 GAAACGGTCC
* *
10324739 AGGCCCAACATATAGTGGTTCTGATATGGGCT
1 AGGCCCAACATATAGTGATTCTGAGATGGGCT
*
10324771 AGGCCCAAC-TGATATTGATTCTGAGATGGGCT
1 AGGCCCAACAT-ATAGTGATTCTGAGATGGGCT
*
10324803 TGGCCCAA
1 AGGCCCAA
10324811 TTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (32 bp):
AGGCCCAACATATAGTGATTCTGAGATGGGCT
Found at i:10330784 original size:38 final size:38
Alignment explanation
Indices: 10330733--10330810 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
10330723 AGGCCGTGTA
10330733 ACTACCTTACTTGAATGTCTTTAAAACCTACAAGGGAC
1 ACTACCTTACTTGAATGTCTTTAAAACCTACAAGGGAC
* *
10330771 ACTACCTTACTTGAATGTCTTTAAAACCTATAGGGGAC
1 ACTACCTTACTTGAATGTCTTTAAAACCTACAAGGGAC
10330809 AC
1 AC
10330811 ATGACTGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (38 bp):
ACTACCTTACTTGAATGTCTTTAAAACCTACAAGGGAC
Found at i:10333593 original size:109 final size:109
Alignment explanation
Indices: 10333402--10333617 Score: 328
Period size: 109 Copynumber: 2.0 Consensus size: 109
10333392 TTCGAATCCT
** *
10333402 TTGGCACGCAAATGTTGATTATTTTGCTATGTTGGGATGGTAAGAGGTTGTGTTGGTTTTAAACT
1 TTGGCACGCAAATGTTGATTATTTTGCTATGTTGGGACCGCAAGAGGTTGTGTTGGTTTTAAACT
*
10333467 CTGGTGATGGAGGGATCCCACATCGAGAAGCTAACATAAGAGCC
66 CTGGTGATGGAGGGATCCCACATCGAGAAGATAACATAAGAGCC
*
10333511 TTGGCACGCAAA-GTTTGATTATTTTGCTATGTTGGGACCGCAAGA-GTTGGTTTTGGTTTTAAA
1 TTGGCACGCAAATG-TTGATTATTTTGCTATGTTGGGACCGCAAGAGGTT-GTGTTGGTTTTAAA
* * *
10333574 CTCTGGTGATGGAGGGATCCCACATTGGGTAGATAACATAAGAG
64 CTCTGGTGATGGAGGGATCCCACATCGAGAAGATAACATAAGAG
10333618 TGGATGGGGA
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 4 0.04
109 93 0.96
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (109 bp):
TTGGCACGCAAATGTTGATTATTTTGCTATGTTGGGACCGCAAGAGGTTGTGTTGGTTTTAAACT
CTGGTGATGGAGGGATCCCACATCGAGAAGATAACATAAGAGCC
Found at i:10334091 original size:27 final size:27
Alignment explanation
Indices: 10333878--10334100 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
10333868 TAAGTTATAA
* *
10333878 AATTAACGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
10333905 AATTACTGAAATACCCCTGTAAGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10333932 AATTACCGAAATACCCCTGTAAGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
10333959 AATTACCGAAATACCTCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10333986 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10334013 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10334040 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
10334067 AATTACCGAGATACTCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
10334094 AATTACC
1 AATTACC
10334101 ATTTTGCCCC
Statistics
Matches: 169, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 169 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:10334795 original size:27 final size:27
Alignment explanation
Indices: 10334752--10334831 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
10334742 CCTCACTACA
*
10334752 ATCTGGTGGCCTCGCCACATATATCTGT
1 ATCTGGTGGCCTAGCCACA-ATATCTGT
10334780 -TCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGGCCTAGCCACAATATCTGT
* * * *
10334806 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGGCCTAGCCACAATATCTG
10334832 GCAGCCTCGC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (27 bp):
ATCTGGTGGCCTAGCCACAATATCTGT
Found at i:10335335 original size:81 final size:81
Alignment explanation
Indices: 10335200--10335356 Score: 289
Period size: 81 Copynumber: 1.9 Consensus size: 81
10335190 TTTTTCTAAT
*
10335200 TTAGTTTATTTTTATTATTTTTATATTCTGATTTAATTTTGGGTTTTAAGTTGTAATAAGGCCGC
1 TTAGTTTATTTTTATTATTTTTATATTCTAATTTAATTTTGGGTTTTAAGTTGTAATAAGGCCGC
10335265 TATTTAAATTTATAAA
66 TATTTAAATTTATAAA
10335281 TTAGTTTATTTTTATTATTTTT-TATTCTAATTTAATTTTTGGGTTTTAAGTTGTAATAAGGCCG
1 TTAGTTTATTTTTATTATTTTTATATTCTAATTTAA-TTTTGGGTTTTAAGTTGTAATAAGGCCG
10335345 CTATTTAAATTT
65 CTATTTAAATTT
10335357 CTTTTCCGCT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
80 12 0.16
81 62 0.84
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (81 bp):
TTAGTTTATTTTTATTATTTTTATATTCTAATTTAATTTTGGGTTTTAAGTTGTAATAAGGCCGC
TATTTAAATTTATAAA
Found at i:10340366 original size:27 final size:27
Alignment explanation
Indices: 10340316--10340400 Score: 145
Period size: 27 Copynumber: 3.2 Consensus size: 27
10340306 TGGATAAGTT
10340316 GTAGAATTACCG-AATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
10340342 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
10340369 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
10340396 ATAGA
1 GTAGA
10340401 TCAGAGGCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
26 12 0.21
27 44 0.79
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:10340972 original size:87 final size:88
Alignment explanation
Indices: 10340855--10341025 Score: 240
Period size: 87 Copynumber: 1.9 Consensus size: 88
10340845 AAAGAAAGGA
* * *
10340855 AAAACAAAAAAATGAGTGGTTGTTTCCCCCCCTCCATTGCCGTGAGCTAAAGAAAGGAAA-AGAA
1 AAAACAAAAAAATGAGTGGTTGTTCCCCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGAGAA
10340919 AA-ACTTGTTCATCCTTTTGAAT
66 AATACTTGTTCATCCTTTTGAAT
*
10340941 AAAA-AAAAAAATGTGTGTAGTTGTTCCCCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAATGA
1 AAAACAAAAAAATGAGTG--GTTGTTCCCCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAA-GA
**
10341005 GAAAATTTTTGTTCATCCTTT
63 GAAAATACTTGTTCATCCTTT
10341026 CTCATCTCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
85 12 0.16
86 4 0.05
87 39 0.53
89 6 0.08
90 13 0.18
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (88 bp):
AAAACAAAAAAATGAGTGGTTGTTCCCCCCCCCCCATTGCCGTGAGCTAAAGAAAAGAAAGAGAA
AATACTTGTTCATCCTTTTGAAT
Found at i:10342248 original size:39 final size:40
Alignment explanation
Indices: 10342153--10342375 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
10342143 TTGAATGATG
*
10342153 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
10342191 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
10342232 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
10342271 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
10342310 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
10342349 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
10342376 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 92 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:10342294 original size:78 final size:80
Alignment explanation
Indices: 10342153--10342375 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 80
10342143 TTGAATGATG
* * * * *
10342153 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
10342215 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
10342232 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ACTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
10342293 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
10342310 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
10342375 G
66 G
10342376 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
78 46 0.37
79 57 0.45
80 22 0.17
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:10342397 original size:79 final size:78
Alignment explanation
Indices: 10342205--10342398 Score: 209
Period size: 79 Copynumber: 2.5 Consensus size: 78
10342195 GGACTAAGAT
** * *
10342205 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTA
*
10342269 ACTCCGGGCTAAGC
65 ACACCGGGCTAAGC
** *
10342283 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGA-TACT
*
10342347 ATA-ACCGGGCTATGTC
64 A-ACACCGGGCTAAG-C
*
10342363 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
10342399 ATTCTGAAGG
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 35 0.34
79 40 0.39
80 26 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAA
CACCGGGCTAAGC
Found at i:10343364 original size:53 final size:52
Alignment explanation
Indices: 10343296--10343400 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 52
10343286 ATTCCCTCTT
10343296 CCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCATACCA
1 CCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGA-TCATACCA
* *
10343349 CCGATTTTGGAAATTCATTTTAAATTAACCAGAGATAATTAGGATCATACCA
1 CCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGATCATACCA
10343401 TATATGTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 8 0.16
53 42 0.84
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (52 bp):
CCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGATCATACCA
Found at i:10350292 original size:39 final size:39
Alignment explanation
Indices: 10350197--10351004 Score: 1421
Period size: 39 Copynumber: 20.6 Consensus size: 39
10350187 TTGAATGATG
*
10350197 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
10350235 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
10350276 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350315 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350354 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350393 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350432 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350471 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350510 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350549 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350588 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350627 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350666 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350705 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350744 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350783 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350822 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
10350861 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
10350900 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
10350939 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
10350978 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
10351005 AACGAGGAGC
Statistics
Matches: 748, Mismatches: 14, Indels: 13
0.97 0.02 0.02
Matches are distributed among these distances:
39 678 0.91
40 58 0.08
41 11 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:10351215 original size:139 final size:139
Alignment explanation
Indices: 10350965--10351243 Score: 522
Period size: 139 Copynumber: 2.0 Consensus size: 139
10350955 AAGGCATTTG
10350965 TGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAAC
1 TGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAAC
10351030 TCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCTCGAAAC
66 TCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCTCGAAAC
10351095 ATCCCAACA
131 ATCCCAACA
*
10351104 TGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAAT
1 TGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAAC
* * *
10351169 TCTGAAGGTACTTTATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCTCGAAAC
66 TCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCTCGAAAC
10351234 ATCCCAACA
131 ATCCCAACA
10351243 T
1 T
10351244 TGAGGTATGT
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (139 bp):
TGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAAC
TCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCTCGAAAC
ATCCCAACA
Found at i:10352578 original size:27 final size:27
Alignment explanation
Indices: 10352508--10352588 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
10352498 AGAATTGCTG
* * * *
10352508 AAATACCCTTGCAAGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
*
10352535 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * * *
10352562 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
10352589 TTTTGCCCTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCA
Found at i:10357793 original size:12 final size:12
Alignment explanation
Indices: 10357776--10357800 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10357766 TGGGTAAAGG
10357776 TTATGAATTGAT
1 TTATGAATTGAT
10357788 TTATGAATTGAT
1 TTATGAATTGAT
10357800 T
1 T
10357801 AAATCAAGAG
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGAATTGAT
Found at i:10369168 original size:14 final size:14
Alignment explanation
Indices: 10369149--10369186 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
10369139 TATTTAACTC
10369149 GCTCTTAATTATGT
1 GCTCTTAATTATGT
10369163 GCTCTTAATTATGT
1 GCTCTTAATTATGT
*
10369177 GTTCTTAATT
1 GCTCTTAATT
10369187 CTTGCTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
GCTCTTAATTATGT
Found at i:10371455 original size:25 final size:25
Alignment explanation
Indices: 10371403--10371509 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 25
10371393 TACCGATTGT
*
10371403 AGCTCATGAGAGCTTACCAATTCTC
1 AGCTCATGAGAGCTTACCAATTCCC
* **
10371428 AGCTCTTGAGAGCTTACCGTTTCCC
1 AGCTCATGAGAGCTTACCAATTCCC
* *** * *
10371453 AGCTCGT-ATGAGCTTATTGATTTCA
1 AGCTCATGA-GAGCTTACCAATTCCC
* * *
10371478 AGCCCATGAGAGCATACCAATTCAC
1 AGCTCATGAGAGCTTACCAATTCCC
10371503 AGCTCAT
1 AGCTCAT
10371510 ATGAGCATAC
Statistics
Matches: 60, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
24 1 0.02
25 58 0.97
26 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (25 bp):
AGCTCATGAGAGCTTACCAATTCCC
Found at i:10371694 original size:25 final size:25
Alignment explanation
Indices: 10371657--10371704 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10371647 TTACAGGTAT
10371657 TTACATGAAATATATGAAA-ATGACA
1 TTACATGAAATAT-TGAAACATGACA
*
10371682 TTACATGATATATTGAAACATGA
1 TTACATGAAATATTGAAACATGA
10371705 AATGGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.31
Consensus pattern (25 bp):
TTACATGAAATATTGAAACATGACA
Found at i:10380030 original size:48 final size:48
Alignment explanation
Indices: 10379959--10380054 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
10379949 TGACACGGAG
10379959 TATGAGTTCACCTGTGCCAACATCAATGATCGTTTTAGCAGTTGCTAA
1 TATGAGTTCACCTGTGCCAACATCAATGATCGTTTTAGCAGTTGCTAA
*
10380007 TATGAGTTCACCTGTGCCAACATCAATGATCGTTTTAGTAGTTGCTAA
1 TATGAGTTCACCTGTGCCAACATCAATGATCGTTTTAGCAGTTGCTAA
10380055 AAAAGGCCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (48 bp):
TATGAGTTCACCTGTGCCAACATCAATGATCGTTTTAGCAGTTGCTAA
Found at i:10384972 original size:55 final size:55
Alignment explanation
Indices: 10384846--10385029 Score: 166
Period size: 55 Copynumber: 3.4 Consensus size: 55
10384836 CTTACCATTT
*
10384846 CCATGTCTTGACATGGTCTT--ATGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGTGGTATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
10384899 CCATGCCTTGGCATGGTCTTACAT-TGG-ATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGTGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * *
10384954 CCATGTCTTGACATGGTCTTACATGAT--T-TCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATG-TGGTATCCTTGCCTTAT-GAACTCACCAATG
* *
10385008 CCATGCCTTGGCATGGTCTTAC
1 CCATGTCTTGACATGGTCTTAC
10385030 CTGGTATCCT
Statistics
Matches: 105, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
53 30 0.29
54 33 0.31
55 41 0.39
57 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (55 bp):
CCATGTCTTGACATGGTCTTACATGTGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:10387779 original size:22 final size:22
Alignment explanation
Indices: 10387753--10387797 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10387743 ATTATATGTA
10387753 TTAATTCATA-ATATAATTAATT
1 TTAATTCATATATA-AATTAATT
* *
10387775 TTAATTTATATCTAAATTAATT
1 TTAATTCATATATAAATTAATT
10387797 T
1 T
10387798 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTCATATATAAATTAATT
Found at i:10393579 original size:43 final size:43
Alignment explanation
Indices: 10393417--10393577 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
10393407 TAGGTTATCA
* *
10393417 ATATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTG
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG
*
10393460 -TAT-TGAAATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 ATATGTG--ATTACATGTAAGACCATGTCTGGGACATTGGCATCG
* * * * * *
10393503 TTA-GTCGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG
1 ATATGT-GATTACATGTAAGACCATGTCTGGGACATTGGCATCG
* *
10393546 ATATGTGATAACATGTAAGACCATATCTGGGA
1 ATATGTGATTACATGTAAGACCATGTCTGGGA
10393578 TATGGCAATG
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 88 0.89
44 5 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG
Found at i:10397805 original size:25 final size:23
Alignment explanation
Indices: 10397768--10397824 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
10397758 TTTTCTCCTA
*
10397768 AATTTTTATTTTATTCAATTATCT
1 AATTTTTAATTTATTCAATTAT-T
*
10397792 AATTTTTCAATTTATTGAATTATT
1 AATTTTT-AATTTATTCAATTATT
10397816 AATATTTTA
1 AAT-TTTTA
10397825 TATTAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTTTTAATTTATTCAATTATT
Found at i:10401556 original size:34 final size:34
Alignment explanation
Indices: 10401477--10401541 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
10401467 ATGTTTACAT
*
10401477 ACTG-TACTAAAATGGGCTAAGGCCCAGACTGCC
1 ACTGATACTGAAATGGGCTAAGGCCCAGACTGCC
* *
10401510 ACTGATATTGAAATGGGCTCAGGCCCAGACTG
1 ACTGATACTGAAATGGGCTAAGGCCCAGACTG
10401542 TTATTGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (34 bp):
ACTGATACTGAAATGGGCTAAGGCCCAGACTGCC
Found at i:10401957 original size:23 final size:23
Alignment explanation
Indices: 10401925--10401970 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
10401915 GTTTCAAAAG
10401925 CTTCCACGATAAACGAGATTTTT
1 CTTCCACGATAAACGAGATTTTT
*
10401948 CTTCCGCGATAAACGAGATTTTT
1 CTTCCACGATAAACGAGATTTTT
10401971 GAATTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (23 bp):
CTTCCACGATAAACGAGATTTTT
Found at i:10404404 original size:16 final size:16
Alignment explanation
Indices: 10404383--10404414 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10404373 ATTGTAACGC
*
10404383 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
10404399 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
10404415 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:10408215 original size:24 final size:24
Alignment explanation
Indices: 10408174--10408245 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
10408164 ACTTTATCAT
**
10408174 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCC-CTTTTA
*
10408199 ATAACT-GAGGCAAAGCCCTTTTTG
1 ATAACTGGAGGCAAAGCCC-TTTTA
*
10408223 GTAAACTGGA-GCAAAGCCCTTTT
1 AT-AACTGGAGGCAAAGCCCTTTT
10408246 CGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 18 0.45
25 19 0.47
26 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTTA
Found at i:10408320 original size:21 final size:20
Alignment explanation
Indices: 10408293--10408340 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
10408283 TATAATGAGT
*
10408293 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGT-C
*
10408314 ATCTCATAACATATCATGTC
1 ATATCATAACATATCATGTC
10408334 ATATCAT
1 ATATCAT
10408341 GTATAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (20 bp):
ATATCATAACATATCATGTC
Found at i:10421337 original size:87 final size:87
Alignment explanation
Indices: 10421234--10421407 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
10421224 ATTTAAGGCT
*
10421234 ATAAGCTGATTATGGCTGTTATGCTTAAGTTGAATTGGATTTGGAAATTCGATGCACTAAATGAG
1 ATAAGCTGATTATGGCTATTATGCTTAAGTTGAATTGGATTTGGAAATTCGATGCACTAAATGAG
10421299 TGTTACAATGAATGAACTATGC
66 TGTTACAATGAATGAACTATGC
10421321 ATAAGCTGATTATGGCTATTATGCTTAAGTTGAATTGGATTTGGAAATTCGATGCACTAAATGAG
1 ATAAGCTGATTATGGCTATTATGCTTAAGTTGAATTGGATTTGGAAATTCGATGCACTAAATGAG
10421386 TGTTACAATGAATGAACTATGC
66 TGTTACAATGAATGAACTATGC
10421408 CGTATATGTG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (87 bp):
ATAAGCTGATTATGGCTATTATGCTTAAGTTGAATTGGATTTGGAAATTCGATGCACTAAATGAG
TGTTACAATGAATGAACTATGC
Found at i:10422376 original size:43 final size:43
Alignment explanation
Indices: 10422310--10422637 Score: 390
Period size: 43 Copynumber: 7.5 Consensus size: 43
10422300 CGGGTTAAAT
* *
10422310 CTAGTAGGCTTCGTGCCAGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
10422353 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
*
10422396 CTAGAAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
* * **
10422439 CTAGTAGGCTTCGTACTAGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
* *
10422482 CTAGCAGGCTTCGTGCTGGTGATGTGTACTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
* ** * * *
10422525 CTAGCAGGATAT-GATGCCGGTGAAATACTATTCGGGCCTTTGAGC
1 CTAGCAGGCT-TCG-TGCCGGTGATGT-GTATTCGGGCCTTCGTGC
** * *
10422570 CTAGCAGGCTATAATGCCGGTGA-GATACTATTCGGGCTTTCGTGC
1 CTAGCAGGCT-TCGTGCCGGTGATG-T-GTATTCGGGCCTTCGTGC
* *
10422615 CTTGCAGGCTATAGTGCCGGTGA
1 CTAGCAGGCT-TCGTGCCGGTGA
10422638 AATGATATCA
Statistics
Matches: 253, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
43 171 0.68
44 10 0.04
45 72 0.28
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (43 bp):
CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
Found at i:10427995 original size:43 final size:43
Alignment explanation
Indices: 10427945--10428298 Score: 573
Period size: 43 Copynumber: 8.2 Consensus size: 43
10427935 CGGGTCAAAT
10427945 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
* *
10427988 CTAGCAGGCTTCATGCCGGTGATGTGTATTTGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
*
10428031 CTAGCAGGTTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
*
10428074 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCATGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
** *
10428117 CTATTAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
*
10428160 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCATGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
* *
10428203 CTAGTAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
* * * * *
10428246 CTAGTAGGATTCGTGCTGGTGATGTGTGTCCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
10428289 CTAGCAGGCT
1 CTAGCAGGCT
10428299 ATGATGTCAG
Statistics
Matches: 286, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 286 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
Found at i:10428340 original size:45 final size:45
Alignment explanation
Indices: 10428276--10428438 Score: 129
Period size: 45 Copynumber: 3.7 Consensus size: 45
10428266 GATGTGTGTC
* * * ** *
10428276 CGGGCCTTCGTGCCTAGCAGGCTATGATGTCAGTGAAATACTGTT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAAATACTATT
* *
10428321 CGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATACTATT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAAATACTATT
* * * * *
10428366 CAGG-CTTTCAAGCCTAGCAGGCTATAGTGCCGGTGAAATGA-TA-T
1 CGGGCCTTT-GAGCCTAGCAGGCTATAATACCAGTGAAAT-ACTATT
* * *
10428410 CGGGCC-TCGAGCCTAACAGGCGA-AATACC
1 CGGGCCTTTGAGCCTAGCAGGCTATAATACC
10428439 GATAAATTGA
Statistics
Matches: 95, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 4 0.04
43 12 0.13
44 9 0.09
45 69 0.73
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (45 bp):
CGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAAATACTATT
Found at i:10429242 original size:13 final size:13
Alignment explanation
Indices: 10429224--10429254 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10429214 CAGTTCTGGA
*
10429224 GAGGGATGCAGGC
1 GAGGGATACAGGC
10429237 GAGGGATACAGGC
1 GAGGGATACAGGC
10429250 GAGGG
1 GAGGG
10429255 GTGTTACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.55, T:0.06
Consensus pattern (13 bp):
GAGGGATACAGGC
Found at i:10438702 original size:75 final size:75
Alignment explanation
Indices: 10438579--10438724 Score: 215
Period size: 75 Copynumber: 1.9 Consensus size: 75
10438569 CCTAAACGAC
* * *
10438579 AAAATTAAATTGCGAAAATTTCACAGAATAAATTCACACAAAACAAACACAGAAAATATTTTTAA
1 AAAATTAAATCGCGAAAATTTCACAGAATAAATTCACACAAAACAAACACAGAAAATAATTTGAA
10438644 AATATTATCT
66 AATATTATCT
* *
10438654 AAAATTAAATCGC-AAATATTTCACAGATTTAAATTCACACAAAA-AAACACATAAAATAATTTG
1 AAAATTAAATCGCGAAA-ATTTCACAGA-ATAAATTCACACAAAACAAACACAGAAAATAATTTG
10438717 AAAATATT
64 AAAATATT
10438725 TTTTGACTCG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 3 0.05
75 46 0.72
76 15 0.23
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (75 bp):
AAAATTAAATCGCGAAAATTTCACAGAATAAATTCACACAAAACAAACACAGAAAATAATTTGAA
AATATTATCT
Found at i:10441154 original size:46 final size:45
Alignment explanation
Indices: 10441101--10441191 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
10441091 GTTAGGGAAA
* * *
10441101 AAGAGTTCACTGTTTATAGCGATGCATCACATGTCAGTTTGGGAT
1 AAGAGTTCACTGTATACAGCGATGCATCACATGTCAGGTTGGGAT
* * *
10441146 NAAGAGTTCATTGTATACAGTGATGCATCACATGTCGGGTTGGGAT
1 -AAGAGTTCACTGTATACAGCGATGCATCACATGTCAGGTTGGGAT
10441192 GTGTATTGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.32
Consensus pattern (45 bp):
AAGAGTTCACTGTATACAGCGATGCATCACATGTCAGGTTGGGAT
Found at i:10444716 original size:49 final size:49
Alignment explanation
Indices: 10444660--10445521 Score: 1398
Period size: 49 Copynumber: 17.6 Consensus size: 49
10444650 TATAAGCTAT
10444660 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10444709 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10444758 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10444807 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
* *
10444856 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10444905 TGTGAAAGTGTGTATATATGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAA----G------TGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10444964 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10445013 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10445062 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10445111 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10445160 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10445209 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
* *
10445258 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
* * **
10445307 TGTGAAAGTG--TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
10445354 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
** *
10445403 TGTGAAAGTG--TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
* * ** ** * *
10445450 TGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGA
1 TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
*
10445497 TGTGAAAGTGCATA-A-ATGTGATAAG
1 TGTGAAAGTGTATATATATGTGATAAG
10445522 TCCCGAAGGG
Statistics
Matches: 773, Mismatches: 26, Indels: 30
0.93 0.03 0.04
Matches are distributed among these distances:
47 135 0.17
48 1 0.00
49 589 0.76
53 1 0.00
55 1 0.00
59 46 0.06
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCTTAACGGCCGATGTGATGAA
Found at i:10445696 original size:37 final size:37
Alignment explanation
Indices: 10445640--10445718 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
10445630 CCGAGTTCTA
* * *
10445640 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
10445677 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
10445714 AAGAC
1 AAGAC
10445719 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:10447632 original size:43 final size:43
Alignment explanation
Indices: 10447584--10447729 Score: 267
Period size: 43 Copynumber: 3.4 Consensus size: 43
10447574 TTGGTTTTCA
*
10447584 GCACTAAGTGTGCGGGCAAT-ATGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATCA-GTGTTCACGGTTGCGAGATTG
10447627 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
10447670 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
10447713 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
10447730 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
43 100 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
Found at i:10447744 original size:29 final size:29
Alignment explanation
Indices: 10447711--10447784 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
10447701 GTTGCGAGAT
* *
10447711 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
10447740 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
10447769 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
10447785 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:10448211 original size:80 final size:80
Alignment explanation
Indices: 10448078--10448252 Score: 248
Period size: 80 Copynumber: 2.2 Consensus size: 80
10448068 CATTTGAATG
*
10448078 ATATCCGGGCTAAATCCCGAAGGCAATTGAGCTGGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAATCCCGAAGGCAATTGAGCAGGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
10448143 TTTGTGCGAATTGA-T
66 TTGGTGCGAATT-ACT
* *
10448158 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAA-ATCCCGAAGGCAATTGAGC-AGGTGATTATATCCGGGCTAAGACCCGAAGG
*
10448221 CATTGGTGCGAGTTACT
64 CATTGGTGCGAATTACT
*
10448238 AAATCCGGGCTAAAT
1 ATATCCGGGCTAAAT
10448253 TTCGAAGAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.02
80 78 0.92
81 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAATCCCGAAGGCAATTGAGCAGGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTGGTGCGAATTACT
Found at i:10448244 original size:40 final size:39
Alignment explanation
Indices: 10448078--10448250 Score: 210
Period size: 40 Copynumber: 4.3 Consensus size: 39
10448068 CATTTGAATG
*
10448078 ATATCCGGGCTAA-ATCCCGAAGGCAATTGAGCTG-G-TGATT
1 ATATCCGGGCTAAGA-CCCGAAGGC-ATTGTGC-GAGTTGA-T
*
10448118 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGAT
*
10448158 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTGAT
10448198 ATATCCGGGCTAAGACCCGAAGGCATTGGTGCGAGTT-ACT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTTGA-T
*
10448238 AAATCCGGGCTAA
1 ATATCCGGGCTAA
10448251 ATTTCGAAGA
Statistics
Matches: 120, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
39 6 0.05
40 109 0.91
41 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTGAT
Found at i:10448283 original size:80 final size:80
Alignment explanation
Indices: 10448080--10448310 Score: 202
Period size: 80 Copynumber: 2.9 Consensus size: 80
10448070 TTTGAATGAT
* ** * **
10448080 ATCCGGGCTAA-ATCCCGAAGGCAATTGAGCTGGTGATTATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGA-CCCGAAGGCAATTGTGCAAGTTAAGATATCCGGGCTAAGACCCGAAGGCAT
* *
10448144 TTGTGCGAATTGATAT
65 TCGTGCGAATTGATAA
* *
10448160 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTAAGATATCCGGGCTAAGACCCGAAGGCATT
* *
10448225 GGTGCGAGTT-ACTAA
66 CGTGCGAATTGA-TAA
** * * * **
10448240 ATCCGGGCTAA-ATTTCGAAGAGC-ATTCGTGCTAG-TAAGGTATCCGGACTAAGTTCCGAAGAG
1 ATCCGGGCTAAGA-CCCGAAG-GCAATT-GTGCAAGTTAAGATATCCGGGCTAAGACCCGAAG-G
10448302 CATTCGTGC
62 CATTCGTGC
10448311 TGGTGTTATA
Statistics
Matches: 126, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 106 0.84
81 18 0.14
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTAAGATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAATTGATAA
Found at i:10448323 original size:40 final size:40
Alignment explanation
Indices: 10448077--10448356 Score: 144
Period size: 40 Copynumber: 7.0 Consensus size: 40
10448067 GCATTTGAAT
* * *
10448077 GATATCCGGGCTAAATCCCGAAG-GCAATT-GAGCTGGTGA
1 GATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTGGTGA
* ** * *
10448116 TTATATCCGGGCTAAGACCCGAAG-GCATTTGTGC-GAATTGA
1 -GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG--GTGA
* ** * *
10448157 TATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGA
1 GATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGC-TGGTGA
* ** * *
10448197 TATATCCGGGCTAAGACCCGAAG-GCATTGGTGC-GAGTTA
1 GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG-GTGA
* * * * * *
10448236 CTAAATCCGGGCTAAATTTCGAAGAGCATTCGTGCTAGTAA
1 -GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGA
* * *
10448277 GGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGA
* * * * *
10448317 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGA
10448357 CATGTATTCG
Statistics
Matches: 197, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 9 0.05
40 168 0.85
41 18 0.09
42 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGA
Found at i:10456067 original size:25 final size:25
Alignment explanation
Indices: 10456026--10456075 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
10456016 TCATTTAAAA
10456026 ATAAAATACAATCAATT-CACATTTC
1 ATAAAATACAATCAATTACAC-TTTC
*
10456051 ATAACATACAA-CAAATTACACTTTC
1 ATAAAATACAATC-AATTACACTTTC
10456076 CACATACAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 1 0.05
25 18 0.82
26 3 0.14
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAAAATACAATCAATTACACTTTC
Found at i:10470848 original size:494 final size:495
Alignment explanation
Indices: 10469918--10470900 Score: 1806
Period size: 494 Copynumber: 2.0 Consensus size: 495
10469908 ACTTGGTTAG
10469918 AGAGCATGGTGACCGCATCGACGTTAAAAACACCGGCTGTTTTCGTTGGCTTTTTCCTCATGACT
1 AGAGCATGGTGACCGCATCGACGTTAAAAACACCGGCTGTTTTCGTTGGCTTTTTCCTCATGACT
10469983 TGCCATTTCTCTACGTTTTGGTTACACACCTGGTACTGTTTCACAATAAAAATACTCCCAAATCT
66 TGCCATTTCTCTACGTTTTGGTTACACACCTGGTACTGTTTCACAATAAAAATACTCCCAAATCT
10470048 TTTAAAACCTAAAATTGATCAATTAAAACCCCAATCAGTCACTTAAATCGACACTTAATCATAAC
131 TTTAAAACCTAAAATTGATCAATTAAAACCCCAATCAGTCACTTAAATCGACACTTAATCATAAC
10470113 TTCAATGAGACAAACAAACTTTTATCCATAAAAAACCCTTACCTTTGACCGAACAATGGCGATTC
196 TTCAATGAGACAAACAAACTTTTATCCATAAAAAACCCTTACCTTTGACCGAACAATGGCGATTC
10470178 CACACACGACAACATCGTTTGGGAAAAACTTCAGCCCCTTAATCCTCTCCAAACACAAAACAACC
261 CACACACGACAACATCGTTTGGGAAAAACTTCAGCCCCTTAATCCTCTCCAAACACAAAACAACC
* *
10470243 CCTTCAACAGCGATTTACTAAAACCAAAAATAATAATCACGCTATCCATACTTACCATAACGCAC
326 CCTTCAACAGCGATTTACTAAAACCAAAAATAATAATCACACTATCCATACTTACCAGAACGCAC
* * * * * * *
10470308 GAAGAACATTGACAGAAATGAGACACAACGAGCAACACACAGGAAAGTAACGGAGACGAATAGGG
391 GAAGAACACTAACAGAAACGAGACACAACGAGCAACACACAGGAAAGTAACAGAGACAAAAAAGG
* *
10470373 AGAAATAGAGAA-AAAAAATTAGCAATGGGGAAATCGGAA
456 AGAAACAGAGAAGAAAAAATTAGCAAAGGGGAAATCGGAA
10470412 AGAGCATGGTGACCGCATCGACGTTAAAAACACCGGCTGTTTTCGTTGGCTTTTTCCTCATGACT
1 AGAGCATGGTGACCGCATCGACGTTAAAAACACCGGCTGTTTTCGTTGGCTTTTTCCTCATGACT
10470477 TGCCATTTCTCTACGTTTTGGTTACACACCTGGTACTGTTTCACAATAAAAATACTCCCAAATCT
66 TGCCATTTCTCTACGTTTTGGTTACACACCTGGTACTGTTTCACAATAAAAATACTCCCAAATCT
10470542 TTTAAAACCTAAAATTGATCAATTAAAACCCCAATCAGTCACTTAAATCGACACTTAATCATAAC
131 TTTAAAACCTAAAATTGATCAATTAAAACCCCAATCAGTCACTTAAATCGACACTTAATCATAAC
10470607 TTCAATGAGACAAACAAACTTTTATCCATAAAAAACCCTTACCTTTGACCGAACAATGGCGATTC
196 TTCAATGAGACAAACAAACTTTTATCCATAAAAAACCCTTACCTTTGACCGAACAATGGCGATTC
10470672 CACACACGACAACATCGTTTGGGAAAAACTTCAGCCCCTTAATCCTCTCCAAACACAAAACAACC
261 CACACACGACAACATCGTTTGGGAAAAACTTCAGCCCCTTAATCCTCTCCAAACACAAAACAACC
10470737 CCTTCAACAGCGATTTACTAAAACCAAAAATAATAATCACACTATCCATACTTACCAGAACGCAC
326 CCTTCAACAGCGATTTACTAAAACCAAAAATAATAATCACACTATCCATACTTACCAGAACGCAC
* * * * *
10470802 GAAGAACACTAATAGAAACGAGACACAACGTGTAACGCATAGGAAAGTAACAGAGACAAAAAAGG
391 GAAGAACACTAACAGAAACGAGACACAACGAGCAACACACAGGAAAGTAACAGAGACAAAAAAGG
*
10470867 AGAAACAGAGAAGAAGAAATTAGCAAAGGGGAAA
456 AGAAACAGAGAAGAAAAAATTAGCAAAGGGGAAA
10470901 CCGGCAGAGA
Statistics
Matches: 471, Mismatches: 17, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
494 452 0.96
495 19 0.04
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (495 bp):
AGAGCATGGTGACCGCATCGACGTTAAAAACACCGGCTGTTTTCGTTGGCTTTTTCCTCATGACT
TGCCATTTCTCTACGTTTTGGTTACACACCTGGTACTGTTTCACAATAAAAATACTCCCAAATCT
TTTAAAACCTAAAATTGATCAATTAAAACCCCAATCAGTCACTTAAATCGACACTTAATCATAAC
TTCAATGAGACAAACAAACTTTTATCCATAAAAAACCCTTACCTTTGACCGAACAATGGCGATTC
CACACACGACAACATCGTTTGGGAAAAACTTCAGCCCCTTAATCCTCTCCAAACACAAAACAACC
CCTTCAACAGCGATTTACTAAAACCAAAAATAATAATCACACTATCCATACTTACCAGAACGCAC
GAAGAACACTAACAGAAACGAGACACAACGAGCAACACACAGGAAAGTAACAGAGACAAAAAAGG
AGAAACAGAGAAGAAAAAATTAGCAAAGGGGAAATCGGAA
Found at i:10480263 original size:14 final size:15
Alignment explanation
Indices: 10480230--10480263 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10480220 CACATCCCAA
*
10480230 AAATTGGGTTAGTAG
1 AAATTGGGTTAATAG
10480245 AAATTGGGTTAAT-G
1 AAATTGGGTTAATAG
10480259 AAATT
1 AAATT
10480264 AAGAGTGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AAATTGGGTTAATAG
Found at i:10480783 original size:9 final size:10
Alignment explanation
Indices: 10480769--10480813 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
10480759 CCCATCTCTA
10480769 TTCTTTTT-T
1 TTCTTTTTCT
10480778 TTCTTTTTCT
1 TTCTTTTTCT
10480788 TTC-TTTTCT
1 TTCTTTTTCT
10480797 ATT-TTTGTTCT
1 -TTCTTT-TTCT
10480808 TTCTTT
1 TTCTTT
10480814 CCTGTGTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 14 0.45
10 10 0.32
11 7 0.23
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:10480789 original size:15 final size:16
Alignment explanation
Indices: 10480769--10480801 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10480759 CCCATCTCTA
*
10480769 TTCTTTTTTTTCT-TT
1 TTCTTTCTTTTCTATT
10480784 TTCTTTCTTTTCTATT
1 TTCTTTCTTTTCTATT
10480800 TT
1 TT
10480802 TGTTCTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCTTTCTTTTCTATT
Found at i:10494618 original size:17 final size:18
Alignment explanation
Indices: 10494588--10494621 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10494578 CCATATGCTC
*
10494588 GTGTGGGCCTACACGCCT
1 GTGTGGGCCCACACGCCT
10494606 GTGT-GGCCCACACGCC
1 GTGTGGGCCCACACGCC
10494622 CAACCTGAAC
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:0.12, C:0.38, G:0.32, T:0.18
Consensus pattern (18 bp):
GTGTGGGCCCACACGCCT
Found at i:10495339 original size:18 final size:19
Alignment explanation
Indices: 10495318--10495358 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
10495308 AATATCTATC
*
10495318 CTAACCTCCCACTAA-CCA
1 CTAACATCCCACTAACCCA
10495336 CTAA-ATCCCACTAACCCA
1 CTAACATCCCACTAACCCA
10495354 CTAAC
1 CTAAC
10495359 TCTTAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (19 bp):
CTAACATCCCACTAACCCA
Found at i:10495346 original size:17 final size:18
Alignment explanation
Indices: 10495324--10495357 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10495314 TATCCTAACC
10495324 TCCCACTAA-CCACTAAA
1 TCCCACTAACCCACTAAA
10495341 TCCCACTAACCCACTAA
1 TCCCACTAACCCACTAA
10495358 CTCTTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (18 bp):
TCCCACTAACCCACTAAA
Found at i:10505298 original size:17 final size:16
Alignment explanation
Indices: 10505276--10505322 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
10505266 CAGATTTAAG
10505276 ATTATTATTTTAATTTA
1 ATTATT-TTTTAATTTA
*
10505293 ATTA-TTTTTAATCTTT
1 ATTATTTTTTAAT-TTA
10505309 A-TATTTTTTAATTT
1 ATTATTTTTTAATTT
10505323 TGAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 11 0.41
16 12 0.44
17 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTTTTTAATTTA
Found at i:10505676 original size:15 final size:14
Alignment explanation
Indices: 10505656--10505694 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
10505646 TGAAAAGTAC
10505656 AAAAATTAAAAT-T
1 AAAAATTAAAATAT
10505669 AATCAAATTAAAATAT
1 AA--AAATTAAAATAT
10505685 AAAAATTAAA
1 AAAAATTAAA
10505695 CCCACAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 8 0.35
15 10 0.43
16 3 0.13
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATTAAAATAT
Found at i:10516076 original size:16 final size:16
Alignment explanation
Indices: 10516055--10516090 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10516045 GACTTGTCTA
10516055 GAACGAGCGAGCTAAC
1 GAACGAGCGAGCTAAC
10516071 GAACGAGCGAGCTAAC
1 GAACGAGCGAGCTAAC
10516087 GAAC
1 GAAC
10516091 CTCTAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.31, T:0.06
Consensus pattern (16 bp):
GAACGAGCGAGCTAAC
Found at i:10518119 original size:46 final size:46
Alignment explanation
Indices: 10518052--10518145 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
10518042 TTAGACATGA
* *
10518052 GTAAGGCATACAATCTTGTTGAGTGGCATTTCGTAGAGGCAGTTAT
1 GTAAGGCATACAATCTTGTTGAGTGGCATTTCATAGAGGCAATTAT
*
10518098 GTAAGGCATACAATCTTGTTGAGTGGCATTTTATAGAGGCAATTAT
1 GTAAGGCATACAATCTTGTTGAGTGGCATTTCATAGAGGCAATTAT
10518144 GT
1 GT
10518146 TGAAGTTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (46 bp):
GTAAGGCATACAATCTTGTTGAGTGGCATTTCATAGAGGCAATTAT
Found at i:10523922 original size:9 final size:9
Alignment explanation
Indices: 10523908--10523980 Score: 101
Period size: 9 Copynumber: 8.1 Consensus size: 9
10523898 ATAAGTATAA
10523908 AATTAACCG
1 AATTAACCG
10523917 AATTAACCG
1 AATTAACCG
* *
10523926 AATTACCCA
1 AATTAACCG
10523935 AATTAACCG
1 AATTAACCG
*
10523944 AATTAACTG
1 AATTAACCG
10523953 AATTAACCG
1 AATTAACCG
* *
10523962 AATTAATCA
1 AATTAACCG
10523971 AATTAACCG
1 AATTAACCG
10523980 A
1 A
10523981 GTTATTTGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:10524015 original size:6 final size:6
Alignment explanation
Indices: 10524004--10524050 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
10523994 AATTATATGT
* *
10524004 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
10524051 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:10541294 original size:44 final size:45
Alignment explanation
Indices: 10541218--10541310 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 45
10541208 TTAAGAAATA
*
10541218 TGGAGTTTACCATAGAACAGTTACCCCTTACCATCCTCAAACTAG
1 TGGAGTTTACCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
*
10541263 TGGA-TTTAGCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
1 TGGAGTTTACCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
10541307 TGGA
1 TGGA
10541311 CAAGTCAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (45 bp):
TGGAGTTTACCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
Found at i:10547028 original size:30 final size:30
Alignment explanation
Indices: 10546992--10547048 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
10546982 TAGGCACTTC
*
10546992 CACACGGGTAGTCCACACGCTCGTGTGTAA
1 CACACGGGTAGGCCACACGCTCGTGTGTAA
10547022 CACACGGGTAGGCCACACGCTCGTGTG
1 CACACGGGTAGGCCACACGCTCGTGTG
10547049 GCATGACCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.18
Consensus pattern (30 bp):
CACACGGGTAGGCCACACGCTCGTGTGTAA
Found at i:10556827 original size:25 final size:25
Alignment explanation
Indices: 10556780--10556839 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
10556770 AAATTTCAAA
10556780 AATTA-ATTTTATTTATTATAATAT
1 AATTATATTTTATTTATTATAATAT
* *
10556804 ATTTTTATTTTATTTTATTA-AATAT
1 AATTATATTTTA-TTTATTATAATAT
10556829 AATTATATTTT
1 AATTATATTTT
10556840 TTACAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 20 0.67
26 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
AATTATATTTTATTTATTATAATAT
Found at i:10567995 original size:27 final size:27
Alignment explanation
Indices: 10567964--10568141 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10567954 TAAATTGTAC
10567964 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
10567991 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10568017 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
10568045 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
10568073 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10568100 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
10568127 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10568142 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:10568078 original size:82 final size:81
Alignment explanation
Indices: 10567965--10568120 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10567955 AAATTGTACA
* *
10567965 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
10568029 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
10568046 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
10568111 TGCGAGTTGA
65 TGCGAATTGA
10568121 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10568132 original size:82 final size:81
Alignment explanation
Indices: 10567961--10568141 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
10567951 GATTAAATTG
* *
10567961 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
10568026 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
10568042 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
10568106 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
10568124 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
10568142 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:10568152 original size:27 final size:27
Alignment explanation
Indices: 10568046--10568152 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
10568036 TGACCATGCG
* * * *
10568046 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
10568074 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
10568101 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
10568128 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
10568153 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:10578078 original size:12 final size:13
Alignment explanation
Indices: 10578061--10578098 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10578051 ATCCTAGAAT
10578061 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
10578073 ATTAAGAACACATA
1 ATTAAGAACA-AGA
10578087 ATTAAGAACAAG
1 ATTAAGAACAAG
10578099 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:10581332 original size:200 final size:200
Alignment explanation
Indices: 10580989--10581388 Score: 728
Period size: 200 Copynumber: 2.0 Consensus size: 200
10580979 TCTGTTCTAA
10580989 GTGCCTCCTCAAGTGTTTAAATAGGCTTTAGAATGCCTAAGAGCCCTCAAAAGTGGCCTTTTCCG
1 GTGCCTCCTCAAGTGTTTAAATAGGCTTTAGAATGCCTAAGAGCCCTCAAAAGTGGCCTTTTCCG
* *
10581054 AATAGGACTATACTTGGGCTCGTCAGGGACACGCCCGTGTGCGATTGCTCTATCCCGTGGTCAAG
66 AATAGGACTATACTTGGGCTCGTCAGGGACACGCCCGTGTGCGATTGCTCCAACCCGTGGTCAAG
* *
10581119 GCTGTTAAATAGGCACGGGTGTGTAGTCTACCCGTGTAATTCATGCTTCGATCCTACCAAATGGA
131 GCTGTTAAATAGGCACGGGCGTGTAGTCTACCCGTGTAAGTCATGCTTCGATCCTACCAAATGGA
10581184 CACGG
196 CACGG
10581189 GTGCCTCCTCAAGTGTTTAAATAGGCTTTAGAATGCCTAAGAGCCCTCAAAAGTGGCCTTTTCCG
1 GTGCCTCCTCAAGTGTTTAAATAGGCTTTAGAATGCCTAAGAGCCCTCAAAAGTGGCCTTTTCCG
*
10581254 AATAGGACTATACTTGGGCTCGTCAGGGACACGCCCGTGTGCGATTGCTCCAAGCCGTGGTCAAG
66 AATAGGACTATACTTGGGCTCGTCAGGGACACGCCCGTGTGCGATTGCTCCAACCCGTGGTCAAG
* * *
10581319 GCTGTTAAATAGGCACGGGCGTGTAGTCTACTCGTGTAAGTCGTGCTTCGATCCTGCCAAATGGA
131 GCTGTTAAATAGGCACGGGCGTGTAGTCTACCCGTGTAAGTCATGCTTCGATCCTACCAAATGGA
10581384 CACGG
196 CACGG
10581389 CATGTGGCTT
Statistics
Matches: 192, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 192 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (200 bp):
GTGCCTCCTCAAGTGTTTAAATAGGCTTTAGAATGCCTAAGAGCCCTCAAAAGTGGCCTTTTCCG
AATAGGACTATACTTGGGCTCGTCAGGGACACGCCCGTGTGCGATTGCTCCAACCCGTGGTCAAG
GCTGTTAAATAGGCACGGGCGTGTAGTCTACCCGTGTAAGTCATGCTTCGATCCTACCAAATGGA
CACGG
Found at i:10592762 original size:3 final size:3
Alignment explanation
Indices: 10592754--10592788 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10592744 GGGTTATGAA
10592754 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10592789 AGATGAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10600128 original size:16 final size:16
Alignment explanation
Indices: 10600107--10600137 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10600097 CATTTGGTTC
10600107 ACTGTAATTGAATAGT
1 ACTGTAATTGAATAGT
10600123 ACTGTAATTGAATAG
1 ACTGTAATTGAATAG
10600138 AACTATAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (16 bp):
ACTGTAATTGAATAGT
Found at i:10600146 original size:16 final size:16
Alignment explanation
Indices: 10600111--10600146 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10600101 TGGTTCACTG
* *
10600111 TAATTGAATAGTACTG
1 TAATTGAATAGAACTA
10600127 TAATTGAATAGAACTA
1 TAATTGAATAGAACTA
10600143 TAAT
1 TAAT
10600147 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (16 bp):
TAATTGAATAGAACTA
Found at i:10600386 original size:26 final size:27
Alignment explanation
Indices: 10600310--10600387 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
10600300 TTATTTTTAT
10600310 TAATTT-ATAATAGGATTATTATTAAACA
1 TAATTTAATAATA--ATTATTATTAAACA
* * *
10600338 TAATTTAATAATAAATAAT-TTAATCA
1 TAATTTAATAATAATTATTATTAAACA
*
10600364 TACTTTAAT-ATAATTATTATTAAA
1 TAATTTAATAATAATTATTATTAAA
10600388 ATATGAATGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 7 0.17
26 18 0.44
27 4 0.10
28 6 0.15
29 6 0.15
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (27 bp):
TAATTTAATAATAATTATTATTAAACA
Found at i:10600685 original size:12 final size:12
Alignment explanation
Indices: 10600654--10600685 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10600644 GTTTCATTTG
*
10600654 TTTTTTACATAA
1 TTTTTTATATAA
10600666 TTTTTTATATAA
1 TTTTTTATATAA
10600678 TTTTTTAT
1 TTTTTTAT
10600686 CTGTGTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTATATAA
Found at i:10601161 original size:25 final size:24
Alignment explanation
Indices: 10601133--10601180 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
10601123 TTGAGTTTGT
10601133 GAATCTCAACAATGCCTTCTCTGCC
1 GAATCTCAACAATGCCTT-TCTGCC
10601158 GAATCTCAACAATGCCTTTCTGC
1 GAATCTCAACAATGCCTTTCTGC
10601181 TGAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.29
Consensus pattern (24 bp):
GAATCTCAACAATGCCTTTCTGCC
Found at i:10601191 original size:25 final size:25
Alignment explanation
Indices: 10601133--10601191 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
10601123 TTGAGTTTGT
*
10601133 GAATCTCAACAATGCCTTCTCTGCC
1 GAATATCAACAATGCCTTCTCTGCC
* *
10601158 GAATCTCAACAATGCCTT-TCTGCT
1 GAATATCAACAATGCCTTCTCTGCC
10601182 GAAATATCAA
1 G-AATATCAA
10601192 ATTTATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (25 bp):
GAATATCAACAATGCCTTCTCTGCC
Found at i:10602060 original size:84 final size:84
Alignment explanation
Indices: 10601919--10602085 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 84
10601909 GTAATGAAAT
*
10601919 AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATGTGCAAATAGATA
1 AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATAGATA
10601984 AGATAGGATACATAAACAA
66 AGATAGGATACATAAACAA
* *
10602003 AATAGTATAGTTAGAGAGGCTCCTTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATGGATA
1 AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATAGATA
10602068 AGATAGGATACATAAACA
66 AGATAGGATACATAAACA
10602086 TAACCCTAGC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.23
Consensus pattern (84 bp):
AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATAGATA
AGATAGGATACATAAACAA
Found at i:10605871 original size:46 final size:49
Alignment explanation
Indices: 10605818--10605912 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 49
10605808 AAAATCCTGT
*
10605818 TTATTTAA-TTGTT-TTCAAATCTGATG-TTTTAAATAATTATAAATAA
1 TTATTTAATTTGTTATTCAAATCTGATGTTTTTAAATAAATATAAATAA
* * *
10605864 TTATTTAATTTTTTTATTTAAATCTGATGTTTTTACATAAATATAAATA
1 TTATTTAA-TTTGTTATTCAAATCTGATGTTTTTAAATAAATATAAATA
10605913 TTTTTTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 8 0.20
48 4 0.10
49 12 0.29
50 17 0.41
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (49 bp):
TTATTTAATTTGTTATTCAAATCTGATGTTTTTAAATAAATATAAATAA
Found at i:10606369 original size:13 final size:13
Alignment explanation
Indices: 10606330--10606369 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10606320 ATTATTTTAT
10606330 ATTAATTAAATAA
1 ATTAATTAAATAA
* *
10606343 AGTAAATAAATAA
1 ATTAATTAAATAA
*
10606356 ATTAATTAATTAA
1 ATTAATTAAATAA
10606369 A
1 A
10606370 AGTTGACAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTAATTAAATAA
Found at i:10607592 original size:18 final size:18
Alignment explanation
Indices: 10607571--10607634 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
10607561 TACTGATCTT
*
10607571 TACTAAATAACTGATTGC
1 TACTGAATAACTGATTGC
** * *
10607589 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGC
*
10607607 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGC
10607625 TACTGAATAA
1 TACTGAATAA
10607635 TTGAACGTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGATTGC
Found at i:10607610 original size:46 final size:46
Alignment explanation
Indices: 10607525--10607612 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
10607515 TAAATAAAAG
* * * *
10607525 TACTGAATGACTGACTGCTACTGAATAATTGATCTTTACTGATCTT
1 TACTAAATAACTGACTGCTACTGAACAAATGATCTTTACTGATCTT
* *
10607571 TACTAAATAACTGATTGCTACTGAGCAAATGAT-TGTTACTGA
1 TACTAAATAACTGACTGCTACTGAACAAATGATCT-TTACTGA
10607613 ATAACTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.03
46 34 0.97
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (46 bp):
TACTAAATAACTGACTGCTACTGAACAAATGATCTTTACTGATCTT
Found at i:10607645 original size:36 final size:36
Alignment explanation
Indices: 10607570--10607650 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
10607560 TTACTGATCT
* * **
10607570 TTACTAAATAACTGATTGCTACTGAGCAAATGATTG
1 TTACTAAATAACTAATTGCTACTGAACAAATGAACG
* * *
10607606 TTACTGAATAACTAATTGCTACTGAATAATTGAACG
1 TTACTAAATAACTAATTGCTACTGAACAAATGAACG
10607642 TTACTAAAT
1 TTACTAAAT
10607651 GAAACTGATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (36 bp):
TTACTAAATAACTAATTGCTACTGAACAAATGAACG
Found at i:10608594 original size:8 final size:8
Alignment explanation
Indices: 10608581--10608605 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10608571 TTCAATAAGA
10608581 AAATTTTG
1 AAATTTTG
10608589 AAATTTTG
1 AAATTTTG
10608597 AAATTTTG
1 AAATTTTG
10608605 A
1 A
10608606 GAAAAATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (8 bp):
AAATTTTG
Found at i:10611784 original size:31 final size:31
Alignment explanation
Indices: 10611746--10611808 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
10611736 TCAATACAAA
10611746 TACTAATAACAATCTAGTTGTGTACTGCAAG
1 TACTAATAACAATCTAGTTGTGTACTGCAAG
*
10611777 TACTAATAACAATCTAGTTGTGTATTGCAAG
1 TACTAATAACAATCTAGTTGTGTACTGCAAG
10611808 T
1 T
10611809 GTGACAGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (31 bp):
TACTAATAACAATCTAGTTGTGTACTGCAAG
Found at i:10614779 original size:10 final size:9
Alignment explanation
Indices: 10614753--10614777 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10614743 TGGGTCAACC
10614753 AATTTTTAA
1 AATTTTTAA
10614762 AATTTTTAA
1 AATTTTTAA
10614771 AATTTTT
1 AATTTTT
10614778 TAGCCTTCAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
AATTTTTAA
Found at i:10621623 original size:31 final size:31
Alignment explanation
Indices: 10621585--10621649 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
10621575 TATAGAAACA
10621585 GGTAAATGTATTTGAACACGGTTCATGACAT
1 GGTAAATGTATTTGAACACGGTTCATGACAT
10621616 GGTAAATGTATTTGAACACGGTTCATGACAT
1 GGTAAATGTATTTGAACACGGTTCATGACAT
10621647 GGT
1 GGT
10621650 TGTAGCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (31 bp):
GGTAAATGTATTTGAACACGGTTCATGACAT
Found at i:10621895 original size:37 final size:34
Alignment explanation
Indices: 10621854--10621934 Score: 83
Period size: 37 Copynumber: 2.3 Consensus size: 34
10621844 AATGATAATG
*
10621854 ATAATAAAATAT-TAAAGTATATAAAAAGGAAAAACAA
1 ATAATAAAAT-TCTAAA-CATATAAAAAGG-AAAA-AA
* *
10621891 ATAATATAAATTCTAAACATTTAAAAAGGTAAAAA
1 ATAATA-AAATTCTAAACATATAAAAAGGAAAAAA
10621926 ATAATAAAA
1 ATAATAAAA
10621935 GGTAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 3 0.08
35 8 0.21
36 3 0.08
37 17 0.44
38 8 0.21
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (34 bp):
ATAATAAAATTCTAAACATATAAAAAGGAAAAAA
Found at i:10621936 original size:17 final size:18
Alignment explanation
Indices: 10621914--10621948 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10621904 TAAACATTTA
10621914 AAAAGGTA-AAAAATAAT
1 AAAAGGTAGAAAAATAAT
10621931 AAAAGGTAGAAAAATAAT
1 AAAAGGTAGAAAAATAAT
10621949 GAATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
AAAAGGTAGAAAAATAAT
Found at i:10623690 original size:51 final size:50
Alignment explanation
Indices: 10623631--10623838 Score: 160
Period size: 51 Copynumber: 4.2 Consensus size: 50
10623621 TTCAATCTGC
10623631 TCCACTGCAACCTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
1 TCCACTGCAACCTCAA-GAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
** * * **
10623682 TCCACTGCAA-CTTTAGAGATATA-A----TATC-TGTAGCTTTAATATGC
1 TCCACTGCAACCTCAAGAGATA-AGATTTGTAACTTGTAGCTTTAATCTAT
* * * *
10623726 TCCACTGCAACTTCTTAGAGATAAGATTTGTGACTTGTAGCTTTAATCTGT
1 TCCACTGCAACCTC-AAGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
* * * * * * *
10623777 TTCACTGTAACTTCAGGGAAATAAGATTTATAACTTGTGGCTTTAATCTAT
1 TCCACTGCAACCTCA-AGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
* *
10623828 TCTATTGCAAC
1 TCCACTGCAAC
10623839 TTTAGGAAAA
Statistics
Matches: 122, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
44 23 0.19
45 5 0.04
46 9 0.07
49 7 0.06
50 6 0.05
51 72 0.59
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (50 bp):
TCCACTGCAACCTCAAGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
Found at i:10623840 original size:51 final size:51
Alignment explanation
Indices: 10623746--10623855 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 51
10623736 CTTCTTAGAG
* * * * *
10623746 ATAAGATTTGTGACTTGTAGCTTTAATCTGTTTCACTGTAACTTCAGGGAA
1 ATAAGATTTATAACTTGTAGCTTTAATCTATTTCACTGCAACTTCAGGAAA
* * *
10623797 ATAAGATTTATAACTTGTGGCTTTAATCTA-TTCTATTGCAACTTTAGGAAA
1 ATAAGATTTATAACTTGTAGCTTTAATCTATTTC-ACTGCAACTTCAGGAAA
10623848 ATAAGATT
1 ATAAGATT
10623856 CTCTATCTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
50 3 0.06
51 47 0.94
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (51 bp):
ATAAGATTTATAACTTGTAGCTTTAATCTATTTCACTGCAACTTCAGGAAA
Found at i:10623895 original size:146 final size:146
Alignment explanation
Indices: 10623624--10623944 Score: 347
Period size: 146 Copynumber: 2.2 Consensus size: 146
10623614 TTGTAATTTC
* *
10623624 AATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTG
1 AATCTGCTCCACTGCAACCTCAAGGAAATAAGATTTATAACTTGTAGCTTTAATCTATTCCACTG
* * * * * *
10623689 CAACTTTAGAGATATAATATCTGTAGCTTTAATATGCTCCACTGCAACTTCTTAGAGATAAGATT
66 CAACTTTAGAGAAATAAGATCTCTAGCTTCAATATGCTCCACTACAACTTCTCAGAGATAAGATT
10623754 TGTGACTTGTAGCTTT
131 TGTGACTTGTAGCTTT
* * * * * * * *
10623770 AATCTGTTTCACTGTAACTTCAGGGAAATAAGATTTATAACTTGTGGCTTTAATCTATTCTATTG
1 AATCTGCTCCACTGCAACCTCAAGGAAATAAGATTTATAACTTGTAGCTTTAATCTATTCCACTG
* * *
10623835 CAACTTTAG-GAAAATAAGATTCTCTATCTTCAATCTGCTCCACTACAAC-TC-CAGGGGATAAG
66 CAACTTTAGAG-AAATAAGA-TCTCTAGCTTCAATATGCTCCACTACAACTTCTCA-GAGATAAG
10623897 A-TT-TG---TG--GCTTT
128 ATTTGTGACTTGTAGCTTT
* * *
10623909 AATATGCTCCACTGCAACTTCAAGGAGATAAGATTT
1 AATCTGCTCCACTGCAACCTCAAGGAAATAAGATTT
10623945 TCCACGGTGA
Statistics
Matches: 147, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
139 35 0.24
141 2 0.01
144 2 0.01
145 4 0.03
146 80 0.54
147 24 0.16
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (146 bp):
AATCTGCTCCACTGCAACCTCAAGGAAATAAGATTTATAACTTGTAGCTTTAATCTATTCCACTG
CAACTTTAGAGAAATAAGATCTCTAGCTTCAATATGCTCCACTACAACTTCTCAGAGATAAGATT
TGTGACTTGTAGCTTT
Found at i:10644671 original size:50 final size:50
Alignment explanation
Indices: 10644596--10644697 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
10644586 AAACTTGAAC
**
10644596 CTGTTAGGTAATTCACCGGAACTGAAGTGCTGGCTTGATATTGTTGAGGT
1 CTGTTAGGTAATTCACCGGAACTGAAGTGCCAGCTTGATATTGTTGAGGT
* * *
10644646 CTGTTCGGTAATTCACCGGAGCTGAAGTGCCAGCTTGATGTTGTTGAGGT
1 CTGTTAGGTAATTCACCGGAACTGAAGTGCCAGCTTGATATTGTTGAGGT
10644696 CT
1 CT
10644698 TGTAGTAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (50 bp):
CTGTTAGGTAATTCACCGGAACTGAAGTGCCAGCTTGATATTGTTGAGGT
Found at i:10648878 original size:28 final size:28
Alignment explanation
Indices: 10648834--10648901 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
10648824 TAAAAGTGTA
* *
10648834 ATAATAATAA-ATCATAATACTAAT-ATG
1 ATAATAA-AATATAATAATAATAATAATG
*
10648861 CATAATAAAATATAATAATAATGATAATG
1 -ATAATAAAATATAATAATAATAATAATG
10648890 ATAATAAAATAT
1 ATAATAAAATAT
10648902 CAAAGTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.86
29 3 0.09
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAATAAAATATAATAATAATAATAATG
Found at i:10648972 original size:17 final size:18
Alignment explanation
Indices: 10648950--10648987 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10648940 TAAACATTTA
10648950 AAAAGGTA-AAAAAAAAT
1 AAAAGGTAGAAAAAAAAT
*
10648967 AAAAGGTAGAAAAATAAT
1 AAAAGGTAGAAAAAAAAT
10648985 AAA
1 AAA
10648988 TAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAGGTAGAAAAAAAAT
Found at i:10652001 original size:32 final size:31
Alignment explanation
Indices: 10651960--10652026 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 31
10651950 CTTGTTTTTT
*
10651960 AAATGGAAACCATTTAACGCAAAGCTAGAATA
1 AAATGGAAACCATTTAACCCAAAGCTAGAA-A
* *
10651992 AAATGGAAACCATTTTACCCATAGCTAGAAA
1 AAATGGAAACCATTTAACCCAAAGCTAGAAA
10652023 AAAT
1 AAAT
10652027 AGTTCAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.21
Consensus pattern (31 bp):
AAATGGAAACCATTTAACCCAAAGCTAGAAA
Found at i:10660736 original size:76 final size:76
Alignment explanation
Indices: 10660607--10660754 Score: 287
Period size: 76 Copynumber: 1.9 Consensus size: 76
10660597 GCTTCTTCTC
10660607 CCAAATTGTTTCTTAAGAAATGCTACCACATAAAGTGAATAATGAACTTTTTTATATTAGATTAA
1 CCAAATTGTTTCTTAAGAAATGCTACCACATAAAGTGAATAATGAACTTTTTTATATTAGATTAA
10660672 ATTTTCAGTCT
66 ATTTTCAGTCT
*
10660683 CCAATTTGTTTCTTAAGAAATGCTACCACATAAAGTGAATAATGAACTTTTTTATATTAGATTAA
1 CCAAATTGTTTCTTAAGAAATGCTACCACATAAAGTGAATAATGAACTTTTTTATATTAGATTAA
10660748 ATTTTCA
66 ATTTTCA
10660755 TAGCAATGCA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (76 bp):
CCAAATTGTTTCTTAAGAAATGCTACCACATAAAGTGAATAATGAACTTTTTTATATTAGATTAA
ATTTTCAGTCT
Found at i:10664728 original size:6 final size:6
Alignment explanation
Indices: 10664717--10664749 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10664707 TGACACCTCA
10664717 TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCA
1 TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCA
10664750 ACATCAACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.48, G:0.15, T:0.18
Consensus pattern (6 bp):
TCAGCC
Found at i:10665510 original size:28 final size:28
Alignment explanation
Indices: 10665456--10665510 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
10665446 ATATTTTTTT
* *
10665456 TTAACCAAAACTACAAATATTTCTATAA
1 TTAACCAAAACGACAAATAATTCTATAA
*
10665484 TTAACTCAAAACGA-AAATAATTGTATA
1 TTAAC-CAAAACGACAAATAATTCTATA
10665511 CAAGACAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.31
Consensus pattern (28 bp):
TTAACCAAAACGACAAATAATTCTATAA
Found at i:10666642 original size:11 final size:11
Alignment explanation
Indices: 10666626--10666650 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10666616 TCGATAGTTA
10666626 AATCTTCCTTT
1 AATCTTCCTTT
10666637 AATCTTCCTTT
1 AATCTTCCTTT
10666648 AAT
1 AAT
10666651 TGTTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (11 bp):
AATCTTCCTTT
Found at i:10671606 original size:69 final size:68
Alignment explanation
Indices: 10671480--10671752 Score: 208
Period size: 69 Copynumber: 4.0 Consensus size: 68
10671470 CATTTTTCTT
* ** * * * * * * *
10671480 ATACTAAAGCTCGCAGTTGAAGAGCCATAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAAC
1 ATACTAAGGCTCGCAGGAGAAGAG-TACAGCCTCCAACACAGTTAGCGAGAGAAAAGCTCCCAAC
10671545 TGTC
65 TGTC
* * * * * *
10671549 ATACTAAGGCTCACAGGAGAAGAGTTACAACCTCTAACACAGTTAGCGAGAGTAAAGCTCCTAGC
1 ATACTAAGGCTCGCAGGAGAAGAG-TACAGCCTCCAACACAGTTAGCGAGAGAAAAGCTCCCAAC
10671614 TGTC
65 TGTC
* * * ** * * ** *
10671618 ATATTAAGGCTCGCAGGCGAAGAACTGTAGCTTCCATCGTAGTTAGAGAGAGAAAAGCTCCCAAC
1 ATACTAAGGCTCGCAGGAGAAG-AGTACAGCCTCCAACACAGTTAGCGAGAGAAAAGCTCCCAAC
10671683 TGTC
65 TGTC
* ** *
10671687 ATACTACA-GCTCGCAAGCA-AAGAGCCCTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
1 ATACTA-AGGCTCGC-AGGAGAAGAGTAC-AGCCTCCAACACAGTTAGCGAGAGAAAAGCTCCCA
10671750 ACT
63 ACT
10671753 ACGACATTAA
Statistics
Matches: 155, Mismatches: 45, Indels: 8
0.75 0.22 0.04
Matches are distributed among these distances:
68 1 0.01
69 150 0.97
70 4 0.03
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (68 bp):
ATACTAAGGCTCGCAGGAGAAGAGTACAGCCTCCAACACAGTTAGCGAGAGAAAAGCTCCCAACT
GTC
Found at i:10671847 original size:12 final size:12
Alignment explanation
Indices: 10671830--10671854 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10671820 AACTTTGCAA
10671830 TCTTCCAAAATT
1 TCTTCCAAAATT
10671842 TCTTCCAAAATT
1 TCTTCCAAAATT
10671854 T
1 T
10671855 TCAATATATA
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:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TCTTCCAAAATT
Found at i:10672070 original size:59 final size:57
Alignment explanation
Indices: 10671848--10672098 Score: 218
Period size: 57 Copynumber: 4.4 Consensus size: 57
10671838 AATTTCTTCC
* * * * * *
10671848 AAAATTTT-CAA-TATATAAAAAATTTTGCGGAGTCACATTCTCATCTTATTACCTTAG
1 AAAATTTTCCAAGTATA-AAAAAA-TTCGCAGAGTCACATTCCCAGCTTATTACTTTAA
* * **
10671905 AAAATTTTCCAAGTATAAAAAAATTCGCATACTCACATTCTTAGCTTATTACTTTAA
1 AAAATTTTCCAAGTATAAAAAAATTCGCAGAGTCACATTCCCAGCTTATTACTTTAA
** * * * * *
10671962 AAAATTTTCCAAGTATAAAAATGTTTGCAAAGTCATATTCCTAGCTTATTACTTTAG
1 AAAATTTTCCAAGTATAAAAAAATTCGCAGAGTCACATTCCCAGCTTATTACTTTAA
* ** * * *
10672019 AAAATTTTTCAAGTATAAAAAAAAATTCGTGGAGTCATATTCCCAACTTATTATTTTTAA
1 AAAATTTTCCAAGTAT--AAAAAAATTCGCAGAGTCACATTCCCAGCTTATTA-CTTTAA
* *
10672079 AAAATTTCCCAAGTACAAAA
1 AAAATTTTCCAAGTATAAAA
10672099 CAGCTCGCGA
Statistics
Matches: 159, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
57 98 0.62
58 13 0.08
59 31 0.19
60 17 0.11
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (57 bp):
AAAATTTTCCAAGTATAAAAAAATTCGCAGAGTCACATTCCCAGCTTATTACTTTAA
Found at i:10675613 original size:23 final size:23
Alignment explanation
Indices: 10675514--10675630 Score: 107
Period size: 23 Copynumber: 5.2 Consensus size: 23
10675504 AACTATAGAT
* * *
10675514 AATATTCACTATTCATACCAGAG
1 AATATTTACTGTTCATGCCAGAG
*
10675537 AATATTTATTGTTCATGCCAGAG
1 AATATTTACTGTTCATGCCAGAG
* * *
10675560 AAT-CTTACTATTTC-TGTCAGAG
1 AATATTTACT-GTTCATGCCAGAG
*
10675582 -AT-TTCTACTGTTCATGCCAGAA
1 AATATT-TACTGTTCATGCCAGAG
*
10675604 AATATTTACTGTTCATGCTAGAG
1 AATATTTACTGTTCATGCCAGAG
10675627 AATA
1 AATA
10675631 ATTCTTGTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
21 6 0.08
22 21 0.28
23 46 0.61
24 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (23 bp):
AATATTTACTGTTCATGCCAGAG
Found at i:10675639 original size:23 final size:23
Alignment explanation
Indices: 10675587--10675641 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
10675577 CAGAGATTTC
*
10675587 TACTGTTCATGCCAGAAAATATT
1 TACTGTTCATGCCAGAAAATAAT
* *
10675610 TACTGTTCATGCTAGAGAATAAT
1 TACTGTTCATGCCAGAAAATAAT
10675633 T-CTTGTTCA
1 TAC-TGTTCA
10675642 CTCATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (23 bp):
TACTGTTCATGCCAGAAAATAAT
Done.