Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 144 of 172
Found at i:47293700 original size:11 final size:12
Alignment explanation
Indices: 47293678--47293717 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
47293668 TATAAATTAC
47293678 AATATT-AATTT
1 AATATTAAATTT
47293689 AAT-TTAAATTT
1 AATATTAAATTT
47293700 AATATTAAATTTT
1 AATATTAAA-TTT
47293713 AATAT
1 AATAT
47293718 ATTTCTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.08
11 11 0.42
12 5 0.19
13 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATATTAAATTT
Found at i:47296431 original size:20 final size:20
Alignment explanation
Indices: 47296403--47296459 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
47296393 AATACTATGA
* *
47296403 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
47296423 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
47296443 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
47296460 GCATAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:47301366 original size:93 final size:93
Alignment explanation
Indices: 47301259--47301429 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47301249 GCCCATAAGT
* *
47301259 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47301324 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
47301352 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47301417 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47301430 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47301426 original size:46 final size:46
Alignment explanation
Indices: 47301251--47301426 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47301241 TGTAACCCGC
* * *
47301251 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47301297 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
47301347 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
47301390 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47301427 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47301886 original size:30 final size:30
Alignment explanation
Indices: 47301852--47301911 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47301842 ATTTAATACG
47301852 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47301882 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47301912 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47308117 original size:93 final size:93
Alignment explanation
Indices: 47308010--47308180 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
47308000 GCCCCTAAGT
* *
47308010 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47308075 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
47308103 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47308168 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47308181 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47308177 original size:46 final size:46
Alignment explanation
Indices: 47308005--47308177 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
47307995 AACCCGCCCC
* * * *
47308005 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
* * *
47308051 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--TCCA
* *
47308097 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
47308144 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47308178 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 64 0.60
47 31 0.29
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
Found at i:47309216 original size:42 final size:42
Alignment explanation
Indices: 47309157--47309252 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
47309147 ATGAGTTTTT
* * *
47309157 GTTTAGCTCTTACGAGCTTTAGTTTAA-CCTTGATGGGTTTCC
1 GTTTAGCTCTTACGAGCTTCAGTTCAACCCTT-ATGGGTTTCA
** *
47309199 GTTTAGCTCTTTTGAGCTTCCGTTCAACCCTTATGGGTTTCA
1 GTTTAGCTCTTACGAGCTTCAGTTCAACCCTTATGGGTTTCA
*
47309241 GTTTAGCACTTA
1 GTTTAGCTCTTA
47309253 TGTGCTTTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (42 bp):
GTTTAGCTCTTACGAGCTTCAGTTCAACCCTTATGGGTTTCA
Found at i:47309269 original size:42 final size:43
Alignment explanation
Indices: 47309184--47309269 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
47309174 TTTAGTTTAA
* * * *
47309184 CCTTGATGGGTTTCCGTTTAGCTCTTTTGAGCTTCCGTTCAAC
1 CCTTGATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
* *
47309227 CCTT-ATGGGTTTCAGTTTAGCACTTATGTGCTTTCGTGCAAC
1 CCTTGATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
47309269 C
1 C
47309270 TTTGGGCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (43 bp):
CCTTGATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
Found at i:47313031 original size:44 final size:44
Alignment explanation
Indices: 47312946--47313031 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
47312936 CATAGGATTT
** * *
47312946 CGTGTAAGACCATGTCTGGGATGTTGGCATCGATTTCTATTTTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATCTCTATTTTA
47312990 CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT-TATTT
1 CGTGTAAGACCATGTCTGGGACATCGGCATCG-ATCTCTATTT
47313032 CGTATAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGATCTCTATTTTA
Found at i:47319920 original size:16 final size:16
Alignment explanation
Indices: 47319899--47319929 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47319889 GAATAGTTAG
47319899 GATACATATGTCATGT
1 GATACATATGTCATGT
47319915 GATACATATGTCATG
1 GATACATATGTCATG
47319930 ACATAGGATT
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:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
GATACATATGTCATGT
Found at i:47323217 original size:15 final size:15
Alignment explanation
Indices: 47323192--47323224 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
47323182 AACCATTTCA
47323192 AAAAGAAAAGAAGAAC
1 AAAAGAAAAGAA-AAC
47323208 AAAA-AAAAGAAAAC
1 AAAAGAAAAGAAAAC
47323222 AAA
1 AAA
47323225 GAGATGCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 7 0.41
16 4 0.24
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAC
Found at i:47323288 original size:15 final size:15
Alignment explanation
Indices: 47323268--47323298 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47323258 AGCAGTAACC
47323268 AAAATAAAAATAATA
1 AAAATAAAAATAATA
*
47323283 AAAATAAAACTAATA
1 AAAATAAAAATAATA
47323298 A
1 A
47323299 TTTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:47324140 original size:35 final size:35
Alignment explanation
Indices: 47324051--47324148 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
47324041 ACTTACGAAT
* *
47324051 AAGAG-TACATCCCTCCAAAACACACCAATGCTCAT
1 AAGAGCTAC-TCCCTCCGAAACACACCAATGCTCAA
* * *
47324086 AAGAGCTACTCCAAT-CGAAACGCACCAATGTTCAA
1 AAGAGCTACTCC-CTCCGAAACACACCAATGCTCAA
*
47324121 AAGAGCTAGTCCCTCCGAAACACACCAA
1 AAGAGCTACTCCCTCCGAAACACACCAA
47324149 ATAGAGAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 1 0.02
35 47 0.90
36 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.15
Consensus pattern (35 bp):
AAGAGCTACTCCCTCCGAAACACACCAATGCTCAA
Found at i:47325234 original size:18 final size:17
Alignment explanation
Indices: 47325211--47325244 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47325201 TTAAGTCATC
47325211 CAATTATAATTATTTAAT
1 CAATTATAATT-TTTAAT
*
47325229 CAATTATCATTTTTAA
1 CAATTATAATTTTTAA
47325245 ATTAATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
CAATTATAATTTTTAAT
Found at i:47332003 original size:24 final size:24
Alignment explanation
Indices: 47331975--47332020 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47331965 CCTTTTTAAT
*
47331975 AAAAATATTTAAAAATTTAAAAGA
1 AAAAATATATAAAAATTTAAAAGA
*
47331999 AAAAATATATAAAATTTTAAAA
1 AAAAATATATAAAAATTTAAAA
47332021 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAATATATAAAAATTTAAAAGA
Found at i:47332045 original size:18 final size:18
Alignment explanation
Indices: 47332019--47332053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47332009 AAAATTTTAA
*
47332019 AATTTTAAAATATAAAAG
1 AATTATAAAATATAAAAG
*
47332037 AATTATAAATTATAAAA
1 AATTATAAAATATAAAA
47332054 ATATATGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTATAAAATATAAAAG
Found at i:47332046 original size:25 final size:26
Alignment explanation
Indices: 47331973--47332058 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 26
47331963 TACCTTTTTA
* *
47331973 ATAAAAATATTTAAAAATT-TAAAA-G
1 ATAAAAATA-TAAAAAATTATAAAATT
* *
47331998 A-AAAAATATATAAAATTTTAAAATT
1 ATAAAAATATAAAAAATTATAAAATT
*
47332023 -TTAAAATATAAAAGAATTAT-AAATT
1 ATAAAAATATAAAA-AATTATAAAATT
47332048 ATAAAAATATA
1 ATAAAAATATA
47332059 TGCATATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 7 0.14
24 12 0.24
25 16 0.33
26 14 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAAAAATATAAAAAATTATAAAATT
Found at i:47333365 original size:2 final size:2
Alignment explanation
Indices: 47333358--47337326 Score: 2645
Period size: 2 Copynumber: 1953.0 Consensus size: 2
47333348 TTAGAGCTAG
* *
47333358 AT AT AT AT A- AT AT GAT CT AT AT AT AT AT GAT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * *
47333401 AG AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT AT AT AT CAT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * * * *
47333443 AT AT AT AT AT GT AT GT AT GT AT AT CAT AG AT AT AG AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* * * * *
47333486 AT AT CT AT AT AT AT GAT AT AT AT CT AT GAT AT AC AT AC AT AC AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* *
47333530 AT AT AT AT AT GAT AT AT AT -T AT CT AT -T AT AT CAT AT CT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * *
47333572 AT AT AT CT AT AT AT A- ACT TT CA- AT A- AT AT AT AT AT AT AT CT
1 AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
47333613 AT CT AT AT AT AT AT AT AT AT AT AT GAC AT AT AT GAT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT
* * * *
47333657 AT AT AT -T AT CT AT AT AT AT AT AG AT AT CT AT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
47333698 AT AG AT AT CT AT AT AT AT GAT AT AT AT GAT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT
* *
47333742 AT AG AT AT GAT AT A- AT AT AT GAT AT A- AT AG AT A- AT AT AT AT
1 AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
47333783 AT CAT AT AT AT A- ACT TT CA- AT A- AT AT AT AT AT CT AT CT AT
1 AT -AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT
* * *
47333823 AT AT AT AT AG AT A- AT AT AT AT AT AT AG AT CAT AT AT GT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT
* * *
47333866 AT AT AT AT AG AT AG AT AT AT AT AT -T AT -T GAA AGT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT
* * * *
47333907 AG AT AT CT AT AT AT AT GAT AT AT AT AT CT AT AT CT AT AT AT GAT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * *
47333951 AT AT AT GAT CT AT AT AT AT AT AT AT AG AT AT GT CAT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * * *
47333995 AT AG AT AG AT AT AT AT AT -T AT -T GAA AGT -T AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT
* * *
47334036 CT AT AT AT AT GAT AT AT AT AT CT AT AT CT AT AT AT GAT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * *
47334080 GAT CT AT AT AT AT AT AT AG AT CAT AT AT AT CAT AT AT AT AT AG
1 -AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT
* *
47334123 AT AG AT AT AT AT AT -T AT -T GAA AGT -T AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT -AT AT AT
* * *
47334163 AT -T AT CT AT -T AT AT AT CT AT AT AT A- ACT TT CA- AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT
* * * * *
47334202 AT AT AT AT CT AT CT AT AT AT AT AT AT GT GAC AT AT AT GAT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT
* *
47334246 AT AT AT AT AT GAT AT AT AT -T AT CT AT -T AT AT CAT AT CT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
* * *
47334288 AT AT AT -T AT -T GAA AGT -T AT AT AT AG AT AT CT AT AT AT AT GAT
1 AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT -AT
* *
47334330 AT AT AT AT CT AT AT AT AT AT AT GAT AT AT AT GAT CT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT
* *
47334374 AT AT AG AT AT GAT AT A- AT AG AT A- AT AT AT AT AT CAT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * * *
47334416 A- ACT TT CA- AT A- AT AT AT AT CT AT CT AT AT AT AT AT AT GAC
1 AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * *
47334456 AT AT AT GAT CT AT AT AT AT AT -T AT CT AT -T AT AT CAT AT CT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * * *
47334498 AT AT AT CT AT AT AT A- ACT TT CA- AT A- AT AT AT CT AT CT AT AT
1 AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
47334539 AT AT AT AT AT GAC AT AT AT GAT CT AT AT AT AT AT AT AG AT CAT
1 AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT -AT
* * * *
47334582 AT AT GT CAT AT AT AT AT AT AT AG AT AG AT AG AT AT AT -T AT -T
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
47334623 GAA AGT -T AT AT AT AT GAT AT AT A- AT AG AT A- AT AT AT AT AT
1 -AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
47334663 CAT AT AT AT A- ACT TT CA- AT A- AT AT AT CT AT CT AT CT AT AT
1 -AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
47334703 AT AT AT AT GAT AT AT AT GAT CT AT AT AT AT AT AG AT AT AT AT AT
1 AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
47334747 CAT AT AT AT AG AT AT CT AT AT AT A- ACT TT CA- AT A- AT AT AT
1 -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT
* *
47334787 AT AT AT AT AGG AT AT A- AT AG AT A- AT AT AT AT AT CAT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * *
47334829 A- AGT AT AT AT AT CAT AG AT AT AT AT CAT AT AT AT AG AT AT CT
1 AT A-T AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* * *
47334871 AT AT AT CT AT AT CT AT AT AT AT AT CAT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* * * *
47334914 AT CAT AG AT AT AT AT CAT AT AT AT AA AT AT CT AT AT AT CT AT AT
1 AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
47334958 CT AT AT AT AT AT CAT AT AT AT AT -T CT AT AT CAT AT AT AT CAT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT
* * *
47335000 AT AT AT AT AG AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* * *
47335041 AT AT AT CAT AT AT AT AT GT AT AC AT AT CAT AG AT AT AT AT CAT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT
* * * *
47335084 AT AT AT AG AT AT CT AT AT AT CT AT AT CT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * *
47335127 AT AT AT GT AT AT AT AT CAT AG AT AT AT AT CAT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * * *
47335171 CT AT AT AT CT AT AT CT AT AT AT AT AT CAT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* * * *
47335214 AT AT CAT AG AT AT AT AT CAT AT AT AT AG AT AT CT AT AT AT CT AT
1 AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
47335258 AT CT AT AT AT AT AT CAT AT AT AT AT AG AT CAT AT AT GT CAT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT -AT AT AT AT -AT AT
* * * *
47335301 AT AT AT AT AT AG AT AG AT AG AT AT AT -T AT -T GAA AGT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
*
47335342 AT AT GAT AT AT A- AT AG AT A- AT AT AT AT AT CAT AT AT AT A- ACT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A-T
* * * *
47335384 TT CA- AT A- AT AT AT CT AT CT AT CT AT AT AT AT AT AT GAT AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* *
47335426 AT GAT CT AT AT AT AT AT AT AG AT CAT AT AT AT CAT AT AT AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT
* * *
47335469 AT AT AT AT AT AT AT CAT AT AT AT AG AT AT CT AT AT AT A- ACT TT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
47335512 CA- AT A- AT AT AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT
1 -AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* *
47335552 AT AT CAT AT AT AT AT AT AG AT CAT AT AT GT CAT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT
* * * *
47335595 AT AG AT AG AT AT AT AT AT AT -T AT -T GAA AGT -T AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT
* *
47335636 AT AT A- AT AG AT A- AT AT AT AT CAT AT AT AT A- ACT TT CA- AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A-T AT -AT AT
* * *
47335675 A- AT AT AT AT AT CT AT CT AT AT AT AT AT GAT AT AT AT GAT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT
* *
47335718 AT AT AT AT AT AG AT CAT AT AT AT CAT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
* * *
47335762 AT AT CAT AT AT AT AG AT AT CT AT AT AT A- ACT TT CA- AT A- AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT
* *
47335802 AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * * *
47335844 AT AT AT GT AT AC AT AT CAT AG AT AT AT AT CAT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * * *
47335888 CT AT AT AT CT AT AT CT AT AT AT AT AT CAT AT AT AT -T AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* *
47335930 AT CAT AT AT AT CAT AT AT AT AT AG AT AT AT AT AG AT AT GAT AT
1 AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* *
47335973 A- AT AG AT A- AT AT AT A- AT AT AT AT AT CAT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * * *
47336013 CT AT AT AT CT AT AT CT AT AT AT AT AT CAT AT AT AT -T AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* *
47336055 AT CAT AT AT AT CAT AT AT AT AT AG AT AT AT AT AG AT AT GAT AT
1 AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* *
47336098 A- AT AG AT A- AT AG AT A- AT AT AT A- AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* * * *
47336137 AT AT AT GT AT AT AT AT CAT AG AT AT AT AT CAT AT CT AT AG AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT
* *
47336181 CT AT AT AT CAT AT AT AT -T AT CT AT AT CAT AT AT AT CAT AT AT
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT
* *
47336223 AT AT AT AT AG AT CAT AT AT AT CAT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
47336267 AT AT CAT AT AT AT AG AT AT CT AT AT AT A- ACT TT CA- AT A- AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT
* *
47336307 AT AT AT AT CAT AT AT AT AT AT AT AT AG AT CAT AT AT GT CAT AT
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT
* * *
47336350 AT AT AT AT AT AG AT AG AT AT AT AT AT -T AT -T GAA AGT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
* *
47336391 AT AG AT AT AT A- AT AG AT A- AT AT AT AT AT CAT AT AT AT A- ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A-T
* * *
47336432 TT CA- AT A- AT AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* *
47336472 AT AT AT AT AT AT AT CAT AT AT AT AT AT GT AT AT AT AT CAT AG AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* * *
47336516 AT AT AT CAT AT AT AT AG AT AT CT AT AT AT A- ACT TT CA- AT A-
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT
* *
47336556 AT AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
47336597 AT AT AT CAT AT AT AT AT AT GT AT AT AT AT CAT AG AT AT AT AT CAT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT
* * *
47336642 AT AT AT AG AT AT CT AT AT AT A- ACT TT CA- AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT
* *
47336683 AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* * * *
47336725 AT AT GT AT AT AT AT CAT AG AT AT AT AT CAT AT AT AT AG AT AT CT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* * *
47336769 AT AT AT CT AT AT CT AT AT CT AT AT AT AT AT CAT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
* *
47336811 CT AT AT CAT AT AT AT CAT AT AT AT AT AT CAT AT AT AT AT AT GT
1 AT AT AT -AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * *
47336854 AT AT AT AT CAT AG AT AT AT AT CAT AT AT AT AT AG AT AT CT AT AT
1 AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* * * *
47336898 AT A- ACT TT CA- AT A- AT AT AT AT AT CT AT CT CT A- AT AT AT AT
1 AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
47336938 AT CAT AG AT AT AT AT CAT AT AT AT AG AT AT CT AT AT AT A- ACT
1 AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
47336980 TT CA- AT A- AT AT AT AT AT CT AT CT AT AT AT AT AT GAT AT AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* ** *
47337022 GAT CT AT AT AT AT AT CG AT AT AT AT A- AT AT GAT CT AT AT AT AT
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
* * * *
47337065 AT GAT AC AT AT AT AT AT AG AT AT AG AT AT AT AT AG AT AT GAT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* *
47337109 A- AT AG AT A- AT AT AT AT CAT AT AT AT AT GT AT AT AT AT CAT -T
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT -AT AT
* * *
47337150 GAT AT AT AT CAT AT AT AT AG AT AT CT AT AT AT A- ACT TT CA- AT
1 -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT
* *
47337192 A- AT AT AT AT AT AG AT AT GAT AT A- AT AG AT A- AT AT AT AT CAT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT -AT
* * * *
47337233 AT AT AT AT GT AT AT AT AT CAT AT AT AT AG AT AT CT AT AT AT CT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
* *
47337276 AT AT CT AT AT AT AT AT CAT AT AT AT -T AT CT AT AT CAT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT -AT AT AT AT
*
47337319 AT AG AT AT
1 AT AT AT AT
47337327 TGTTCAATGG
Statistics
Matches: 3073, Mismatches: 553, Indels: 682
0.71 0.13 0.16
Matches are distributed among these distances:
1 139 0.05
2 2648 0.86
3 286 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:47340004 original size:13 final size:13
Alignment explanation
Indices: 47339986--47340013 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47339976 TGAAAATTCG
47339986 TTAATGGTACATT
1 TTAATGGTACATT
47339999 TTAATGGTACATT
1 TTAATGGTACATT
47340012 TT
1 TT
47340014 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:47342951 original size:20 final size:22
Alignment explanation
Indices: 47342918--47342961 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
47342908 AAAATCAGTC
*
47342918 AAAAAAGTCAAAA-T-AATAAA
1 AAAAAAGACAAAATTCAATAAA
*
47342938 AAAAAAGACGAAATTCAATAAA
1 AAAAAAGACAAAATTCAATAAA
47342960 AA
1 AA
47342962 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAAGACAAAATTCAATAAA
Found at i:47345339 original size:18 final size:18
Alignment explanation
Indices: 47345318--47345356 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47345308 GATTGCGAGT
* *
47345318 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
47345336 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
47345354 GAA
1 GAA
47345357 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:47348443 original size:11 final size:11
Alignment explanation
Indices: 47348417--47348455 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
47348407 GCTCTAAAGT
47348417 TGAAAAAATCA
1 TGAAAAAATCA
*
47348428 T--AAAAATTA
1 TGAAAAAATCA
47348437 TGAAAAAATCA
1 TGAAAAAATCA
47348448 TGAAAAAA
1 TGAAAAAA
47348456 GCCTGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (11 bp):
TGAAAAAATCA
Found at i:47355157 original size:33 final size:32
Alignment explanation
Indices: 47355113--47355184 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 32
47355103 TCTTTTTTGT
*
47355113 AATTGTTGCTATTGATTCAAAAATGATTTAAA
1 AATTGTTGCTATTGATTCAAAAAAGATTTAAA
47355145 AACTTGTTGCTATTGATTCAAAAAAGATTTAAA
1 AA-TTGTTGCTATTGATTCAAAAAAGATTTAAA
47355178 AATTGTT
1 AATTGTT
47355185 ACCAACAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 7 0.18
33 31 0.82
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (32 bp):
AATTGTTGCTATTGATTCAAAAAAGATTTAAA
Found at i:47360486 original size:64 final size:64
Alignment explanation
Indices: 47360381--47360501 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
47360371 AGTTCCTTCG
*
47360381 GAAATGGTAAGATCTTTGGCACAAGAAGAAGGGGCTGATCCGTATCATCTTGACTTGGTTTTGA
1 GAAATGGTAAGATCTTTGGCACAAGAAGAAGGGGCTAATCCGTATCATCTTGACTTGGTTTTGA
*
47360445 GAAATGGTAAGATCTTTGGCGCAAGAAGAAGGGGCTAATCCGTATCATCTTGACTTG
1 GAAATGGTAAGATCTTTGGCACAAGAAGAAGGGGCTAATCCGTATCATCTTGACTTG
47360502 ATTCTGATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (64 bp):
GAAATGGTAAGATCTTTGGCACAAGAAGAAGGGGCTAATCCGTATCATCTTGACTTGGTTTTGA
Found at i:47363624 original size:12 final size:12
Alignment explanation
Indices: 47363604--47363641 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
47363594 TTTTTATATG
*
47363604 TTATATGTTATT
1 TTATCTGTTATT
47363616 TTATCTGTTATT
1 TTATCTGTTATT
47363628 TTATC--TTATT
1 TTATCTGTTATT
47363638 TTAT
1 TTAT
47363642 GTTGTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATCTGTTATT
Found at i:47363649 original size:10 final size:10
Alignment explanation
Indices: 47363607--47363649 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
47363597 TTATATGTTA
47363607 TATGTTATTT
1 TATGTTATTT
47363617 TATCTGTTATTT
1 TA--TGTTATTT
*
47363629 TATCTTATTT
1 TATGTTATTT
*
47363639 TATGTTGTTT
1 TATGTTATTT
47363649 T
1 T
47363650 GTAAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 18 0.64
12 10 0.36
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (10 bp):
TATGTTATTT
Found at i:47371682 original size:22 final size:20
Alignment explanation
Indices: 47371638--47371675 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47371628 TTGATTGTCC
*
47371638 ATATTTTTAATATAATCTAT
1 ATATATTTAATATAATCTAT
47371658 ATATATTTAATATAATCT
1 ATATATTTAATATAATCT
47371676 TAATATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTTAATATAATCTAT
Found at i:47374732 original size:18 final size:18
Alignment explanation
Indices: 47374653--47374746 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
47374643 CAAGGTCACG
*
47374653 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
47374671 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
47374689 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
47374707 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
47374725 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
47374740 ATCAATA
1 ATCAATA
47374747 AGAAAACTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:47374733 original size:9 final size:9
Alignment explanation
Indices: 47374653--47374733 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
47374643 CAAGGTCACG
*
47374653 ATCAATAGC
1 ATCAATATC
* *
47374662 GTCACTATC
1 ATCAATATC
*
47374671 ATCAATAGC
1 ATCAATATC
* * *
47374680 GTCACTAGC
1 ATCAATATC
47374689 ATCAATATC
1 ATCAATATC
* * *
47374698 GTCACTAGC
1 ATCAATATC
47374707 ATCAATATC
1 ATCAATATC
* *
47374716 GTCACTATC
1 ATCAATATC
47374725 ATCAATATC
1 ATCAATATC
47374734 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:47375155 original size:13 final size:14
Alignment explanation
Indices: 47375128--47375158 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47375118 GATGAACCCT
47375128 CTTTTTTTTATTTC
1 CTTTTTTTTATTTC
*
47375142 CTTTTTTTTATTCC
1 CTTTTTTTTATTTC
47375156 CTT
1 CTT
47375159 CCATCATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTTTTTATTTC
Found at i:47375453 original size:15 final size:15
Alignment explanation
Indices: 47375433--47375462 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47375423 GGCAATCACT
47375433 CATTCTTAAAACCAA
1 CATTCTTAAAACCAA
*
47375448 CATTCTTAAGACCAA
1 CATTCTTAAAACCAA
47375463 AGAGTCGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
CATTCTTAAAACCAA
Found at i:47377670 original size:21 final size:21
Alignment explanation
Indices: 47377646--47377686 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47377636 AGATTGATTA
* *
47377646 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
47377667 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
47377687 ATCAGCAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:47377718 original size:21 final size:21
Alignment explanation
Indices: 47377694--47377733 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47377684 TTTATCAGCA
*
47377694 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
47377715 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
47377734 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:47378068 original size:16 final size:17
Alignment explanation
Indices: 47378039--47378073 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47378029 TTTTTCTTTC
*
47378039 TTCCTATTTCTTTTTAT
1 TTCCTATTTATTTTTAT
47378056 TTCC-ATTTATTTTTAT
1 TTCCTATTTATTTTTAT
47378072 TT
1 TT
47378074 TACTAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCCTATTTATTTTTAT
Found at i:47393766 original size:51 final size:52
Alignment explanation
Indices: 47393690--47393795 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 52
47393680 CTGATACCCC
47393690 CCAAGGAAAATCCCAAATTGGATCCCAAATTGACGGGTTAGTGTGAGCTT-T
1 CCAAGGAAAATCCCAAATTGGATCCCAAATTGACGGGTTAGTGTGAGCTTAT
**
47393741 CCAAGGAAAATCCTGAATTGGATCCCAAATTGACGGGTTAGTGTGAGCTTAT
1 CCAAGGAAAATCCCAAATTGGATCCCAAATTGACGGGTTAGTGTGAGCTTAT
47393793 CCA
1 CCA
47393796 TGCGGTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 48 0.92
52 4 0.08
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (52 bp):
CCAAGGAAAATCCCAAATTGGATCCCAAATTGACGGGTTAGTGTGAGCTTAT
Found at i:47395250 original size:11 final size:11
Alignment explanation
Indices: 47395234--47395258 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47395224 GCGATTATTG
47395234 TATTTATTGTA
1 TATTTATTGTA
47395245 TATTTATTGTA
1 TATTTATTGTA
47395256 TAT
1 TAT
47395259 AAATATAAAG
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:47395521 original size:16 final size:17
Alignment explanation
Indices: 47395500--47395534 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47395490 TATTCTAGTA
*
47395500 AAATAAAAATAAAT-GG
1 AAATAAAAAGAAATAGG
47395516 AAATAAAAAGAAATAGG
1 AAATAAAAAGAAATAGG
47395533 AA
1 AA
47395535 GAAAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (17 bp):
AAATAAAAAGAAATAGG
Found at i:47395916 original size:21 final size:21
Alignment explanation
Indices: 47395883--47395923 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47395873 AGTTACTGAT
* *
47395883 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
47395904 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
47395924 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:47399587 original size:29 final size:29
Alignment explanation
Indices: 47399545--47399602 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
47399535 TATTAACCGA
47399545 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
47399574 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
47399603 AATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCCATAGATCTATGTAGTTCCAAAAAAG
Found at i:47401406 original size:15 final size:17
Alignment explanation
Indices: 47401376--47401407 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
47401366 GTCAAAATCT
47401376 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
47401393 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
47401408 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:47401535 original size:27 final size:28
Alignment explanation
Indices: 47401505--47401561 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
47401495 AAATGAATGG
*
47401505 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
47401532 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
47401560 AA
1 AA
47401562 AATAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:47407696 original size:23 final size:23
Alignment explanation
Indices: 47407670--47407715 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47407660 GGGATATTAG
47407670 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
47407693 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
47407716 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:47410085 original size:30 final size:29
Alignment explanation
Indices: 47410051--47410109 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 29
47410041 TTATTACTTC
47410051 TGCTGAACCCCATGACTTCGGGTTCAGAG
1 TGCTGAACCCCATGACTTCGGGTTCAGAG
47410080 NTGCTGAACCCCATGACTTCGGGTTCAGAG
1 -TGCTGAACCCCATGACTTCGGGTTCAGAG
47410110 GACCTCCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.24
Consensus pattern (29 bp):
TGCTGAACCCCATGACTTCGGGTTCAGAG
Found at i:47416187 original size:17 final size:18
Alignment explanation
Indices: 47416146--47416188 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
47416136 TGTATTTACT
47416146 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
47416164 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
47416181 TATTATAT
1 TATTATAT
47416189 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:47416310 original size:11 final size:11
Alignment explanation
Indices: 47416286--47416319 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
47416276 GAATAGCAGG
47416286 GAAAGAAAGAAA
1 GAAA-AAAGAAA
*
47416298 GAAAAAGGAAA
1 GAAAAAAGAAA
47416309 GAAAAAAGAAA
1 GAAAAAAGAAA
47416320 AGGAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:47418195 original size:22 final size:22
Alignment explanation
Indices: 47418161--47418216 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
47418151 CGGGTTGATG
* *
47418161 ACACGGGCATGTCACATCAGCC
1 ACACCGGCATGTCACACCAGCC
*
47418183 ACACCGGCGTGTCACACCAGCC
1 ACACCGGCATGTCACACCAGCC
*
47418205 ACACGGGCATGT
1 ACACCGGCATGT
47418217 GGTACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (22 bp):
ACACCGGCATGTCACACCAGCC
Found at i:47419625 original size:42 final size:42
Alignment explanation
Indices: 47419547--47419626 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
47419537 GTGCAAGGTT
* * *
47419547 CACACGGCCAAGACACACGCCCGTGTTCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATATTCTAGCCCGTGTAGCA
**
47419589 CACACGGCTGAGACACACGCCCATATCTCTA-CCCGTGT
1 CACACGGCCAAGACACACGCCCATAT-TCTAGCCCGTGT
47419627 GTTCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.88
43 4 0.12
ACGTcount: A:0.24, C:0.38, G:0.23, T:0.16
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATATTCTAGCCCGTGTAGCA
Found at i:47426061 original size:20 final size:20
Alignment explanation
Indices: 47426014--47426080 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
47426004 CAAATGAGAG
*
47426014 AAAAAGAAAAGAGCAAAA-ATA
1 AAAAAGAAAAGA--AAAATAAA
* *
47426035 CAAAAGAAAAGAAAAATGAA
1 AAAAAGAAAAGAAAAATAAA
*
47426055 AAAAAG-AAAGAAAATTAAA
1 AAAAAGAAAAGAAAAATAAA
47426074 AAAAAGA
1 AAAAAGA
47426081 GAATGAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 21 0.55
20 6 0.16
21 11 0.29
ACGTcount: A:0.78, C:0.03, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAATAAA
Found at i:47426119 original size:15 final size:15
Alignment explanation
Indices: 47426085--47426128 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
47426075 AAAAGAGAAT
47426085 GAAAAGAGAGTGAGAAAA
1 GAAAA-AGA-TGA-AAAA
47426103 GAAAAAGATGAAAAA
1 GAAAAAGATGAAAAA
47426118 GAAAAAG-TGAA
1 GAAAAAGATGAA
47426129 TGAAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 3 0.12
17 3 0.12
18 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.27, T:0.07
Consensus pattern (15 bp):
GAAAAAGATGAAAAA
Found at i:47435156 original size:48 final size:47
Alignment explanation
Indices: 47435077--47435182 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
47435067 GAGTGTCATG
*
47435077 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
47435125 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
47435173 GAAAAAGAAA
1 GAAAAAGAAA
47435183 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:47441440 original size:20 final size:19
Alignment explanation
Indices: 47441411--47441467 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
47441401 AGCTAATAAC
47441411 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
* *
47441430 GAGCTCGAATGAGCTTACTT
1 GAGCTC-AATGAGCTGAATT
47441450 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
47441468 CCACATGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:47443419 original size:21 final size:21
Alignment explanation
Indices: 47443395--47443438 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47443385 GAATCTTTAG
*
47443395 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
47443416 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
47443437 TA
1 TA
47443439 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:47449076 original size:38 final size:38
Alignment explanation
Indices: 47448962--47449097 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 38
47448952 GTGCATTCAA
* * * *
47448962 GGTACCAAAGTACAAACAAGGGCACATATGTATACTCAAG
1 GGTACCGAAGTACAAACAA--GCACATATGTACAATCAGG
* *** * *
47449002 GATACCGAAGTACAATTAGGGGCACGTATGTGCAATCAGG
1 GGTACCGAAGTACAA--ACAAGCACATATGTACAATCAGG
*
47449042 GGTATCGAAGTACAAACAAGCACATATGTACAATCAGG
1 GGTACCGAAGTACAAACAAGCACATATGTACAATCAGG
*
47449080 GGTACCAAAGTACAAACA
1 GGTACCGAAGTACAAACA
47449098 GGGACATGTA
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
38 34 0.45
40 40 0.53
42 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (38 bp):
GGTACCGAAGTACAAACAAGCACATATGTACAATCAGG
Found at i:47449091 original size:78 final size:79
Alignment explanation
Indices: 47448969--47449117 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 79
47448959 CAAGGTACCA
* * * ** *
47448969 AAGTACAAACAAGGGCACATATGTATACTCAAGGATACCGAAGTACAATTAGGGGCACGTATGTG
1 AAGTACAAACAA-GGCACATATGTACAATCAAGGATACCAAAGTACAAACAGGGACACGTATGTG
47449034 CAATCAGGGGTATCG
65 CAATCAGGGGTATCG
* * *
47449049 AAGTACAAACAA-GCACATATGTACAATCAGGGGTACCAAAGTACAAACAGGGACATGTATGTGC
1 AAGTACAAACAAGGCACATATGTACAATCAAGGATACCAAAGTACAAACAGGGACACGTATGTGC
47449113 AATCA
66 AATCA
47449118 TCAATAATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
78 48 0.80
80 12 0.20
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (79 bp):
AAGTACAAACAAGGCACATATGTACAATCAAGGATACCAAAGTACAAACAGGGACACGTATGTGC
AATCAGGGGTATCG
Found at i:47456654 original size:56 final size:51
Alignment explanation
Indices: 47456586--47456774 Score: 211
Period size: 50 Copynumber: 3.6 Consensus size: 51
47456576 ATGATATCCT
* **
47456586 ATGTAATACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGCTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATGAGAGCTCCC
*
47456642 ATGTAAGACCATGTCTGGGACATGGCATTGGC-ACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGCTCCC
* * * *
47456692 CTGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGCTCCC
* * * *
47456742 ATGTAAGGCCATATCTGGGATATGACATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
47456775 GTACAGTATA
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
50 82 0.70
52 1 0.01
53 3 0.03
56 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (51 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGCTCCC
Found at i:47461371 original size:41 final size:41
Alignment explanation
Indices: 47461326--47461408 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
47461316 TCATATAAGT
* *
47461326 AGCATTATGTAGCTACATTCTAACCCACAACCCGTGTGAGC
1 AGCATCATGTAGCTACATTCCAACCCACAACCCGTGTGAGC
* *
47461367 AGCATCATGTAGCTACATTCCAACCCACAGCTCGTGTGAGC
1 AGCATCATGTAGCTACATTCCAACCCACAACCCGTGTGAGC
47461408 A
1 A
47461409 TACCGATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (41 bp):
AGCATCATGTAGCTACATTCCAACCCACAACCCGTGTGAGC
Found at i:47461423 original size:25 final size:25
Alignment explanation
Indices: 47461393--47461486 Score: 107
Period size: 25 Copynumber: 3.8 Consensus size: 25
47461383 ATTCCAACCC
*
47461393 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACTGATTT
* * * * *
47461418 ATAGCTCATGAGAGCATACTAATCT
1 ACAGCTCGTGTGAGCATACTGATTT
* *
47461443 ACAGCTCGAGTGAGCATACTGATTC
1 ACAGCTCGTGTGAGCATACTGATTT
*
47461468 ACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATAC
47461487 ATGTACATGA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACTGATTT
Found at i:47463585 original size:13 final size:13
Alignment explanation
Indices: 47463567--47463591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47463557 AGGATGAGCA
47463567 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
47463580 TTTTTTTTCTTT
1 TTTTTTTTCTTT
47463592 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:47470528 original size:28 final size:28
Alignment explanation
Indices: 47470465--47470646 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
47470455 ATATTAAGTC
* *
47470465 CGCACACTCAGTGTTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47470492 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
47470520 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
47470548 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
47470576 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47470604 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47470633 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47470647 CAATCTCATG
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
27 21 0.15
28 103 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47474149 original size:5 final size:5
Alignment explanation
Indices: 47474139--47474164 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47474129 AGTTGAGAAA
47474139 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
47474165 CTTCTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:47481277 original size:20 final size:20
Alignment explanation
Indices: 47481254--47481314 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
47481244 AGTTTATCTG
47481254 CATTACTGGTGGCTTGTCCA
1 CATTACTGGTGGCTTGTCCA
** *
47481274 CATTACTGGCAGCTTGTCTA
1 CATTACTGGTGGCTTGTCCA
* *
47481294 CAATACTAGTGGCTTGTCCA
1 CATTACTGGTGGCTTGTCCA
47481314 C
1 C
47481315 TTTTATGGCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTACTGGTGGCTTGTCCA
Found at i:47481306 original size:40 final size:39
Alignment explanation
Indices: 47481247--47481355 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 39
47481237 TACTGGTAGT
* * *
47481247 TTATCTGCATTACTGGTGGCTTGTCCACATTACTGGCAGC
1 TTATCTACAATACTAGTGGCTTGTCCACATTA-TGGCAGC
* * *
47481287 TTGTCTACAATACTAGTGGCTTGTCCACTTTTATGGCAGT
1 TTATCTACAATACTAGTGGCTTGTCCAC-ATTATGGCAGC
* * * *
47481327 TTATCTTCATTACTCGTGGCTTATCCACA
1 TTATCTACAATACTAGTGGCTTGTCCACA
47481356 AACTGGTGTG
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
40 53 0.95
41 3 0.05
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (39 bp):
TTATCTACAATACTAGTGGCTTGTCCACATTATGGCAGC
Found at i:47481731 original size:21 final size:20
Alignment explanation
Indices: 47481694--47481732 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47481684 AGCTAAATTT
*
47481694 TAATAATTTTTCTTGGACCA
1 TAATAATTTTTATTGGACCA
47481714 TAATAATTTTTATATGGAC
1 TAATAATTTTTAT-TGGAC
47481733 TGTGGCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATAATTTTTATTGGACCA
Found at i:47486593 original size:21 final size:21
Alignment explanation
Indices: 47486564--47486622 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
47486554 GGAAGAATAT
*
47486564 GACACACGCCCATGTGAAGGC
1 GACAAACGCCCATGTGAAGGC
* * * *
47486585 TACAAACGCCCTTATGAAGGG
1 GACAAACGCCCATGTGAAGGC
*
47486606 GACAAACGCCCGTGTGA
1 GACAAACGCCCATGTGA
47486623 GCAGCTCGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.14
Consensus pattern (21 bp):
GACAAACGCCCATGTGAAGGC
Found at i:47486864 original size:30 final size:30
Alignment explanation
Indices: 47486829--47486911 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
47486819 TTCCCAATTT
*
47486829 CACACGGCCGTGTGAACCACCCGTGTGCGA
1 CACACGACCGTGTGAACCACCCGTGTGCGA
*
47486859 CACACGACCGTGTGAACCACCCATGTGCGA
1 CACACGACCGTGTGAACCACCCGTGTGCGA
* * *
47486889 CACATGCCCGTGTG-GCCACCCGT
1 CACACGACCGTGTGAACCACCCGT
47486912 ATGATCACGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 7 0.15
30 40 0.85
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (30 bp):
CACACGACCGTGTGAACCACCCGTGTGCGA
Found at i:47489896 original size:285 final size:285
Alignment explanation
Indices: 47489385--47489956 Score: 1065
Period size: 285 Copynumber: 2.0 Consensus size: 285
47489375 ACTATTTGCC
47489385 TGTTCAATAGATGAGTTATTTAATATCCTAGAATAAAAAAATCATTAAAAATCATTGTATAATTG
1 TGTTCAATAGATGAGTTATTTAATATCCTAGAATAAAAAAATCATTAAAAATCATTGTATAATTG
* *
47489450 CTATTTAAGAGTGTTCGTGATTTTTCTGTACATCCGTGACAACCTCACACTCGATTTGGTTCCTA
66 CCATTTAAGAGTGTTCATGATTTTTCTGTACATCCGTGACAACCT-ACACTCGATTTGGTTCCTA
*
47489515 ACAGAAAGCTTTATAATGGAACTTCAAAAAAAAAAAAACAGCACTACATCAAATTCACTAATTTT
130 AAAGAAAGCTTTATAATGGAACTTCAAAAAAAAAAAAACAGCACTACATCAAATTCACTAATTTT
* * *
47489580 ACAGATCTCTAGGGGTAGTCTATCAAATGAGGGGTTTGGGGAAAAATTTTGTACAACAATGTTGT
195 ACAGATCTCTAGGGCTAGGCTATCAAATGAGGGGTTTGGGGAAAAAATTTGTACAACAATGTTGT
47489645 TCCAAATCAATTTATTTTGTTTGGTT
260 TCCAAATCAATTTATTTTGTTTGGTT
47489671 TGTTCAATAGATGAGTTATTTAATATCCTAGAATAAAAAAATCATTAAAAATCATTTGTATAATT
1 TGTTCAATAGATGAGTTATTTAATATCCTAGAATAAAAAAATCATTAAAAATCA-TTGTATAATT
47489736 GCCATTTAAGAGTGTTCATGATTTTTCTGTACATCCGTGACAACCT-CACTCGATTTGGTTCCTA
65 GCCATTTAAGAGTGTTCATGATTTTTCTGTACATCCGTGACAACCTACACTCGATTTGGTTCCTA
47489800 AAAGAAAGCTTTATAATGGAACTTCAAAAAAAAAAAAACAGCACTACATCAAATTCACTAATTTT
130 AAAGAAAGCTTTATAATGGAACTTCAAAAAAAAAAAAACAGCACTACATCAAATTCACTAATTTT
47489865 ACAGATCTCTAGGGCTAGGCTATCAAATGAGGGGTTTGGGGAAAAAATTTGTACAACAATGTTGT
195 ACAGATCTCTAGGGCTAGGCTATCAAATGAGGGGTTTGGGGAAAAAATTTGTACAACAATGTTGT
47489930 TCCAAATCAATTTATTTTGTTTGGTT
260 TCCAAATCAATTTATTTTGTTTGGTT
47489956 T
1 T
47489957 TGGCTTTGGC
Statistics
Matches: 279, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
285 171 0.61
286 54 0.19
287 54 0.19
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (285 bp):
TGTTCAATAGATGAGTTATTTAATATCCTAGAATAAAAAAATCATTAAAAATCATTGTATAATTG
CCATTTAAGAGTGTTCATGATTTTTCTGTACATCCGTGACAACCTACACTCGATTTGGTTCCTAA
AAGAAAGCTTTATAATGGAACTTCAAAAAAAAAAAAACAGCACTACATCAAATTCACTAATTTTA
CAGATCTCTAGGGCTAGGCTATCAAATGAGGGGTTTGGGGAAAAAATTTGTACAACAATGTTGTT
CCAAATCAATTTATTTTGTTTGGTT
Found at i:47496959 original size:19 final size:19
Alignment explanation
Indices: 47496931--47496968 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47496921 GGGATATATT
*
47496931 TTTAGGTAGATAAATCTTA
1 TTTAGATAGATAAATCTTA
47496950 TTTAGATAGATAAATCTTA
1 TTTAGATAGATAAATCTTA
47496969 GAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TTTAGATAGATAAATCTTA
Found at i:47497038 original size:41 final size:41
Alignment explanation
Indices: 47496993--47497087 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
47496983 AGATATTCTA
*
47496993 GGAA-TATTTTATTTTATCTTTTAGTAATTTATTAGAATAAG
1 GGAATTATTTT-TCTTATCTTTTAGTAATTTATTAGAATAAG
* *
47497034 GGAATTATTTTTCTTATGTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTTCTTATCTTTTAGTAATTTATTAGAATAAG
47497075 GGAATTATTTTTC
1 GGAATTATTTTTC
47497088 CAATTAGGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 44 0.88
42 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.52
Consensus pattern (41 bp):
GGAATTATTTTTCTTATCTTTTAGTAATTTATTAGAATAAG
Found at i:47504533 original size:25 final size:25
Alignment explanation
Indices: 47504505--47504556 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
47504495 TTTGGCTTGA
**
47504505 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
47504530 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
47504555 CA
1 CA
47504557 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:47505825 original size:11 final size:11
Alignment explanation
Indices: 47505809--47505833 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47505799 TTCAGCTGAT
47505809 GAAAATGAAGA
1 GAAAATGAAGA
47505820 GAAAATGAAGA
1 GAAAATGAAGA
47505831 GAA
1 GAA
47505834 TTCTAGATAT
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:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:47509412 original size:6 final size:6
Alignment explanation
Indices: 47509359--47509411 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
47509349 ATATCCAATA
* * *
47509359 ATTAGA ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT GTTAGA
1 ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT
47509407 ATTAG
1 ATTAG
47509412 ATTTATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (6 bp):
ATTAGT
Found at i:47509682 original size:32 final size:32
Alignment explanation
Indices: 47509644--47509705 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
47509634 GTCTAGCATT
*
47509644 ATTCAAAAATTCAATATATATAATTCTAAAGC
1 ATTCAAAAATTCAATATATATAATTATAAAGC
*
47509676 ATTCAAAAATTCAGTATATATAATTATAAA
1 ATTCAAAAATTCAATATATATAATTATAAA
47509706 AATAACAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (32 bp):
ATTCAAAAATTCAATATATATAATTATAAAGC
Found at i:47527718 original size:39 final size:39
Alignment explanation
Indices: 47527667--47527885 Score: 384
Period size: 39 Copynumber: 5.6 Consensus size: 39
47527657 AATTATATTA
* * *
47527667 CCAGCACAAAGCCTGCGGGACTTTAGCTCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
47527706 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
47527745 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
47527784 CCACCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
47527823 CCAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
47527862 CCAGCACGAAGCCTGCGGGACTTT
1 CCAGCACGAAGCCTGCGGGACTTT
47527886 NNNNNNNNNN
Statistics
Matches: 173, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 173 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:47528770 original size:51 final size:51
Alignment explanation
Indices: 47528711--47528812 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
47528701 TATATACACA
*
47528711 AATGCCAAACCAAATATCATCCACTATCTTATAAATGGGCTATTTACCATT
1 AATGCCAAACCAAATATCATCCACTATCTTATAAATGGGCCATTTACCATT
47528762 AATGCCAAACCAAATATCATCCACTATCTTATAAATGGGCCATTTACCATT
1 AATGCCAAACCAAATATCATCCACTATCTTATAAATGGGCCATTTACCATT
47528813 TAAGGCCATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (51 bp):
AATGCCAAACCAAATATCATCCACTATCTTATAAATGGGCCATTTACCATT
Found at i:47532387 original size:50 final size:50
Alignment explanation
Indices: 47532326--47532754 Score: 248
Period size: 50 Copynumber: 8.9 Consensus size: 50
47532316 CCATCAAAGT
* * * *
47532326 CGATGCGATGTCCCAAACATGGTCTTACA-TTGACTCTCGTATGTCGAG-GC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCATATATCG-GTGC
* * *
47532376 CGATGCCATGTCCCAAACATTGTCTTACACTAGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
* * ** * **
47532426 CGATGCCATGTCCCAGACATGGT-TT-TAC--GCTAACACATATC-AAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
* * * * * *
47532471 CGATGCCATGTCCTAGACATGGTCTTACGCTAGTTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
* * * * * *
47532521 CGATGTCATATCCCAGACATGGTCTTACACT-G---ACACATATCAAGT--
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATC-GGTGC
* * * * *
47532566 CGATGCCATATCCCAGACATGGTCTTTCACTAGCTCTCATTTATCGCTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
* * * * * * **
47532616 CAATGTCATATTCCAAACATGGTCTTACACT-G---ACACATATC-AAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
* * * * * **
47532661 CGATGCCATGTCCTAGACATGATCTTACAC-GGCTCTCATATTTCGAAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
* * * *
47532710 TGTTGCCATGTCCCAGACATGGTCTTACATTAGCTCTCATATATC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATC
47532755 CCTAGCATCA
Statistics
Matches: 289, Mismatches: 70, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
45 78 0.27
46 24 0.08
47 3 0.01
48 9 0.03
49 48 0.17
50 125 0.43
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (50 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGGTGC
Found at i:47532490 original size:45 final size:45
Alignment explanation
Indices: 47532426--47532737 Score: 192
Period size: 45 Copynumber: 6.6 Consensus size: 45
47532416 CTATCGGTGT
*
47532426 CGATGCCATGTCCCAGACATGGTTTTACGCTAACACATATCAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACGCTAACACATATCAAGC
* * * ** *
47532471 CGATGCCATGTCCTAGACATGGTCTTACGCTAGTTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACGCTA--ACACA--TATC-AAGC
* * * * *
47532521 CGATGTCATATCCCAGACATGGTCTTACACTGACACATATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACGCTAACACATATCAAGC
* ** ** **
47532566 CGATGCCATATCCCAGACATGGTCTTTCACTAGCTCTCATTTATCGCTGC
1 CGATGCCATGTCCCAGACATGGTC-TT-AC--GCTAACACATATC-AAGC
* * * * * * *
47532616 CAATGTCATATTCCAAACATGGTCTTACACTGACACATATCAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACGCTAACACATATCAAGC
* * ** * *
47532661 CGATGCCATGTCCTAGACATGATCTTACACGGCTCTCATATTTCGAAGC
1 CGATGCCATGTCCCAGACATGGTCTT--AC-GCTAACACATATC-AAGC
* *
47532710 TGTTGCCATGTCCCAGACATGGTCTTAC
1 CGATGCCATGTCCCAGACATGGTCTTAC
47532738 ATTAGCTCTC
Statistics
Matches: 201, Mismatches: 52, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
45 76 0.38
46 14 0.07
47 9 0.04
48 13 0.06
49 40 0.20
50 49 0.24
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (45 bp):
CGATGCCATGTCCCAGACATGGTCTTACGCTAACACATATCAAGC
Found at i:47532496 original size:95 final size:95
Alignment explanation
Indices: 47532374--47532738 Score: 446
Period size: 95 Copynumber: 3.9 Consensus size: 95
47532364 GTATGTCGAG
* * *
47532374 GCCGATGCCATGTCCCAAACATTGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCATATCC
* * *
47532439 CAGACATGGTTTTACGCTAACACATATCAA
66 CAGACATGGTCTTACACTGACACATATCAA
* * * *
47532469 GCCGATGCCATGTCCTAGACATGGTCTTACGCTAGTTCTCATCTATCGGTGTCGATGTCATATCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCATATCC
47532534 CAGACATGGTCTTACACTGACACATATCAA
66 CAGACATGGTCTTACACTGACACATATCAA
* * * * * * * * *
47532564 GTCGATGCCATATCCCAGACATGGTCTTTCACTAGCTCTCATTTATCGCTGCCAATGTCATATTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCATATCC
*
47532629 CAAACATGGTCTTACACTGACACATATCAA
66 CAGACATGGTCTTACACTGACACATATCAA
* * * * * ** * *
47532659 GCCGATGCCATGTCCTAGACATGATCTTACAC-GGCTCTCATATTTCGAAG-CTGTTGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTGTC-GATGCCATATC
47532722 CCAGACATGGTCTTACA
65 CCAGACATGGTCTTACA
47532739 TTAGCTCTCA
Statistics
Matches: 231, Mismatches: 38, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
93 1 0.00
94 35 0.15
95 195 0.84
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCATATCC
CAGACATGGTCTTACACTGACACATATCAA
Found at i:47536879 original size:81 final size:81
Alignment explanation
Indices: 47536744--47536988 Score: 481
Period size: 81 Copynumber: 3.0 Consensus size: 81
47536734 GACAAAAAAG
*
47536744 GGTTTGACTTATTTGGAAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
1 GGTTTGACTTATTTGGCAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
47536809 AGGCATGAGAGGAGGA
66 AGGCATGAGAGGAGGA
47536825 GGTTTGACTTATTTGGCAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
1 GGTTTGACTTATTTGGCAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
47536890 AGGCATGAGAGGAGGA
66 AGGCATGAGAGGAGGA
47536906 GGTTTGACTTATTTGGCAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
1 GGTTTGACTTATTTGGCAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
47536971 AGGCATGAGAGGAGGA
66 AGGCATGAGAGGAGGA
47536987 GG
1 GG
47536989 ATAGTAATAG
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 163 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.37
Consensus pattern (81 bp):
GGTTTGACTTATTTGGCAAATAATTAAATTGTATTTGTGGTAGTTTTAGGTATGAGCTTAGGGTT
AGGCATGAGAGGAGGA
Found at i:47538802 original size:14 final size:15
Alignment explanation
Indices: 47538769--47538804 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
47538759 ATAAAGAAAA
*
47538769 AAAAATGAATATTGT
1 AAAAATAAATATTGT
*
47538784 AAAAATAAATGTTGT
1 AAAAATAAATATTGT
47538799 AAAAAT
1 AAAAAT
47538805 CTTGATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (15 bp):
AAAAATAAATATTGT
Found at i:47544652 original size:77 final size:75
Alignment explanation
Indices: 47544525--47544678 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 75
47544515 GAAAGAAAAT
47544525 TAGGCTTAAGAGTAATTTGAAGATTCGCTCTTAGAGGAGTTATGTACTTTGTTATTCAAAAAAAA
1 TAGGCTTAAGAGTAATTTGAAGATTCGCTCTTAGAGGAGTTATGTACTTTGTTATTC--AAAAAA
47544590 AAAAAAGCTTTA
64 AAAAAAGCTTTA
47544602 TAGGCTTAAGAGTAATTTGAAGATTCGCTCTTAGAGGAGTTATGTACTTTGTTATTCAAAAAAAA
1 TAGGCTTAAGAGTAATTTGAAGATTCGCTCTTAGAGGAGTTATGTACTTTGTTATTCAAAAAAAA
47544667 AAAAGCTTTA
66 AAAAGCTTTA
47544677 TA
1 TA
47544679 TTTATTAATA
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
75 20 0.26
77 57 0.74
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (75 bp):
TAGGCTTAAGAGTAATTTGAAGATTCGCTCTTAGAGGAGTTATGTACTTTGTTATTCAAAAAAAA
AAAAGCTTTA
Found at i:47547888 original size:17 final size:17
Alignment explanation
Indices: 47547868--47547921 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
47547858 TTTTATGAAT
47547868 TTTTATATTTTAAATTA
1 TTTTATATTTTAAATTA
47547885 TTTTAT-TCTTTAAA-TA
1 TTTTATAT-TTTAAATTA
47547901 TTTTTATATTTATTAAATTA
1 -TTTTATA-TT-TTAAATTA
47547921 T
1 T
47547922 ATATCAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.10
17 18 0.58
18 1 0.03
19 7 0.23
20 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATATTTTAAATTA
Found at i:47549689 original size:11 final size:11
Alignment explanation
Indices: 47549673--47549698 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47549663 TCATTCTTTA
47549673 ATTTCTTTTTG
1 ATTTCTTTTTG
47549684 ATTTCTTTTTG
1 ATTTCTTTTTG
47549695 ATTT
1 ATTT
47549699 TTGTTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (11 bp):
ATTTCTTTTTG
Found at i:47555532 original size:14 final size:14
Alignment explanation
Indices: 47555513--47555542 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47555503 AAAGAAATTT
*
47555513 TTCTTCTAGTGAAA
1 TTCTTCTAATGAAA
47555527 TTCTTCTAATGAAA
1 TTCTTCTAATGAAA
47555541 TT
1 TT
47555543 GAATTAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (14 bp):
TTCTTCTAATGAAA
Found at i:47564046 original size:89 final size:91
Alignment explanation
Indices: 47563878--47564117 Score: 211
Period size: 89 Copynumber: 2.6 Consensus size: 91
47563868 GTGGCAGCGA
* * * * * *
47563878 AATAGATTGAAGAATAGCAAACCTTATCTCCCTGAAGTTGCGGTGGAGCAGGTTAAAAATACAAG
1 AATAGACTGAAG-ATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAAATACAAG
* **
47563943 TCTTATTTCCCTGAAGTTGTAGT-GG-
65 TCTTATTACCCTGAAGTTACAGTGGGC
*** *
47563968 AATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAAGT
1 AATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAAATACAAGT
47564033 -TCTA-TACCTCTGAAGTTACAGTGGGTC
66 CT-TATTACC-CTGAAGTTACAGTGGG-C
* ** * * *
47564060 AGATCAAATCT-ACCATGGCAAATCTTATCTCTTTGAAGTTGCAGTATAGCAGATTAAA
1 A-AT-AGA-CTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
47564118 GCCATTAACA
Statistics
Matches: 122, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
88 4 0.03
89 57 0.47
90 13 0.11
92 1 0.01
93 2 0.02
94 43 0.35
95 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (91 bp):
AATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAAATACAAGT
CTTATTACCCTGAAGTTACAGTGGGC
Found at i:47564209 original size:228 final size:226
Alignment explanation
Indices: 47563894--47564411 Score: 674
Period size: 228 Copynumber: 2.3 Consensus size: 226
47563884 TTGAAGAATA
* * * * * *
47563894 GCAAACCTTATCTCCCTGAAGTTGCGGTGGAGCAGGTTAAAAATA-CAAGTCTTATT-TCCCTGA
1 GCAAACATTATCTCCCTGAAGATGCAGTGGAGCA-GTTGAAATTACCAAGTCTT-TTCTCCTTGA
47563957 AGTTGTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
64 AGTTGTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
* * *
47564022 AGGCTATAAGTTCTATACCTCTGAAGTTACAGTGGGTCAGATCAAATCTACCATGGCAAATCTTA
129 AGGCTATAAATCCTATACCTCTGAAGTTACAGTAGGTCAGATCAAAT-TACCATGGCAAATCTTA
* * *
47564087 TCTCTTTGAAGTTGCAGTATAGCAGATTAAAG-C
193 ACTCCTTGAAGTTGCAGTAGAGCAGATTAAAGTC
* *
47564120 -CATTAACATTATCTCCCTGAAGATACAGTGGAGCAGTTCGAAATTACCAAGCCTTTTCTCCTTG
1 GCA--AACATTATCTCCCTGAAGATGCAGTGGAGCAGTT-GAAATTACCAAGTCTTTTCTCCTTG
*
47564184 AAGTTAG-AGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAT
63 AAGTT-GTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
* * * **
47564248 TAAGGCTATAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAGTTACCATGGTGAATCTT
127 TAAGGCTATAAATCCTATACCTCTGAAGTTACAGTAGGTCAGATCAAATTACCATGGCAAATCTT
* * *
47564313 AACTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTC
192 AACTCCTTGAAGTTGCAGTAGAGCAGATTAAAGTC
* * * *
47564348 GCAAACCTCATCTCCCTGAAGATGCAGT-GAG--GTTGAAATTACCAAGTCTTATCTCTTTGAAG
1 GCAAACATTATCTCCCTGAAGATGCAGTGGAGCAGTTGAAATTACCAAGTCTTTTCTCCTTGAAG
47564410 TT
66 TT
47564412 CCAGCGAAGT
Statistics
Matches: 255, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
223 27 0.11
224 3 0.01
225 2 0.01
226 6 0.02
227 97 0.38
228 117 0.46
229 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (226 bp):
GCAAACATTATCTCCCTGAAGATGCAGTGGAGCAGTTGAAATTACCAAGTCTTTTCTCCTTGAAG
TTGTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAG
GCTATAAATCCTATACCTCTGAAGTTACAGTAGGTCAGATCAAATTACCATGGCAAATCTTAACT
CCTTGAAGTTGCAGTAGAGCAGATTAAAGTC
Found at i:47569049 original size:21 final size:21
Alignment explanation
Indices: 47569025--47569077 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
47569015 AAAAATAATA
*
47569025 AAAAGGAAAAAAAATTAAAAT
1 AAAAGGAAAAAAAAGTAAAAT
*
47569046 AAAAGGAAACAAAAGGTAAAAT
1 AAAAGGAAA-AAAAAGTAAAAT
*
47569068 AAAATGAAAA
1 AAAAGGAAAA
47569078 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.74, C:0.02, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAAGGAAAAAAAAGTAAAAT
Found at i:47569144 original size:10 final size:10
Alignment explanation
Indices: 47569129--47569161 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
47569119 AAATACGAAG
47569129 AAAGAAAAAT
1 AAAGAAAAAT
47569139 AAAGAAAAAT
1 AAAGAAAAAT
*
47569149 AAAGGAAAAT
1 AAAGAAAAAT
47569159 AAA
1 AAA
47569162 ATAAAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (10 bp):
AAAGAAAAAT
Found at i:47570188 original size:37 final size:37
Alignment explanation
Indices: 47570145--47570220 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
47570135 ACAAAATAAG
*
47570145 TTATATTATTATGAATATACTTTTATCTTTTTTATAT
1 TTATATTATTATGAATATACTTTTATCTTTTATATAT
47570182 TTATATTATTATGAATATACTTTTATCTTTTATATAT
1 TTATATTATTATGAATATACTTTTATCTTTTATATAT
47570219 TT
1 TT
47570221 TTAATAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (37 bp):
TTATATTATTATGAATATACTTTTATCTTTTATATAT
Found at i:47570216 original size:17 final size:17
Alignment explanation
Indices: 47570159--47570223 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
47570149 ATTATTATGA
47570159 ATATACTTTTATCTTTT
1 ATATACTTTTATCTTTT
*
47570176 TTATA-TTTATAT-TATTAT
1 ATATACTTT-TATCT-TT-T
47570194 GAATATACTTTTATCTTTT
1 --ATATACTTTTATCTTTT
*
47570213 ATATATTTTTA
1 ATATACTTTTA
47570224 ATAAAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
18 1 0.03
19 1 0.03
20 9 0.24
21 4 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATACTTTTATCTTTT
Found at i:47573461 original size:13 final size:13
Alignment explanation
Indices: 47573445--47573474 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47573435 AGTGCTGCAA
47573445 AAAAATGCTTATG
1 AAAAATGCTTATG
*
47573458 AAAAATGCTTTTG
1 AAAAATGCTTATG
47573471 AAAA
1 AAAA
47573475 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:47575073 original size:16 final size:18
Alignment explanation
Indices: 47575036--47575070 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47575026 AATACTAAGA
47575036 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
47575053 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
47575071 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:47575082 original size:16 final size:17
Alignment explanation
Indices: 47575043--47575088 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
47575033 AGAATTTTAT
* *
47575043 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
47575061 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
47575078 T-AATTAT-TTTA
1 TAAATTATATTTA
47575089 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:47575084 original size:26 final size:25
Alignment explanation
Indices: 47575055--47575232 Score: 77
Period size: 26 Copynumber: 7.2 Consensus size: 25
47575045 AATTATATAT
47575055 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
47575081 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
*
47575106 TTATA-T--ATTATGATTTTAGTAA-A
1 TTATATTAAATTAT-A-TTTAATAATA
* *
47575129 TTCATA-TAAGAATAT-TTTAATATTA
1 TT-ATATTAA-ATTATATTTAATAATA
** ** * * *
47575154 AGA-ATTTTATTA-AATT-ATATTT
1 TTATATTAAATTATATTTAATAATA
*
47575176 TTTTATTAAATTATATTTAATAATTA
1 TTATATTAAATTATATTTAATAA-TA
* * *
47575202 TTATTTTAAATTATATTTTATACTA
1 TTATATTAAATTATATTTAATAATA
47575227 TTATAT
1 TTATAT
47575233 ATTATAATTT
Statistics
Matches: 108, Mismatches: 31, Indels: 27
0.65 0.19 0.16
Matches are distributed among these distances:
22 10 0.09
23 17 0.16
24 21 0.19
25 16 0.15
26 40 0.37
27 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:47575179 original size:18 final size:18
Alignment explanation
Indices: 47575158--47575193 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47575148 ATATTAAGAA
47575158 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
47575176 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
47575194 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:47575200 original size:13 final size:13
Alignment explanation
Indices: 47575184--47575241 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
47575174 TTTTTTATTA
*
47575184 AATTATATTTAAT
1 AATTATATTTTAT
47575197 AATTATTATTTTA-
1 AATTA-TATTTTAT
47575210 AATTATATTTTAT
1 AATTATATTTTAT
*
47575223 ACTATTATATATTAT
1 A--ATTATATTTTAT
47575238 AATT
1 AATT
47575242 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:47575201 original size:18 final size:18
Alignment explanation
Indices: 47575162--47575201 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47575152 TAAGAATTTT
** *
47575162 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
47575180 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
47575198 ATTA
1 ATTA
47575202 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:47575217 original size:121 final size:120
Alignment explanation
Indices: 47574959--47575266 Score: 528
Period size: 121 Copynumber: 2.6 Consensus size: 120
47574949 CCACAAAATC
*
47574959 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
47575024 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
47575079 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* * *
47575144 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
65 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
* * * *
47575200 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAAT-T
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
47575264 TTA
66 TTA
47575267 TTAAATTATA
Statistics
Matches: 179, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 4 0.02
120 63 0.35
121 112 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:47575533 original size:45 final size:44
Alignment explanation
Indices: 47575447--47575537 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
47575437 ACCTCTATTC
* *
47575447 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
47575491 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
47575536 CA
1 CA
47575538 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:47575537 original size:16 final size:16
Alignment explanation
Indices: 47575516--47575585 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
47575506 TTGATTTGCT
47575516 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
47575532 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
47575548 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
47575564 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
47575580 AATACA
1 ATTACA
47575586 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:47576484 original size:61 final size:61
Alignment explanation
Indices: 47576432--47576619 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
47576422 TTATAGTATT
47576432 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
47576493 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-TATTTTA-TAGTAT
1 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTT-AATATTAAGAATTTTATTA-AAT
47576551 C
61 C
* * * * *
47576552 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
47576613 ATATATT
1 ATATATT
47576620 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
58 10 0.11
59 30 0.32
60 8 0.09
61 35 0.37
62 11 0.12
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:47576553 original size:59 final size:58
Alignment explanation
Indices: 47576373--47576558 Score: 146
Period size: 59 Copynumber: 3.1 Consensus size: 58
47576363 ATGATAAATT
* ** * *
47576373 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
47576432 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
47576493 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
47576552 ATATATT
1 ATATATT
47576559 ATGATTTGAG
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
58 12 0.13
59 36 0.38
60 7 0.07
61 28 0.30
62 11 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:47576580 original size:120 final size:120
Alignment explanation
Indices: 47576367--47576656 Score: 449
Period size: 120 Copynumber: 2.4 Consensus size: 120
47576357 AGTATGATGA
* ** * *
47576367 TAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 TAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTTAAATTATATTTTATAGTATC
* *
47576432 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
*
47576487 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTAT
1 TAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTT-AAATTATATTTTATAGTAT
* *
47576551 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
65 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
47576607 TAAATTATATATTTTAATTAAAATATATTTAAT-TATAATTATGTTTAAAT
1 TAAATTATATATTTTAATTAAAATATATTTAATAT-TAATTATG-TTAAAT
47576657 ATGATTAAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
119 3 0.02
120 146 0.94
121 4 0.03
122 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATATTAATTATGTTAAATTATATTTTATAGTATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:47576616 original size:59 final size:59
Alignment explanation
Indices: 47576433--47576616 Score: 139
Period size: 59 Copynumber: 3.1 Consensus size: 59
47576423 TATAGTATTA
* *
47576433 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * * ** * *
47576492 CATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTCAAATTATATTTTA-TAGTAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTA-TT--AA-GA-ATTTTATTA-AAT
* *
47576551 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
47576612 TATAT
1 TATAT
47576617 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
53 4 0.04
54 6 0.07
55 6 0.07
56 8 0.09
57 2 0.02
58 6 0.07
59 16 0.17
61 11 0.12
62 6 0.07
63 2 0.02
64 9 0.10
65 6 0.07
66 10 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:47576628 original size:18 final size:18
Alignment explanation
Indices: 47576600--47576648 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
47576590 ATTATTAAGA
47576600 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
47576617 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
47576633 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
47576649 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:47576634 original size:16 final size:16
Alignment explanation
Indices: 47576600--47576654 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
47576590 ATTATTAAGA
47576600 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
47576617 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
47576633 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
47576647 ATGTTTAA
1 AT-TTTAA
47576655 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:47576864 original size:44 final size:45
Alignment explanation
Indices: 47576799--47576889 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47576789 ACATTTATTC
* * *
47576799 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
47576843 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
47576888 CA
1 CA
47576890 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:47576891 original size:16 final size:16
Alignment explanation
Indices: 47576870--47576907 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
47576860 GATTAGCTAT
47576870 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47576886 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47576902 TACACC
1 TACACC
47576908 GAACCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47596579 original size:57 final size:57
Alignment explanation
Indices: 47596488--47596617 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 57
47596478 ATAAATTTAT
*
47596488 TTTTCATTTTCATTTTGTAGAAAACCATATTCATTTCCAAAT-TATTCCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATATTCATTTCCAAATGT-TTCCATTTCTCCA
* *
47596545 TTTTCATTTTCATTTTGGAGAAAACCATGA-TCATTTTCAAATGTTTTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCAT-ATTCATTTCCAAATGTTTCCATTTCTCCA
* *
47596602 TTCTCATTTTTATTTT
1 TTTTCATTTTCATTTT
47596618 CATTTTCATT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 64 0.97
58 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.51
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAACCATATTCATTTCCAAATGTTTCCATTTCTCCA
Found at i:47596616 original size:6 final size:6
Alignment explanation
Indices: 47596588--47596635 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
47596578 TTTTCAAATG
* *
47596588 TTTTCA TTTCTCCA TTCTCA TTTTTA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTT-T-CA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
47596636 GGATAAAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 30 0.83
7 2 0.06
8 4 0.11
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:47598934 original size:30 final size:30
Alignment explanation
Indices: 47598898--47598959 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
47598888 TTATCTATAA
*
47598898 AATAGGGAATGAACACACAAAGAAAGCTTT
1 AATAGGGAAAGAACACACAAAGAAAGCTTT
*
47598928 AATAGGGAAAGAACACACAAAGTAAGCTTT
1 AATAGGGAAAGAACACACAAAGAAAGCTTT
47598958 AA
1 AA
47598960 AAAGCTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (30 bp):
AATAGGGAAAGAACACACAAAGAAAGCTTT
Found at i:47599376 original size:43 final size:43
Alignment explanation
Indices: 47599313--47599402 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
47599303 TTTTACTCGA
* ** *
47599313 AATCAAATAACGATGTCAATGTCCTTGACATGGTCTTACACAT
1 AATCAAATAACGATGCCAATGTCCCAGACATGGTCTCACACAT
* * *
47599356 AATCATATAATGATGCCAATGTCCCAGACATGGTCTCATACAT
1 AATCAAATAACGATGCCAATGTCCCAGACATGGTCTCACACAT
47599399 AATC
1 AATC
47599403 TTGTTAATCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (43 bp):
AATCAAATAACGATGCCAATGTCCCAGACATGGTCTCACACAT
Found at i:47604775 original size:10 final size:10
Alignment explanation
Indices: 47604758--47604833 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
47604748 ACTTTTCTTA
47604758 ATTT-TTATT
1 ATTTATTATT
47604767 ATTTATTATTTT
1 ATTTATTA--TT
47604779 ATTTCATT-TT
1 ATTT-ATTATT
*
47604789 A-TTAGTATT
1 ATTTATTATT
47604798 -TTTATT-TT
1 ATTTATTATT
47604806 ATCTTATT-TT
1 AT-TTATTATT
47604816 A-TT-TTATT
1 ATTTATTATT
47604824 ATTTATTATT
1 ATTTATTATT
47604834 TTATCTTTGG
Statistics
Matches: 54, Mismatches: 2, Indels: 21
0.70 0.03 0.27
Matches are distributed among these distances:
7 2 0.04
8 9 0.17
9 15 0.28
10 19 0.35
12 6 0.11
13 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (10 bp):
ATTTATTATT
Found at i:47604778 original size:15 final size:15
Alignment explanation
Indices: 47604760--47604837 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
47604750 TTTTCTTAAT
47604760 TTTTATTATTTATTA
1 TTTTATTATTTATTA
*
47604775 TTTTA-T-TTCATT-
1 TTTTATTATTTATTA
*
47604787 TTATTAGTATTT-TTA
1 TT-TTATTATTTATTA
47604802 TTTTATCT-TATT-TTA
1 TTTTAT-TAT-TTATTA
47604817 TTTTATTATTTATTA
1 TTTTATTATTTATTA
47604832 TTTTAT
1 TTTTAT
47604838 CTTTGGATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
12 2 0.04
13 8 0.15
14 11 0.21
15 31 0.60
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTATTATTTATTA
Found at i:47604782 original size:5 final size:5
Alignment explanation
Indices: 47604772--47604837 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
47604762 TTATTATTTA
* * *
47604772 TTATT TTATT TCATT TTATT AGTATTT TTATT TTATC TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT -TTA-TT TTATT TTATT TTATT TTATT TTATT
*
47604824 ATT-TA TTATT TTAT
1 -TTATT TTATT TTAT
47604838 CTTTGGATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
4 2 0.04
5 39 0.80
6 6 0.12
7 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:47604806 original size:27 final size:29
Alignment explanation
Indices: 47604761--47604840 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 29
47604751 TTTCTTAATT
*
47604761 TTTATTATTTATTATTTTAT-TTCATTTTA
1 TTTAGTATTTATTATTTTATCTT-ATTTTA
47604790 -TTAGTATTT-TTATTTTATCTTATTTTA
1 TTTAGTATTTATTATTTTATCTTATTTTA
*
47604817 TTTTATTATTTATTATTTTATCTT
1 -TTTAGTATTTATTATTTTATCTT
47604841 TGGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 15 0.33
28 10 0.22
29 8 0.18
30 12 0.27
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (29 bp):
TTTAGTATTTATTATTTTATCTTATTTTA
Found at i:47606826 original size:10 final size:10
Alignment explanation
Indices: 47606811--47606870 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
47606801 TAAATTTAGG
*
47606811 ATTTATTTTT
1 ATTTATCTTT
47606821 ATTTATCTTT
1 ATTTATCTTT
*
47606831 AATTATCTTT
1 ATTTATCTTT
*
47606841 AATTATCTTT
1 ATTTATCTTT
47606851 ATTTAT-TTGT
1 ATTTATCTT-T
47606861 ATTTATCTTT
1 ATTTATCTTT
47606871 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:47608256 original size:15 final size:15
Alignment explanation
Indices: 47608236--47608287 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
47608226 ACGATAAAAC
47608236 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
47608251 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
47608270 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
47608285 ATT
1 ATT
47608288 AATAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:47612267 original size:22 final size:23
Alignment explanation
Indices: 47612220--47612270 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
47612210 AGGGGGGAAA
* *
47612220 GAAATAGATAATGAGAAAAGGGT
1 GAAATAGATAATGAGAAAACGCT
47612243 GAAATAGATAATG-GAAAACGCT
1 GAAATAGATAATGAGAAAACGCT
47612265 GAAATA
1 GAAATA
47612271 AAAAAGCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.53, C:0.04, G:0.25, T:0.18
Consensus pattern (23 bp):
GAAATAGATAATGAGAAAACGCT
Found at i:47614827 original size:16 final size:15
Alignment explanation
Indices: 47614781--47614823 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
47614771 CTTTCCCCCT
*
47614781 TTTTTTTCTC-TCTC
1 TTTTTCTCTCTTCTC
47614795 TTTTTCTCTCTT-TC
1 TTTTTCTCTCTTCTC
47614809 TTTTTCTCTCTTCTC
1 TTTTTCTCTCTTCTC
47614824 CTTTAAATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 23 0.88
15 3 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTCTCTCTTCTC
Done.