Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 71 of 328
Found at i:19409193 original size:18 final size:19
Alignment explanation
Indices: 19409165--19409200 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19409155 GGTAAAAACC
19409165 AAATAAAATAAAATAATAA
1 AAATAAAATAAAATAATAA
19409184 AAAT-AAATAAAATAATA
1 AAATAAAATAAAATAATA
19409201 GAACGTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAATAAAATAATAA
Found at i:19409322 original size:3 final size:3
Alignment explanation
Indices: 19409248--19409306 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
19409238 TAAAATGGTT
* * *
19409248 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
19409296 TGA TAA TAA TA
1 TAA TAA TAA TA
19409307 TTAGTATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19413876 original size:105 final size:104
Alignment explanation
Indices: 19413663--19413888 Score: 308
Period size: 105 Copynumber: 2.2 Consensus size: 104
19413653 GGACACAGAT
* *
19413663 GTGTGTCTAGGCCGTGTAACTCACTGTTTGTGATTTAAAACCACATGGACAAGGACATAGGCGTG
1 GTGTGTCTAGGCCGTGTAACTCACTGTTTATGATTTAAAACCACACGGACAAGGACATAGGCGTG
* * * *
19413728 TGCCCAGGCCGTGTGAGTCACACGGGCAGGGACACAGGC
66 TGCCCAGGCCGTATGAGCCACACGGGCAAGAACACAGGC
* * * *
19413767 GTGTGTTTAGGCCGTGTAACTCACTGTTTATGCTTTAAAGCTACACGGACAGAGGACATAGGCGT
1 GTGTGTCTAGGCCGTGTAACTCACTGTTTATGATTTAAAACCACACGGACA-AGGACATAGGCGT
* * **
19413832 GTGCCTAGGCTGTATGAGCCACACGGGCAAGAACATGGGC
65 GTGCCCAGGCCGTATGAGCCACACGGGCAAGAACACAGGC
*
19413872 GTGTGTCTAAGCCGTGT
1 GTGTGTCTAGGCCGTGT
19413889 GACATATAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
104 45 0.43
105 60 0.57
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (104 bp):
GTGTGTCTAGGCCGTGTAACTCACTGTTTATGATTTAAAACCACACGGACAAGGACATAGGCGTG
TGCCCAGGCCGTATGAGCCACACGGGCAAGAACACAGGC
Found at i:19417763 original size:18 final size:18
Alignment explanation
Indices: 19417714--19417770 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
19417704 TACGATCGTT
*
19417714 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
** *
19417732 TACGACACTATTCATGTA
1 TACGGTACTATTCACGTA
*
19417750 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
19417768 TAC
1 TAC
19417771 AGTAGTTGGG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:19421836 original size:11 final size:11
Alignment explanation
Indices: 19421816--19421859 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
19421806 TTAGAATATA
*
19421816 CCCATTCCTTG
1 CCCATACCTTG
19421827 CCCATACCTTG
1 CCCATACCTTG
*
19421838 CCCATACCTTT
1 CCCATACCTTG
19421849 CCCATACCTTG
1 CCCATACCTTG
19421860 GAAAGGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.16, C:0.45, G:0.07, T:0.32
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:19422735 original size:12 final size:12
Alignment explanation
Indices: 19422718--19422742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19422708 GCATAATACC
19422718 ATTTGCATTTGT
1 ATTTGCATTTGT
19422730 ATTTGCATTTGT
1 ATTTGCATTTGT
19422742 A
1 A
19422743 ATTGGGACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
ATTTGCATTTGT
Found at i:19422959 original size:24 final size:23
Alignment explanation
Indices: 19422900--19422982 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
19422890 CCAACTTTGG
*
19422900 CCCATTTACATTAAACCCTAAAA
1 CCCATTTACATTAAACCCCAAAA
**
19422923 TTCATTTACATTAAACCCCAAAA
1 CCCATTTACATTAAACCCCAAAA
19422946 CCCATTTTACATTAAACCCCAAAA
1 CCCA-TTTACATTAAACCCCAAAA
*
19422970 CCCAATTACATTA
1 CCCATTTACATTA
19422983 GCCCAACTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 30 0.57
24 23 0.43
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (23 bp):
CCCATTTACATTAAACCCCAAAA
Found at i:19425092 original size:137 final size:137
Alignment explanation
Indices: 19424846--19425132 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
19424836 TATTGGGCCT
**
19424846 AAGCCCATTCAGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
* *
19424911 AGCCTCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
19424976 CATATGC
131 CATATGC
* * *
19424983 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
19425048 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
19425113 CATATGC
131 CATATGC
19425120 AAGCCCATTTGGG
1 AAGCCCATTTGGG
19425133 GAGACTACTC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:19425417 original size:25 final size:27
Alignment explanation
Indices: 19425380--19425432 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19425370 TCAAACATGC
*
19425380 ATTTAGGTCAATTTATC-CCTAGGGGT
1 ATTTAGGTCAATTTATCTACTAGGGGT
*
19425406 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATCTACTAGGGGT
19425432 A
1 A
19425433 AAATTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTATCTACTAGGGGT
Found at i:19426956 original size:26 final size:26
Alignment explanation
Indices: 19426920--19427029 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
19426910 CATGAATTTC
19426920 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
19426946 TTATCATGAAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
* * *
19426972 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAAACCA
* *
19426998 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
19427024 TTATCA
1 TTATCA
19427030 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
25 4 0.05
26 70 0.91
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:19426999 original size:52 final size:52
Alignment explanation
Indices: 19426920--19427029 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
19426910 CATGAATTTC
*
19426920 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
* * * *
19426972 TTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
19427024 TTATCA
1 TTATCA
19427030 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCA
Found at i:19427431 original size:3 final size:3
Alignment explanation
Indices: 19427361--19427419 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
19427351 GGGGCGTTAC
19427361 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19427409 ATT ATT ATT AT
1 ATT ATT ATT AT
19427420 ATGTTTTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19427813 original size:21 final size:18
Alignment explanation
Indices: 19427789--19427833 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
19427779 ATATTATGTA
19427789 TATGTATTTCTAATGCTATAT
1 TATGTATTTC--ATG-TATAT
19427810 TATGT-TTTCATGTATAT
1 TATGTATTTCATGTATAT
19427827 TATGTAT
1 TATGTAT
19427834 ATACCTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATGTATAT
Found at i:19427903 original size:2 final size:2
Alignment explanation
Indices: 19427896--19427925 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19427886 ATACTATTAC
19427896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19427926 CTTTTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19427998 original size:24 final size:24
Alignment explanation
Indices: 19427952--19427998 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19427942 CATATATATA
**
19427952 CTATTATTTTATTTATTTTTATTC
1 CTATTATTTTATTTATTAATATTC
19427976 CTATTATATTTA-TTATTAATATT
1 CTATTAT-TTTATTTATTAATATT
19427999 AGTATGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
CTATTATTTTATTTATTAATATTC
Found at i:19428781 original size:2 final size:2
Alignment explanation
Indices: 19428776--19428811 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19428766 ATGTTTTTAT
19428776 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19428812 CGTATATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19430429 original size:59 final size:58
Alignment explanation
Indices: 19430337--19430535 Score: 317
Period size: 59 Copynumber: 3.4 Consensus size: 58
19430327 CAGTAATATG
19430337 TTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAAATTAA
1 TTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAAA-TAA
*
19430396 TTTGTACAAAAATATTAAAAAGAACTTCTATTTTATTAAATGAAACAATATTAAAATAA
1 TTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATA-TAAAATAA
* * *
19430455 TTTTTACAAAAATATTCAAAAGAACTTTTATTTTATTAAATGAAACAATATAAAAACAA
1 TTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATAT-AAAATAA
*
19430514 TTTGTACAAAAAAAATTCAAAA
1 TTTGTAC-AAAAATATTCAAAA
19430536 ATAAATCAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
58 1 0.01
59 111 0.85
60 18 0.14
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.35
Consensus pattern (58 bp):
TTTGTACAAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAACAATATAAAATAA
Found at i:19431607 original size:39 final size:38
Alignment explanation
Indices: 19431540--19431674 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
19431530 ACCAATATGG
* * *
19431540 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
19431579 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
19431617 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
19431658 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
19431675 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:19431940 original size:18 final size:19
Alignment explanation
Indices: 19431914--19431952 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
19431904 TTTCAATTCA
19431914 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
19431933 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
19431951 AT
1 AT
19431953 ATATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:19433185 original size:5 final size:5
Alignment explanation
Indices: 19433175--19433227 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
19433165 TTACTTATTT
* *
19433175 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
19433223 ATATA
1 ATATA
19433228 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:19433191 original size:12 final size:12
Alignment explanation
Indices: 19433174--19433229 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
19433164 TTTACTTATT
19433174 TATATAATATAA
1 TATATAATATAA
19433186 TATATAATATAATA
1 TATATAATAT-A-A
19433200 TACTATAATATAA
1 TA-TATAATATAA
*
19433213 TA-ATAATTTAA
1 TATATAATATAA
19433224 TATATA
1 TATATA
19433230 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:19435027 original size:11 final size:11
Alignment explanation
Indices: 19435011--19435054 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
19435001 ATTACTTCAC
19435011 TTTTTTTT-TT
1 TTTTTTTTATT
19435021 TTTTTTTTATT
1 TTTTTTTTATT
19435032 TTTATTTTTATT
1 TTT-TTTTTATT
*
19435044 TTATTTTTATT
1 TTTTTTTTATT
19435055 GCATCAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 8 0.26
11 13 0.42
12 10 0.32
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:19435039 original size:17 final size:17
Alignment explanation
Indices: 19435011--19435054 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
19435001 ATTACTTCAC
19435011 TTTT-TTTTT-TTTTT-
1 TTTTATTTTTATTTTTA
19435025 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
19435042 TTTTATTTTTATT
1 TTTTATTTTTATT
19435055 GCATCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.15
15 5 0.19
16 5 0.19
17 13 0.48
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:19435052 original size:6 final size:6
Alignment explanation
Indices: 19435012--19435054 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
19435002 TTACTTCACT
* *
19435012 TTTTTT TTTTTT TTTTTA TTTTTA TTTTTA -TTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
19435055 GCATCAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTA
Found at i:19437808 original size:11 final size:11
Alignment explanation
Indices: 19437792--19437840 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
19437782 CATTACTTCA
19437792 TTTTTTTTA-T
1 TTTTTTTTATT
19437802 TTTTTTTTATT
1 TTTTTTTTATT
*
19437813 TTTATTTTATT
1 TTTTTTTTATT
19437824 TTTATTTTTATT
1 TTT-TTTTTATT
19437836 TTTTT
1 TTTTT
19437841 GCATCAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
10 9 0.26
11 16 0.46
12 10 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:19437814 original size:6 final size:6
Alignment explanation
Indices: 19437795--19437838 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
19437785 TACTTCATTT
19437795 TTTTTA -TTTT- TTTTTA TTTTTA -TTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
19437839 TTGCATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 13 0.37
6 22 0.63
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:19437825 original size:17 final size:16
Alignment explanation
Indices: 19437795--19437840 Score: 83
Period size: 17 Copynumber: 2.8 Consensus size: 16
19437785 TACTTCATTT
19437795 TTTTTATTTTTTTTTA
1 TTTTTATTTTTTTTTA
19437811 TTTTTATTTTATTTTTA
1 TTTTTATTTT-TTTTTA
19437828 TTTTTATTTTTTT
1 TTTTTATTTTTTT
19437841 GCATCAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTATTTTTTTTTA
Found at i:19440552 original size:18 final size:19
Alignment explanation
Indices: 19440514--19440554 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
19440504 TGGTTCATGT
19440514 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
19440533 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
19440551 TTTC
1 TTTC
19440555 TTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:19440742 original size:39 final size:38
Alignment explanation
Indices: 19440675--19440809 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
19440665 ACCAATATGG
* * *
19440675 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
19440714 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
19440752 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
19440793 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
19440810 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:19442318 original size:5 final size:5
Alignment explanation
Indices: 19442308--19442356 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
19442298 TTACTTATTT
*
19442308 ATATA ATATAA TATATA ATATA TATATA ATATA ATAATA ATTTA ATATA
1 ATATA ATAT-A -ATATA ATATA -ATATA ATATA AT-ATA ATATA ATATA
19442357 TATTTTAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 22 0.58
6 12 0.32
7 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:19442335 original size:23 final size:23
Alignment explanation
Indices: 19442307--19442358 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
19442297 TTTACTTATT
19442307 TATATAATATAATATATAATAT-A
1 TATATAATATAATA-ATAATATAA
*
19442330 TATATAATATAATAATAATTTAA
1 TATATAATATAATAATAATATAA
19442353 TATATA
1 TATATA
19442359 TTTTAACACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATATAATATAATAATAATATAA
Found at i:19442361 original size:11 final size:11
Alignment explanation
Indices: 19442307--19442358 Score: 61
Period size: 11 Copynumber: 4.5 Consensus size: 11
19442297 TTTACTTATT
19442307 TATATAATATAA
1 TATATAATAT-A
19442319 TATATAATATA
1 TATATAATATA
19442330 TATATAATATA
1 TATATAATATA
*
19442341 -ATAATAATTTAA
1 TAT-ATAATAT-A
19442353 TATATA
1 TATATA
19442359 TTTTAACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 2 0.06
11 18 0.50
12 14 0.39
13 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATATAATATA
Found at i:19447055 original size:23 final size:24
Alignment explanation
Indices: 19446995--19447056 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
19446985 AGTTATTATA
*
19446995 ATTATAATTATAATTTAATAAAAGT
1 ATTATAATT-TAATTTAATAAAAAT
*
19447020 A--ATAA-TTACATTT-TTAAAAAT
1 ATTATAATTTA-ATTTAATAAAAAT
19447041 ATTATAATTTAATTTA
1 ATTATAATTTAATTTA
19447057 TAATTATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
21 9 0.30
22 5 0.17
23 12 0.40
24 3 0.10
25 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTATAATTTAATTTAATAAAAAT
Found at i:19447314 original size:31 final size:30
Alignment explanation
Indices: 19447247--19447341 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 30
19447237 TGGGAATTTG
* * * *
19447247 ATACATG-AATTTTGATTTGATGCAATTAT
1 ATACATGAAACTTTAATTTGATTCAAATAT
*
19447276 ACACATGAAACTTTAATTATGATTCAAATAT
1 ATACATGAAACTTTAATT-TGATTCAAATAT
**
19447307 ATACATGAAACTTTCCTTTTGATTC-AAT-T
1 ATACATGAAACTTT-AATTTGATTCAAATAT
19447336 ATACAT
1 ATACAT
19447342 ATTTAAAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
29 13 0.24
30 11 0.20
31 29 0.53
32 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (30 bp):
ATACATGAAACTTTAATTTGATTCAAATAT
Found at i:19447747 original size:35 final size:31
Alignment explanation
Indices: 19447691--19447755 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
19447681 ATAATCTAAA
* *
19447691 TAAAAATATTATATTACATTAATTACCGTAAT
1 TAAAAATATCATATTACATTAAATA-CGTAAT
19447723 TAAAAATATCATTATTAACTATTAAATACGTAA
1 TAAAAATATCA-TATT-AC-ATTAAATACGTAA
19447756 AATCATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 10 0.36
33 4 0.14
34 7 0.25
35 7 0.25
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.38
Consensus pattern (31 bp):
TAAAAATATCATATTACATTAAATACGTAAT
Found at i:19454802 original size:20 final size:20
Alignment explanation
Indices: 19454777--19454823 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
19454767 CTAAGAGTTG
*
19454777 TTTTTAATTTAATATATTAT
1 TTTTTAATTTAATATATAAT
* *
19454797 TTTTTATTTTATTATATAAT
1 TTTTTAATTTAATATATAAT
19454817 TATTTTA
1 T-TTTTA
19454824 TTAGATTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAATTTAATATATAAT
Found at i:19470874 original size:22 final size:22
Alignment explanation
Indices: 19470844--19470887 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19470834 AACACGTTAG
19470844 CAAAAATATA-AATATAAATAAA
1 CAAAAATATATAATA-AAATAAA
*
19470866 CAAATATATATAATAAAATAAA
1 CAAAAATATATAATAAAATAAA
19470888 TTGAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
CAAAAATATATAATAAAATAAA
Found at i:19481568 original size:58 final size:61
Alignment explanation
Indices: 19481506--19481655 Score: 168
Period size: 61 Copynumber: 2.5 Consensus size: 61
19481496 GGATACGACA
* * * *
19481506 TAATAATTCTTGAAAGCAAGCAAGATTGAAA-TGTTCATCCC-TTCATAAAGTTAT-TAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTTCATAAAGTTATATAAG
* * *
19481564 TAATAACTCTTGAAAGTAAGCATA-A-TCAAAGCGCTCATCCCTTTTATAAGGTTATGATAAG
1 TAATAATTCTTGAAAGTAAGCA-AGATTCAAAGCGCTCATCCCTTTCATAAAGTTAT-ATAAG
*
19481625 TAATAATTCTAGAAAGTAAGCAAGA-TCAAAG
1 TAATAATTCTTGAAAGTAAGCAAGATTCAAAG
19481656 TGTTAGAGGT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
57 4 0.05
58 29 0.38
59 12 0.16
60 1 0.01
61 31 0.40
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (61 bp):
TAATAATTCTTGAAAGTAAGCAAGATTCAAAGCGCTCATCCCTTTCATAAAGTTATATAAG
Found at i:19482855 original size:14 final size:14
Alignment explanation
Indices: 19482836--19482866 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
19482826 ATACTTCCAA
19482836 TCAATATTGACATT
1 TCAATATTGACATT
19482850 TCAATATTGACATT
1 TCAATATTGACATT
19482864 TCA
1 TCA
19482867 GCCATGCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (14 bp):
TCAATATTGACATT
Found at i:19488588 original size:16 final size:16
Alignment explanation
Indices: 19488569--19488601 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19488559 TTTTATAATT
*
19488569 TTTTTGAGTATTTTTA
1 TTTTTGAATATTTTTA
19488585 TTTTTGAATATTTTTA
1 TTTTTGAATATTTTTA
19488601 T
1 T
19488602 ACTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (16 bp):
TTTTTGAATATTTTTA
Found at i:19493558 original size:29 final size:29
Alignment explanation
Indices: 19493526--19493587 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
19493516 AAGCACTATA
* * *
19493526 GTGCCATTTTGTTATGATATTGCACTTCT
1 GTGCCACTATGTTATGATATTGCACTTCG
* * *
19493555 GTGCTACTATGTTTTGTTATTGCACTTCG
1 GTGCCACTATGTTATGATATTGCACTTCG
19493584 GTGC
1 GTGC
19493588 ATCTCTGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.47
Consensus pattern (29 bp):
GTGCCACTATGTTATGATATTGCACTTCG
Found at i:19499185 original size:18 final size:19
Alignment explanation
Indices: 19499145--19499185 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
19499135 TTATATTAAC
*
19499145 TATTTAAATGTATTTACAA
1 TATTTAAATGTATGTACAA
19499164 -ATTTAAATGTATGTA-AA
1 TATTTAAATGTATGTACAA
19499181 TATTT
1 TATTT
19499186 CATCTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (19 bp):
TATTTAAATGTATGTACAA
Found at i:19499446 original size:60 final size:60
Alignment explanation
Indices: 19499316--19499434 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
19499306 TGCTAACACT
19499316 ATGTATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTC
1 ATGTATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTC
** ** * *
19499376 ATGTATCATTAAAATTTTAAAGTATCATTTATTATTATATTTAAAATTCTAAAATATTT
1 ATGTATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTT
19499435 TATTAATCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (60 bp):
ATGTATCATTAAAATTCGAAAACATCATTTATAATTATATTTAAAATTATAAAATATTTC
Found at i:19501182 original size:30 final size:30
Alignment explanation
Indices: 19501148--19501207 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
19501138 ACTTAACAAG
19501148 TAAATGCCTCTAAAATAATAACAAAATTAA
1 TAAATGCCTCTAAAATAATAACAAAATTAA
* *
19501178 TAAATTCCTTTAAAATAATAACAAAATTAA
1 TAAATGCCTCTAAAATAATAACAAAATTAA
19501208 CAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (30 bp):
TAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:19509335 original size:18 final size:18
Alignment explanation
Indices: 19509309--19509346 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19509299 ATGATTTAGT
19509309 CCCTAACCCAAAAATTAA
1 CCCTAACCCAAAAATTAA
*
19509327 CCCTGACCCAAAAATTAA
1 CCCTAACCCAAAAATTAA
19509345 CC
1 CC
19509347 ATGCAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.37, G:0.03, T:0.16
Consensus pattern (18 bp):
CCCTAACCCAAAAATTAA
Found at i:19515760 original size:5 final size:5
Alignment explanation
Indices: 19515744--19515776 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
19515734 TATAAAGTTG
*
19515744 ATATA ATGTA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
19515777 ATGCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:19519652 original size:25 final size:25
Alignment explanation
Indices: 19519624--19519677 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
19519614 TTTCTTTATA
*
19519624 TTATTAAT-TTTATATTTAAAAATCT
1 TTATTAATATTTA-ATTTAAAAATAT
*
19519649 TTA-TAATATTTAATTTAAAATTAT
1 TTATTAATATTTAATTTAAAAATAT
19519673 TTATT
1 TTATT
19519678 TAGATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTAATATTTAATTTAAAAATAT
Found at i:19519765 original size:21 final size:22
Alignment explanation
Indices: 19519730--19519783 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
19519720 TTTAAGTTTA
19519730 ATAATATGTTAAAATTGTTTTATT
1 ATAATAT-TT-AAATTGTTTTATT
* *
19519754 -TATTATTTAAATTTTTTTATT
1 ATAATATTTAAATTGTTTTATT
19519775 ATAATATTT
1 ATAATATTT
19519784 GAATGGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
ATAATATTTAAATTGTTTTATT
Found at i:19520517 original size:2 final size:2
Alignment explanation
Indices: 19520510--19520549 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19520500 TTTATTTAAA
19520510 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
19520550 TAACTGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19523314 original size:29 final size:29
Alignment explanation
Indices: 19523281--19523347 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
19523271 TGTGTGTACC
** *
19523281 ATGTGAAAAGGGATAACTTCGTTTATCTA
1 ATGTGAAAAGGGATAACTTCGGCTATCGA
* *
19523310 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAACTTCGGCTATCGA
19523339 ATGTGAAAA
1 ATGTGAAAA
19523348 AGAAAGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (29 bp):
ATGTGAAAAGGGATAACTTCGGCTATCGA
Found at i:19523583 original size:33 final size:32
Alignment explanation
Indices: 19523503--19523616 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 32
19523493 CACTATATGA
* *
19523503 GTAC-ACTTGAAAAGGTTATGTGCACTTTGTGT
1 GTACAACTTGAAAAGGGTATGTACAC-TTGTGT
* *
19523535 GTACAAATTGGAAAGGGTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGGTATGTACACTT-GTGT
* * *
19523568 GTACCACTTGAAAAGGGAATGTACACCTTGAGT
1 GTACAACTTGAAAAGGGTATGTACA-CTTGTGT
*
19523601 GTACAACTAGAAAAGG
1 GTACAACTTGAAAAGG
19523617 AAAGGTCCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
32 6 0.09
33 59 0.87
34 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (32 bp):
GTACAACTTGAAAAGGGTATGTACACTTGTGT
Found at i:19527141 original size:22 final size:20
Alignment explanation
Indices: 19527108--19527153 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
19527098 ATTTAGGTTA
19527108 TATT-TAAATATTATATATAAC
1 TATTATAAATATTA-AT-TAAC
*
19527129 TATTATAATTATTAATTAAC
1 TATTATAAATATTAATTAAC
19527149 -ATTAT
1 TATTAT
19527154 GGTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 6 0.26
22 8 0.35
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTATAAATATTAATTAAC
Found at i:19527689 original size:21 final size:20
Alignment explanation
Indices: 19527658--19527697 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
19527648 AAATAAAAAG
19527658 TAAAGGAAATATAAAAGAGAAA
1 TAAAGG-AA-ATAAAAGAGAAA
19527680 TAAA-GAAATAAAAGAGAA
1 TAAAGGAAATAAAAGAGAA
19527698 TAGAAGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 2 0.11
21 1 0.06
22 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (20 bp):
TAAAGGAAATAAAAGAGAAA
Found at i:19532757 original size:13 final size:13
Alignment explanation
Indices: 19532739--19532764 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19532729 AATATTGCAT
19532739 GAAAAATTTTATC
1 GAAAAATTTTATC
19532752 GAAAAATTTTATC
1 GAAAAATTTTATC
19532765 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAAATTTTATC
Found at i:19533247 original size:20 final size:22
Alignment explanation
Indices: 19533217--19533264 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
19533207 GAATATGCTG
*
19533217 TAAATTGAAA-GTTTTTGATAGA
1 TAAA-TGAAAGGTTATTGATAGA
19533239 -AAATGAAAGGTTATTGATAGA
1 TAAATGAAAGGTTATTGATAGA
19533260 TAAAT
1 TAAAT
19533265 CACTTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGGTTATTGATAGA
Found at i:19533953 original size:29 final size:29
Alignment explanation
Indices: 19533920--19533988 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
19533910 TGTGTGTACC
*
19533920 ATGTGAAAAGGGATAGCTTCGGCTATCTA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
*
19533949 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
19533978 ATGTGAAAAGG
1 ATGTGAAAAGG
19533989 AAAGGTATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:19534018 original size:33 final size:33
Alignment explanation
Indices: 19533981--19534158 Score: 155
Period size: 33 Copynumber: 5.5 Consensus size: 33
19533971 CTATCGAATG
*
19533981 TGAAAAGGAAAGGTATACCTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* * ** * *
19534014 TGAAAA-GACTATGTGCACTTTGTGTGTA-CACT
1 TGAAAAGGA-AAGGTATACTTTGTGTATACCACA
* ** *
19534046 TGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* ** *
19534079 TGAAAA-AAAATATATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
** * *
19534111 CAAAAAGGAATGGTATACTTTGTGTATACCACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
19534144 TGAAAAGGAAAGGTA
1 TGAAAAGGAAAGGTA
19534159 CACTATATGA
Statistics
Matches: 109, Mismatches: 32, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
32 50 0.46
33 59 0.54
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACA
Found at i:19534095 original size:32 final size:34
Alignment explanation
Indices: 19534059--19534154 Score: 119
Period size: 32 Copynumber: 2.9 Consensus size: 34
19534049 AAAGGTTAGG
19534059 TATACTTTGTGTATACCATATGAAAAA-AAAT-A
1 TATACTTTGTGTATACCATATGAAAAAGAAATGA
* * *
19534091 TATACTTTGTGTATACCATA-CAAAAAGGAATGG
1 TATACTTTGTGTATACCATATGAAAAAGAAATGA
*
19534124 TATACTTTGTGTATACCACT-TGAAAAGGAAA
1 TATACTTTGTGTATACCA-TATGAAAAAGAAA
19534155 GGTACACTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 5 0.09
32 23 0.43
33 18 0.33
34 8 0.15
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (34 bp):
TATACTTTGTGTATACCATATGAAAAAGAAATGA
Found at i:19534196 original size:65 final size:66
Alignment explanation
Indices: 19534127--19534288 Score: 184
Period size: 66 Copynumber: 2.5 Consensus size: 66
19534117 GGAATGGTAT
* * **
19534127 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTAT-ATGAGTA-CACTTGAAAAGGTTATGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACT-TCATGAGTACCACTTGAAAAGGGAATGT
19534190 GC
65 GC
* * ** * *
19534192 ACTTTGTGTGTACAAATTGGAAAGGGTATGTACACTTCATGTGTACCACTTGAAAAGGGAATGTG
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGAGTACCACTTGAAAAGGGAATGTG
19534257 C
66 C
* * *
19534258 ACCTTGAGTGTACAACTAGAAAAGGAAAGGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGT
19534289 CCATCGGAAG
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 1 0.01
65 35 0.45
66 41 0.53
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (66 bp):
ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGAGTACCACTTGAAAAGGGAATGTG
C
Found at i:19534216 original size:33 final size:33
Alignment explanation
Indices: 19534175--19534282 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 33
19534165 ATGAGTACAC
*
19534175 TTGAAAAGGTTATGTGCACTTTGTGTGTACAAA
1 TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
* * ** * *
19534208 TTGGAAAGGGTATGTACACTTCATGTGTACCAC
1 TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
* * * *
19534241 TTGAAAAGGGAATGTGCACCTTGAGTGTACAAC
1 TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
*
19534274 TAGAAAAGG
1 TTGAAAAGG
19534283 AAAGGTCCAT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (33 bp):
TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
Found at i:19537677 original size:46 final size:46
Alignment explanation
Indices: 19537625--19537760 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 46
19537615 GCTCTCTGAT
* *
19537625 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
19537671 ATGAAATGTGTAAGACCATGGTTGAAAAATAAGATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
19537717 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
19537761 TCAAAGATAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 76 0.99
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:19538062 original size:16 final size:17
Alignment explanation
Indices: 19538041--19538073 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19538031 ATGATGGTGC
19538041 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
19538057 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
19538074 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:19540341 original size:47 final size:47
Alignment explanation
Indices: 19540224--19540356 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 47
19540214 ATAATCTCAC
** * * *
19540224 CCATAATGAACTTGGAATGCAACTCAACAAGGTCGGGTG-TTCACAT
1 CCATAATGAACTCAGAATGCAACTCAACGAGTTCGGATGCTTCACAT
** *
19540270 CCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCAGAATGCAACTCAACGAGTTCGGATGCTTCACAT
* *
19540316 CCATAGTTGAACTCAGAATGCAACTCAATGAGTTCGGATGC
1 CCATA-ATGAACTCAGAATGCAACTCAACGAGTTCGGATGC
19540357 CTCATAATTC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 40 0.55
47 33 0.45
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (47 bp):
CCATAATGAACTCAGAATGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:19543371 original size:6 final size:6
Alignment explanation
Indices: 19543343--19543410 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
19543333 AAAGAATAAC
* * * *
19543343 AAGATG AAGAT- AATGTTG GAGATG AAGATG AAGATG AAAATGG ATG-TG
1 AAGATG AAGATG AA-GATG AAGATG AAGATG AAGATG AAGAT-G AAGATG
* *
19543391 GAGATG GAGATG AAGATG AA
1 AAGATG AAGATG AAGATG AA
19543411 TGACAATGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
5 4 0.08
6 41 0.85
7 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (6 bp):
AAGATG
Found at i:19543379 original size:30 final size:30
Alignment explanation
Indices: 19543343--19543410 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
19543333 AAAGAATAAC
*
19543343 AAGATGAAGAT-AATGTTGGAGATGAAGATG
1 AAGATGAAAATGAATG-TGGAGATGAAGATG
* *
19543373 AAGATGAAAATGGATGTGGAGATGGAGATG
1 AAGATGAAAATGAATGTGGAGATGAAGATG
19543403 AAGATGAA
1 AAGATGAA
19543411 TGACAATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (30 bp):
AAGATGAAAATGAATGTGGAGATGAAGATG
Found at i:19543775 original size:14 final size:14
Alignment explanation
Indices: 19543758--19543792 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19543748 TTTTCCTTGC
19543758 TGTTTTTTTGTTGT
1 TGTTTTTTTGTTGT
*
19543772 TGTTATTTTGTTGT
1 TGTTTTTTTGTTGT
*
19543786 TATTTTT
1 TGTTTTT
19543793 CACTATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.17, T:0.77
Consensus pattern (14 bp):
TGTTTTTTTGTTGT
Found at i:19544047 original size:13 final size:13
Alignment explanation
Indices: 19544011--19544048 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19544001 TATATATATT
*
19544011 TAAAAAATTTATA
1 TAAAAAATTAATA
*
19544024 TAATAAA-TAATA
1 TAAAAAATTAATA
19544036 TAAAAAATTAATA
1 TAAAAAATTAATA
19544049 CGGACTGGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:19546709 original size:30 final size:30
Alignment explanation
Indices: 19546654--19546714 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
19546644 TACCGTTTAT
*
19546654 TTTTTAATATATTATAAAAAATATTTGTAA
1 TTTTTAATATATTATAAAAAATATTTATAA
*
19546684 TTTTTATATAATATT-T-AAAATTATTTATAA
1 TTTTTA-AT-ATATTATAAAAAATATTTATAA
19546714 T
1 T
19546715 CTTTCCCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 19 0.70
31 3 0.11
32 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTAATATATTATAAAAAATATTTATAA
Found at i:19553370 original size:18 final size:19
Alignment explanation
Indices: 19553347--19553382 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19553337 ATAAATTTAA
19553347 TTTGTAAA-ATTTACATAT
1 TTTGTAAATATTTACATAT
19553365 TTTGTAAATATTTACATA
1 TTTGTAAATATTTACATA
19553383 AAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (19 bp):
TTTGTAAATATTTACATAT
Found at i:19558935 original size:21 final size:21
Alignment explanation
Indices: 19558911--19558953 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19558901 ACCTTTTGTA
**
19558911 AAGTTAAAAGTTAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
19558932 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
19558953 A
1 A
19558954 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:19559647 original size:20 final size:19
Alignment explanation
Indices: 19559622--19559686 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
19559612 AAAGATTACA
19559622 AAAAATTCAAAATAAATTTT
1 AAAAATTCAAAAT-AATTTT
19559642 AAAAA-TCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
19559660 AAAAAATCCAAAATATATATTT
1 -AAAAATTCAAAATA-AT-TTT
19559682 AAAAA
1 AAAAA
19559687 ATTATAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 12 0.32
20 11 0.29
21 5 0.13
22 3 0.08
23 2 0.05
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:19559696 original size:10 final size:11
Alignment explanation
Indices: 19559681--19559718 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
19559671 AATATATATT
19559681 TAAAAAATT-A
1 TAAAAAATTCA
19559691 TAAAAAATTCA
1 TAAAAAATTCA
19559702 -AAAAAATTCA
1 TAAAAAATTCA
19559712 -AAAAAAT
1 TAAAAAAT
19559719 ATATAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 26 0.96
11 1 0.04
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAAAATTCA
Found at i:19559714 original size:19 final size:19
Alignment explanation
Indices: 19559621--19559718 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 19
19559611 CAAAGATTAC
19559621 AAAAAATTCAAAATAAATTT
1 AAAAAATTCAAAA-AAATTT
* * *
19559641 TAAAAA-TCAAAATATTTAT
1 AAAAAATTCAAAAAAATT-T
*
19559660 AAAAAATCCAAAATATATATTT
1 AAAAAATTCAAAA-A-A-ATTT
*
19559682 AAAAAATT-ATAAAAAATTCA
1 AAAAAATTCA-AAAAAATT-T
19559702 AAAAAATTCAAAAAAAT
1 AAAAAATTCAAAAAAAT
19559719 ATATAAAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
18 3 0.05
19 15 0.25
20 26 0.43
21 3 0.05
22 12 0.20
23 2 0.03
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAATTCAAAAAAATTT
Found at i:19561737 original size:70 final size:70
Alignment explanation
Indices: 19561595--19561802 Score: 231
Period size: 70 Copynumber: 3.0 Consensus size: 70
19561585 TTTTATTTCA
* * * * * *
19561595 TGATCTGCTAGTCTGGTTAGCATTATAATTGCCCTACCGGAGACTACAAAATAAATCTCCA-CTT
1 TGATCTGCTAGTCCGGTTAGCAATATACTTGCCTTACCGGAGGCTACACAATAAATCTCCATC-T
* *
19561659 TTACAG
65 TCATAG
* * * * *
19561665 TGATCTACTAGTCCAGTTAGCAATGTACTTGCCTTACCAGAGGCTACACAATAAATTTCCATCTT
1 TGATCTGCTAGTCCGGTTAGCAATATACTTGCCTTACCGGAGGCTACACAATAAATCTCCATCTT
19561730 CATAG
66 CATAG
* * * * *
19561735 TGATATGCTTGTTCGGTTAGCAATATACATGCCTTACCGGAGGCTACACAATATATCTCC-TCTT
1 TGATCTGCTAGTCCGGTTAGCAATATACTTGCCTTACCGGAGGCTACACAATAAATCTCCATCTT
19561799 CATA
66 CATA
19561803 ATTATACATA
Statistics
Matches: 114, Mismatches: 23, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
69 8 0.07
70 105 0.92
71 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (70 bp):
TGATCTGCTAGTCCGGTTAGCAATATACTTGCCTTACCGGAGGCTACACAATAAATCTCCATCTT
CATAG
Found at i:19562101 original size:23 final size:23
Alignment explanation
Indices: 19562071--19562116 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19562061 ATAAGAATGA
*
19562071 TATACAAAATTTGGCTTTAGAGG
1 TATACAAAATTTAGCTTTAGAGG
*
19562094 TATACAAAATTTAGTTTTAGAGG
1 TATACAAAATTTAGCTTTAGAGG
19562117 CTTATCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (23 bp):
TATACAAAATTTAGCTTTAGAGG
Found at i:19566959 original size:17 final size:17
Alignment explanation
Indices: 19566933--19566967 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19566923 GATAGTGTAT
*
19566933 ACTGAAACTGTAGTAAA
1 ACTGAAACTGTAGCAAA
*
19566950 ACTGAGACTGTAGCAAA
1 ACTGAAACTGTAGCAAA
19566967 A
1 A
19566968 TTGATTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (17 bp):
ACTGAAACTGTAGCAAA
Found at i:19569253 original size:563 final size:563
Alignment explanation
Indices: 19568182--19569311 Score: 1879
Period size: 563 Copynumber: 2.0 Consensus size: 563
19568172 GGCTGTGGTC
*
19568182 AGGCTAGGGGTCGTAATGGTATGGGCCGTGGTCAGAGAGCATCGGGCAGAGGTGCTGGACAGCTT
1 AGGCTAGGGGTCGTAATGGTATGGGCCGTGGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGCTT
* * * * *
19568247 GAGGCAAGATAGCCTGTTCTTGTTTATGCTGCATGTCACTGAGAGGACAAATATGCTCTGGACGT
66 AAGGCAAGACAGCCTATTATTGTTTATGCTGCACGTCACTGAGAGGACAAATATGCTCTGGACGT
*
19568312 TATCACCGGTATGTTCTTGATGTATGATGTACCTTACTTTGCTTTAGTAGACATAAGTTTCATAG
131 TATCACCGGTATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGTAGACATAAGTTTCATAG
*
19568377 ATTCCTATATAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAG
196 ATTCCTATACAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAG
*
19568442 GTGAGTGTACTAAGTCCACTGGGGTAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGTT
261 GTGAGTGTACTAAGTCCACTGGGGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGTT
* *
19568507 GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTGATGGTGCTTCTGTTTGGGGAGTTTGACCTGAT
326 GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGATGCTTCTGTTTGGGGAGTTTGACCTGAT
* * * * *
19568572 TCTGGGTATGGACTGGTTGGTCAAGCACCGTGTCACTTTGGATTGTGCGACTAAGAGGGTCATCT
391 TCTGGGTATGGACTAGTTGGTCAAGCACCATGTCACTCTGAACTGTGCGACTAAGAGGGTCATCT
*
19568637 TGAGAACTGAGGAGGATAATGAGGTAGTCGTGATTGGAGAGCGTTGAAACTACTTGGCCAACGTG
456 TGAGAACTGAGGAAGATAATGAGGTAGTCGTGATTGGAGAGCGTTGAAACTACTTGGCCAACGTG
** *
19568702 ATCTCTGTACTGGTAGCTGAGAAACTAGTTCGTAAAGGATGTG
521 ATCTCTACACTGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
* * *
19568745 AGGCTAGGGGTGGTAATGGTATGGGCCGTGGTCAGAGAGCATTGGGCAGAAGTGCTGGATAGAC-
1 AGGCTAGGGGTCGTAATGGTATGGGCCGTGGTCAGAGAGCATCGGGCAGAAGTGCTGGACAG-CT
* * *
19568809 TAAGGCGAGACAGCCTATTATTGTTTATGCTGCACGTCACTGAGAGGATAGATATGCTCTGGACG
65 TAAGGCAAGACAGCCTATTATTGTTTATGCTGCACGTCACTGAGAGGACAAATATGCTCTGGACG
* * * *
19568874 TTATCGCCGGTATGTTCTTGATTTATGATATACTTTACTTTGCTTTGGTAGACAT-AGATTTCAT
130 TTATCACCGGTATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGTAGACATAAG-TTTCAT
* * *
19568938 AGATTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTTCTAGTG
194 AGATTCCTATACAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAG
*
19569003 AGGTGAGTGTACTAAGTCCACTGGGGCAATTGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCG
259 AGGTGAGTGTACTAAGTCCACTGGGGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCG
19569068 TTAGAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGATGCTTCTGTTTGGGGAGTTTGACCT
324 TT-GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGATGCTTCTGTTTGGGGAGTTTGACCT
*
19569133 GATTCTGGGTATGGACTAGTTGGTCAAGCACCATGTCACTCTGAACTGTGCGACTAAGAGGGTCG
388 GATTCTGGGTATGGACTAGTTGGTCAAGCACCATGTCACTCTGAACTGTGCGACTAAGAGGGTCA
* *
19569198 TCTTGAGAACTGAGGAAGATAATGAGGTAGTC-TGATTGGAGAGCGTTGGAACTACTTGGCTAAC
453 TCTTGAGAACTGAGGAAGATAATGAGGTAGTCGTGATTGGAGAGCGTTGAAACTACTTGGCCAAC
19569262 GTGATCTCTACACTGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
518 GTGATCTCTACACTGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
19569308 AGGC
1 AGGC
19569312 GTACTTGGCC
Statistics
Matches: 527, Mismatches: 37, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
562 2 0.00
563 374 0.71
564 151 0.29
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (563 bp):
AGGCTAGGGGTCGTAATGGTATGGGCCGTGGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGCTT
AAGGCAAGACAGCCTATTATTGTTTATGCTGCACGTCACTGAGAGGACAAATATGCTCTGGACGT
TATCACCGGTATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGTAGACATAAGTTTCATAG
ATTCCTATACAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAG
GTGAGTGTACTAAGTCCACTGGGGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGTT
GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGATGCTTCTGTTTGGGGAGTTTGACCTGAT
TCTGGGTATGGACTAGTTGGTCAAGCACCATGTCACTCTGAACTGTGCGACTAAGAGGGTCATCT
TGAGAACTGAGGAAGATAATGAGGTAGTCGTGATTGGAGAGCGTTGAAACTACTTGGCCAACGTG
ATCTCTACACTGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
Found at i:19571489 original size:19 final size:19
Alignment explanation
Indices: 19571465--19571507 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
19571455 GGTTAATTGG
19571465 AGAGGGTGATTTAGATACT
1 AGAGGGTGATTTAGATACT
19571484 AGAGGGTGATTTAGATACT
1 AGAGGGTGATTTAGATACT
19571503 AGAGG
1 AGAGG
19571508 ATGTTTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.28
Consensus pattern (19 bp):
AGAGGGTGATTTAGATACT
Found at i:19576146 original size:26 final size:26
Alignment explanation
Indices: 19576089--19576171 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
19576079 TGAAATTCCC
19576089 ATCATGGAACATTTACCTAACCCCATT
1 ATCATGGAACATTTACCTAA-CCCATT
19576116 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19576142 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19576168 ATCA
1 ATCA
19576172 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 35 0.64
27 20 0.36
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19579241 original size:186 final size:186
Alignment explanation
Indices: 19578924--19579278 Score: 541
Period size: 186 Copynumber: 1.9 Consensus size: 186
19578914 GATGAATTTT
* * *
19578924 CTTGTGTTTAGATCCTAGACAAAAATTGAAATATATTAAATTTGCACTTAGTGAAATGTCTAGTG
1 CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
* * * *
19578989 CTGAAAAAGCTTGTGAAATGATGTAAAAGTTGAAATAAAATTTATATGAATTGTTTGATGAGTGT
66 CTGAAAAAGCTTATGAAATGATGTAAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTGT
* *
19579054 AAGCCTCCACTTCATAATGCTTGTAGCTAATCGGGTGTGTTTTCTTGTGTTTGTTG
131 AAGCCTCCACTTCATAATGCTTGTAGCCAATCGAGTGTGTTTTCTTGTGTTTGTTG
* * * *
19579110 CTTGTGTTTAGTTCCTAGAAAAAAATTGAAGTATATTGAATTTGCATTTAATGAAATGTCTAATG
1 CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
* **
19579175 CTGAAAAAGCTTATGAAATGAT-TCAACAGTTGAAAGAAGTTTTACATGAATTGTTTGATAAGTG
66 CTGAAAAAGCTTATGAAATGATGT-AAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTG
*
19579239 TAAGCCTCCACTTCATAGTGCTTGTAGCCAATCGAGTGTG
130 TAAGCCTCCACTTCATAATGCTTGTAGCCAATCGAGTGTG
19579279 GCAGCACATA
Statistics
Matches: 151, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
185 1 0.01
186 150 0.99
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (186 bp):
CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
CTGAAAAAGCTTATGAAATGATGTAAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTGT
AAGCCTCCACTTCATAATGCTTGTAGCCAATCGAGTGTGTTTTCTTGTGTTTGTTG
Found at i:19582304 original size:15 final size:14
Alignment explanation
Indices: 19582272--19582309 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
19582262 TACAATTTGT
*
19582272 AATAA-AATATATA
1 AATAATAATAGATA
19582285 AATAATAATAGATAA
1 AATAATAATAGAT-A
19582300 AATAATAATA
1 AATAATAATA
19582310 ATGAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 6 0.27
15 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AATAATAATAGATA
Found at i:19582354 original size:17 final size:17
Alignment explanation
Indices: 19582317--19582355 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
19582307 ATAATGAGAA
* * *
19582317 AAAAAGGAAAAAAACAT
1 AAAAAGAAAAAAAAAAG
19582334 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
19582351 AAAAA
1 AAAAA
19582356 CAAATAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:19583625 original size:16 final size:16
Alignment explanation
Indices: 19583604--19583635 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19583594 GGATTTATTA
19583604 TTTTTTTTTGGTTTGT
1 TTTTTTTTTGGTTTGT
*
19583620 TTTTTTTTTTGTTTGT
1 TTTTTTTTTGGTTTGT
19583636 AGTGGGTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTGGTTTGT
Found at i:19583885 original size:44 final size:45
Alignment explanation
Indices: 19583835--19584048 Score: 191
Period size: 44 Copynumber: 4.7 Consensus size: 45
19583825 ATTTCAACCT
* *
19583835 ACTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTTAATCTG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * *
19583880 A-TCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTGTAGCTATAGTTT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTT-TA---AT--CTG
* * * ** *
19583930 ATTCCACTGTAACTTCAGGGAGATAAGACTTGTTATATTCAATCT-
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTG
* * * *
19583975 ACTCAACTGCAACTTCAGGGGGATAAGATTTGTGGCTTTAATATG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* *
19584020 -CTTCACTACAACTTCAGGGAGATAAGATT
1 ACTCCACTGCAACTTCAGGGAGATAAGATT
19584049 CACAATGATG
Statistics
Matches: 134, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
44 65 0.49
45 30 0.22
46 1 0.01
48 4 0.03
50 2 0.01
51 28 0.21
52 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (45 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
Found at i:19584001 original size:96 final size:95
Alignment explanation
Indices: 19583837--19584012 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 95
19583827 TTCAACCTAC
* * *
19583837 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTTAATCTGATCCACTGCAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATATTCAATCTGATCAACTGCAACTTCAGGAAGA
19583902 TAAGATTTGTAGCTTGTAGCTATAGTTTAT
66 TAAGATTTGTAGCTTGTAGCTATAGTTTAT
* *
19583932 TCCACTGTAACTTCAGGGAGATAAGACTT-GTTATATTCAATCT-ACTCAACTGCAACTTCAGGG
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAG-TATATTCAATCTGA-TCAACTGCAACTTCAGGA
* *
19583995 GGATAAGATTTGTGGCTT
63 AGATAAGATTTGTAGCTT
19584013 TAATATGCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 27 0.38
96 44 0.62
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (95 bp):
TCCACTGCAACTTCAGGGAGATAAGATTAGTATATTCAATCTGATCAACTGCAACTTCAGGAAGA
TAAGATTTGTAGCTTGTAGCTATAGTTTAT
Found at i:19584230 original size:29 final size:29
Alignment explanation
Indices: 19584185--19584241 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19584175 TAATGATGAC
19584185 TTCAATCCATCCTACTGCAA-TTTCAGAGG
1 TTCAATCCATCCTACTGCAACTTT-AGAGG
*
19584214 TTCAATCTACTCC-ACTGCAACTTTAGAG
1 TTCAATCCA-TCCTACTGCAACTTTAGAG
19584242 AGATAAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (29 bp):
TTCAATCCATCCTACTGCAACTTTAGAGG
Found at i:19584268 original size:44 final size:45
Alignment explanation
Indices: 19584214--19584480 Score: 272
Period size: 44 Copynumber: 5.9 Consensus size: 45
19584204 ATTTCAGAGG
*
19584214 TTCAATCTACTCCACTGCAACTTTAGAGAGATAAGATTT-CTAGC
1 TTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACTAGC
* * **
19584258 TTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATT
1 TTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACTAGC
* * *
19584303 TTCGATCTACTCCATTGCAACTTCA-AGAGATAAGATCTA-TAGC
1 TTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACTAGC
* * **
19584346 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATA
1 TTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACTAGC
** * * *
19584391 TTTGATCTATTCCATTGCAACTTCA-AGGAGAAAAGATCTGTAACTTGTAGC
1 TTCAATCTACTCCACTGCAACTTCAGA-GAGATAAGAT-T-T-AC---TAGC
* *
19584442 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
1 TTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTT
19584481 GCCACGATAA
Statistics
Matches: 180, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
43 24 0.13
44 62 0.34
45 56 0.31
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 33 0.18
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (45 bp):
TTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTACTAGC
Found at i:19584348 original size:88 final size:88
Alignment explanation
Indices: 19584218--19584482 Score: 343
Period size: 88 Copynumber: 2.9 Consensus size: 88
19584208 CAGAGGTTCA
* * * * *
19584218 ATCTACTCCACTGCAACTTTAGAGAGATAAGATTTCTAGCTTCAATCTACTCTACTGCAACTTCA
1 ATCTACTCCATTGCAACTTCA-AGAGATAAGATCTATAGCTTCAATCTACTCCACTGCAACTTCA
19584283 GAGAGATAAGATTTGCTAT-TTTCG
65 GAGAGATAAGATTTGCTATATTT-G
*
19584307 ATCTACTCCATTGCAACTTCAAGAGATAAGATCTATAGCTTCAATCTGCTCCACTGCAACTTCAG
1 ATCTACTCCATTGCAACTTCAAGAGATAAGATCTATAGCTTCAATCTACTCCACTGCAACTTCAG
19584372 AGAGATAAGATTTGCTATATTTG
66 AGAGATAAGATTTGCTATATTTG
* * *
19584395 ATCTATTCCATTGCAACTTCAAGGAGAAAAGATCTGTAACTTGTAGCTTTAATCTACTCCACTGC
1 ATCTACTCCATTGCAACTTCAA-GAGATAAGATC--T-A----TAGCTTCAATCTACTCCACTGC
*
19584460 AACTTCAGGGAGATAAGATTTGC
58 AACTTCAGAGAGATAAGATTTGC
19584483 CACGATAACT
Statistics
Matches: 156, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
88 80 0.51
89 32 0.21
91 1 0.01
92 1 0.01
96 42 0.27
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (88 bp):
ATCTACTCCATTGCAACTTCAAGAGATAAGATCTATAGCTTCAATCTACTCCACTGCAACTTCAG
AGAGATAAGATTTGCTATATTTG
Found at i:19596443 original size:25 final size:27
Alignment explanation
Indices: 19596406--19596458 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19596396 TCAAACATGC
19596406 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
19596432 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
19596458 A
1 A
19596459 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:19597976 original size:26 final size:26
Alignment explanation
Indices: 19597940--19598049 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19597930 CATGAAATTC
19597940 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19597966 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
19597992 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
19598018 TTGTCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19598044 TTATCA
1 TTATCA
19598050 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19602250 original size:25 final size:27
Alignment explanation
Indices: 19602213--19602265 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19602203 TCAAACATGC
19602213 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
19602239 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
19602265 A
1 A
19602266 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:19603782 original size:26 final size:26
Alignment explanation
Indices: 19603746--19603854 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19603736 CATGAAATTC
19603746 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19603772 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
19603798 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
19603824 TT-TCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19603849 TTATCA
1 TTATCA
19603855 ATTTGTATAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 22 0.29
26 54 0.71
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19603848 original size:51 final size:52
Alignment explanation
Indices: 19603746--19603854 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
19603736 CATGAAATTC
19603746 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * *
19603798 TTATCATGGAATATTTACCTAATCCATT-TCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
19603849 TTATCA
1 TTATCA
19603855 ATTTGTATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 29 0.54
52 25 0.46
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:19612648 original size:33 final size:33
Alignment explanation
Indices: 19612571--19612652 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
19612561 TTTCCCCCAA
* * * * *
19612571 TACTTAACCTGATTATTGAGGCATCATCGCTGC
1 TACTTAACCTGCTTATAGGGGCACCATCACTGC
19612604 TACTTAACCTGCTTATAGGGGCACCATCACTGC
1 TACTTAACCTGCTTATAGGGGCACCATCACTGC
**
19612637 TACTTGGCCTGCTTAT
1 TACTTAACCTGCTTAT
19612653 TTGAACATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (33 bp):
TACTTAACCTGCTTATAGGGGCACCATCACTGC
Found at i:19625328 original size:75 final size:75
Alignment explanation
Indices: 19625169--19625328 Score: 187
Period size: 75 Copynumber: 2.1 Consensus size: 75
19625159 ATTTTAAAAT
* ** * *
19625169 TTTAAATATAATAATAAATAATGTTTAAATAATTTAATATAATGATATTTGTAAATAATATTTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
** *
19625234 ACATTTTTAG
66 ACAAATTGAG
***
19625244 GAAAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACAT-TAAATAAAAATTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
*
19625308 TATAAATTGAG
66 -ACAAATTGAG
*
19625319 TTTAGATATA
1 TTTAAATATA
19625329 CAAATACTTT
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
74 12 0.18
75 56 0.82
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.41
Consensus pattern (75 bp):
TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
ACAAATTGAG
Found at i:19625860 original size:21 final size:21
Alignment explanation
Indices: 19625819--19625862 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19625809 TAAAAAATTC
* *
19625819 AAATCAAATATTAATATTTTA
1 AAATCAAAAATTAATAATTTA
19625840 AAAT-AAAAATTAATAAATTTA
1 AAATCAAAAATTAAT-AATTTA
19625861 AA
1 AA
19625863 TTAATGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCAAAAATTAATAATTTA
Found at i:19625863 original size:20 final size:21
Alignment explanation
Indices: 19625813--19625863 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
19625803 CTTTAATAAA
* *
19625813 AAATTCAAATCAAATATTAAT
1 AAATTTAAATCAAAAATTAAT
*
19625834 -ATTTTAAAAT-AAAAATTAAT
1 AAATTT-AAATCAAAAATTAAT
19625854 AAATTTAAAT
1 AAATTTAAAT
19625864 TAATGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTAAATCAAAAATTAAT
Found at i:19634431 original size:43 final size:44
Alignment explanation
Indices: 19634384--19634474 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
19634374 TTATATTAAT
* * *
19634384 AAATTCAAAGGTTAGATTATTAAGATATTGAT-AGAAAATTATG
1 AAATTCAAAGGTTAAATTATTAAGATATTAATAAAAAAATTATG
* *
19634427 AAATTTAAAGGTTAAATTATTATGATATTAATAAAAAAATTATG
1 AAATTCAAAGGTTAAATTATTAAGATATTAATAAAAAAATTATG
19634471 AAAT
1 AAAT
19634475 AATATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 28 0.67
44 14 0.33
ACGTcount: A:0.51, C:0.01, G:0.12, T:0.36
Consensus pattern (44 bp):
AAATTCAAAGGTTAAATTATTAAGATATTAATAAAAAAATTATG
Found at i:19634470 original size:20 final size:18
Alignment explanation
Indices: 19634445--19634488 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
19634435 AGGTTAAATT
*
19634445 ATTATGATATTAATAAAAAA
1 ATTATGA-AATAAT-AAAAA
*
19634465 ATTATGAAATAATATAAA
1 ATTATGAAATAATAAAAA
19634483 ATTATG
1 ATTATG
19634489 TTAATTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 5 0.23
20 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
ATTATGAAATAATAAAAA
Found at i:19635631 original size:2 final size:2
Alignment explanation
Indices: 19635624--19635654 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19635614 AGGAAGAAGA
19635624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19635655 AAAGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19637229 original size:90 final size:89
Alignment explanation
Indices: 19637077--19637362 Score: 277
Period size: 81 Copynumber: 3.3 Consensus size: 89
19637067 CACACTTGGT
* * * * * *
19637077 TGTGGATAAACCA-CAAAGTTGTAGGTTAATATGCTGCCAAATGGTTGTGAATGCACAACATATT
1 TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
19637141 TGCAGATAAGAGCTACCAAAATATG
66 TGCAGATAAGAGCTACCAAAA-ATG
* *
19637166 TGTGGATGAACCACCAGTGTTGCAGGTTAATACGCTGTCAGATAGTTGTGAATGCACAACATATT
1 TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
*
19637231 TGC---T----GCTA-AAAAAATG
66 TGCAGATAAGAGCTACCAAAAATG
* * * * * * ** *
19637247 GGTGGGTGTACCA-CAAGTGTTGTAGGTTAATGCACTGCCAGATAGTTGTGAATATACAACATGT
1 TGTGGATGAACCACCAA-TGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATAT
* * *
19637311 TTGCAGATAAGAACTGCCGGAAAAATT
65 TTGCAGATAAGAGCTACC--AAAAATG
19637338 TGTGGATGAACCACCAATGTTGCAG
1 TGTGGATGAACCACCAATGTTGCAG
19637363 ATTATTAAAC
Statistics
Matches: 156, Mismatches: 28, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
80 2 0.01
81 57 0.37
82 4 0.03
83 4 0.03
84 1 0.01
87 1 0.01
88 2 0.01
89 12 0.08
90 47 0.30
91 23 0.15
92 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (89 bp):
TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
TGCAGATAAGAGCTACCAAAAATG
Found at i:19647206 original size:15 final size:15
Alignment explanation
Indices: 19647186--19647215 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19647176 TAAGCTTTTC
*
19647186 TCCTTTTTCTTTCTT
1 TCCTTTTTCTCTCTT
19647201 TCCTTTTTCTCTCTT
1 TCCTTTTTCTCTCTT
19647216 GTTTCGTTTT
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:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TCCTTTTTCTCTCTT
Found at i:19647295 original size:5 final size:5
Alignment explanation
Indices: 19647285--19647327 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
19647275 ATTCTTTTAT
19647285 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
19647328 TTACTTAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:19647368 original size:19 final size:19
Alignment explanation
Indices: 19647344--19647382 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19647334 AAGTAATAAG
19647344 TAAATAGA-TTATTATTATT
1 TAAATAGATTTATT-TTATT
*
19647363 TAAATATATTTATTTTATT
1 TAAATAGATTTATTTTATT
19647382 T
1 T
19647383 TAGCACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TAAATAGATTTATTTTATT
Found at i:19653969 original size:42 final size:43
Alignment explanation
Indices: 19653902--19654022 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
19653892 CATAGGATTT
* * * *
19653902 TCGATATCTATTTTGCGTGAAAGACCATGTCTGGGACATTGCCG
1 TCGATATCTAATTT-CGTGTAAGACCATGTCTGGGACAGTGCCA
* * *
19653946 TCG-TATCTAATTTCGTGTAAGACCCTGTCTTGGACAGTGGCA
1 TCGATATCTAATTTCGTGTAAGACCATGTCTGGGACAGTGCCA
* * * * *
19653988 TCGATATTTGATTACATGTAAGACCACGTCTGGGA
1 TCGATATCTAATTTCGTGTAAGACCATGTCTGGGA
19654023 TGCTGGCATT
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 26 0.42
43 33 0.53
44 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (43 bp):
TCGATATCTAATTTCGTGTAAGACCATGTCTGGGACAGTGCCA
Found at i:19662265 original size:20 final size:20
Alignment explanation
Indices: 19662248--19662288 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
19662238 CCACAAAAGC
19662248 CAAA-ACCAAAAAACAAAAA
1 CAAACACCAAAAAACAAAAA
*
19662267 CAAACACCAAAAGA-AAAAA
1 CAAACACCAAAAAACAAAAA
19662286 CAA
1 CAA
19662289 CCCAACAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.76, C:0.22, G:0.02, T:0.00
Consensus pattern (20 bp):
CAAACACCAAAAAACAAAAA
Found at i:19674782 original size:21 final size:21
Alignment explanation
Indices: 19674752--19674802 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
19674742 GTGTGAAAGG
19674752 AGGCACATGACATTGTGGCTA
1 AGGCACATGACATTGTGGCTA
*
19674773 AGGCATATGACATTGTGGCTA
1 AGGCACATGACATTGTGGCTA
19674794 AGGCACATG
1 AGGCACATG
19674803 CCCGTGTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (21 bp):
AGGCACATGACATTGTGGCTA
Found at i:19678543 original size:743 final size:744
Alignment explanation
Indices: 19677115--19678597 Score: 2163
Period size: 743 Copynumber: 2.0 Consensus size: 744
19677105 CCAGTTTGTG
* * *
19677115 CTAATATATTATAATGATTGTGGTGCCCCCAACCCGACCGAAATGGACCAACCCGAATCTTGAAT
1 CTAATATATTATAATGATTGTGGTGCCCCAAACCCGACCGAAATGGACCAACCCGAATCCTAAAT
* **
19677180 GTCACATTAACCACTTATGTGACTCTCCTTATCGGTCATCTGAACACACCATAAAACAAACCATC
66 GTCACATTAACCACTTATGTGACTCTCCTTATCAGTCATCCAAACACACCATAAAACAAACCATC
* *
19677245 ACACCATCAAACCATGTTTAAGCAAGTATTTTTAGTCATGCAAGCCTAAATCATGTTTCGATTAA
131 ACACCATCAAACCATGCTTAAGCAAGTATTTTCAGTCATGCAAGCCTAAATCATGTTTCGATTAA
* * *
19677310 CACAAATTAGCAATTTAAGAACAACGGTAAAATCATCATTTTGCATGTCATAGGTGAAAAACTTG
196 CACAAATTAGCAATTTAAGAACAACGATAAAATCATCATTTTGCATGTCATAGGCGAAAAACATG
*
19677375 TAAATCCTAAAATTAATCCAACAAGTGTCTTGAGCATTTTATTTTAAACCATTTGTGAAATTTTC
261 TAAATCCTAAAATTAATCCAACAAGTGTCTTGAGCATTTTATTTTAAACCATTTGTGAAAATTTC
*
19677440 AAGTTAAAACAACATTTAAAACTCACTTAATTTCAAAACCAAAATTTAAAGACTAAAATATAAAT
326 AAGTTAAAACAACATTTAAAACTCACTTAATTTCAAAACCAAAATTTAAAGACTAAAACATAAAT
* *
19677505 TTTAAAAAATATCCAAATAAACCATTTTAAGAAATTGAAGTTAACATATTGAAATTCAAGGTTTA
391 TTTAAAAAATATACAAATAAACCATTTTAAGAAATTAAAGTTAACATATTGAAATTCAAGGTTTA
*
19677570 AATCCATGTCATGTAATTTTTCAAAGCATTTCATGGTGTTTAAGGCCTCTAATTTTATTGTGTAA
456 AATCCATGTCATGTAATTTTTCAAAGCATTTCATGGTGTTTAAGGCCTCCAATTTTATTGTGTAA
* * * * * *
19677635 AAATCAGGACTAATTTGCAATAGTTTCAAAATATGCCCAGGACACTCTAAAAACCTTTTCATGAC
521 AAATCAGGAATAACTTGCAATAGTTTCAAAATATACCCAGAACACTCTAAAAACCTTGTCACGAC
* * ** * * * *
19677700 CATGCGATTTTCACGTCGTGACATCGATCCCTTTTCGTGACATTCTATAAGGCTTGTTGCGACAT
586 CACGCAATTTTCACGTCGCAACATCAATCCATTTTCATGACATCCTATAAGGCTTGTTGCGACAT
* * * *
19677765 CGATGGAAAGAATTATAAGAAAATTCTAGTTCTTACATATAACACTTTGATATTCAAATGCACAT
651 CGATAGAAAGAATTATAAAAAAATTCTAATTCTTACATATAACACTTTGATACTCAAATGCACAT
* *
19677830 ACTAAGTCGTCGTTTCATGTCATTTCGTA
716 ACCAAGTCGTCGTTTCATGCCATTTCGTA
* * * * * ** *
19677859 CTAATATGTTCTAATGATTGTGGTGCCCTAAACCCGACCGGAGTGGACTGACCTGAATCCTAAAT
1 CTAATATATTATAATGATTGTGGTGCCCCAAACCCGACCGAAATGGACCAACCCGAATCCTAAAT
* * *
19677924 GTCACATTAGCCACTTATGTGACTCTCTTTA-CTAGTCATCCAAACACACCATAAAACCAACCAT
66 GTCACATTAACCACTTATGTGACTCTCCTTATC-AGTCATCCAAACACACCATAAAACAAACCAT
* * *
19677988 CACACCATCAAACTATGCTTAATCAAGTATTTTCA-TCATGCAAGCCTAAATCATGTTTTGATTA
130 CACACCATCAAACCATGCTTAAGCAAGTATTTTCAGTCATGCAAGCCTAAATCATGTTTCGATTA
* * *
19678052 ATACAAATTAGCAATTTAAGAACAACGATAAAATCCTCATTTTGCATGTCATTGGCGAAAAACAT
195 ACACAAATTAGCAATTTAAGAACAACGATAAAATCATCATTTTGCATGTCATAGGCGAAAAACAT
* *
19678117 GTAAATCCTATAATTAATCTAACAAGTGTCTT-AGGCATTTTATTTTAAACCATTTGTGAAAATT
260 GTAAATCCTAAAATTAATCCAACAAGTGTCTTGA-GCATTTTATTTTAAACCATTTGTGAAAATT
* *
19678181 TCAAGTTAAAACAACATTTAAAACTCACTTAATTTCAAAACCAAAATTTAAGGACTAAACCATAA
324 TCAAGTTAAAACAACATTTAAAACTCACTTAATTTCAAAACCAAAATTTAAAGACTAAAACATAA
* * * *
19678246 ATTTTATAAAATATACAGATAAATCATTTTAATAAATTAAAGTTAACATATTGAAATTCAAGGTT
389 ATTTTAAAAAATATACAAATAAACCATTTTAAGAAATTAAAGTTAACATATTGAAATTCAAGGTT
* * * * *
19678311 TAAATCCATTTTATGTAATTTTTTTAAAGCATTTCGTGGTGTTTAAGTCCTCCAATTTTATTGTG
454 TAAATCCATGTCATGTAA-TTTTTCAAAGCATTTCATGGTGTTTAAGGCCTCCAATTTTATTGTG
* * * * *
19678376 TAAAAATCAGGAATGACTTGTAATAGTTTCAAAATATACCTAGAACACTCTAAAATCCTTGTCGC
518 TAAAAATCAGGAATAACTTGCAATAGTTTCAAAATATACCCAGAACACTCTAAAAACCTTGTCAC
* *
19678441 GACCACGCAATTTTCATG-CGCAACATCAAT-CATTTGTCATGACATCCTATAGGGCTTGTTGCG
583 GACCACGCAATTTTCACGTCGCAACATCAATCCATTT-TCATGACATCCTATAAGGCTTGTTGCG
*
19678504 ATATCGACTAGAAA-AATTGCA-AAAAAAATTC-AATTCTTACATATAACACTTTGATACTCAAA
647 ACATCGA-TAGAAAGAATT--ATAAAAAAATTCTAATTCTTACATATAACACTTTGATACTCAAA
* *
19678566 TGCACATACCAATTCGTGGTTTCATGCCATTT
709 TGCACATACCAAGTCGTCGTTTCATGCCATTT
19678598 TCCCTATTCT
Statistics
Matches: 656, Mismatches: 76, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
742 5 0.01
743 384 0.59
744 266 0.41
745 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (744 bp):
CTAATATATTATAATGATTGTGGTGCCCCAAACCCGACCGAAATGGACCAACCCGAATCCTAAAT
GTCACATTAACCACTTATGTGACTCTCCTTATCAGTCATCCAAACACACCATAAAACAAACCATC
ACACCATCAAACCATGCTTAAGCAAGTATTTTCAGTCATGCAAGCCTAAATCATGTTTCGATTAA
CACAAATTAGCAATTTAAGAACAACGATAAAATCATCATTTTGCATGTCATAGGCGAAAAACATG
TAAATCCTAAAATTAATCCAACAAGTGTCTTGAGCATTTTATTTTAAACCATTTGTGAAAATTTC
AAGTTAAAACAACATTTAAAACTCACTTAATTTCAAAACCAAAATTTAAAGACTAAAACATAAAT
TTTAAAAAATATACAAATAAACCATTTTAAGAAATTAAAGTTAACATATTGAAATTCAAGGTTTA
AATCCATGTCATGTAATTTTTCAAAGCATTTCATGGTGTTTAAGGCCTCCAATTTTATTGTGTAA
AAATCAGGAATAACTTGCAATAGTTTCAAAATATACCCAGAACACTCTAAAAACCTTGTCACGAC
CACGCAATTTTCACGTCGCAACATCAATCCATTTTCATGACATCCTATAAGGCTTGTTGCGACAT
CGATAGAAAGAATTATAAAAAAATTCTAATTCTTACATATAACACTTTGATACTCAAATGCACAT
ACCAAGTCGTCGTTTCATGCCATTTCGTA
Found at i:19681296 original size:94 final size:94
Alignment explanation
Indices: 19681126--19681300 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 94
19681116 ACAATGACAA
19681126 CTCGCGCATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTACTTGCACATACATTTCAA
1 CTCGCGCATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTACTTGCACATACATTTCAA
* * **
19681191 ATATAGTTAGCACATGCATGGTAAAACAG
66 AGACAACTAGCACATGCATGGTAAAACAG
* * * *
19681220 CTCGTGCATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTTGCACATACATTTCAA
1 CTCGCGCATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTACTTGCACATACATTTCAA
19681285 AGACAACTAGCACATG
66 AGACAACTAGCACATG
19681301 AAAGATAGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (94 bp):
CTCGCGCATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTACTTGCACATACATTTCAA
AGACAACTAGCACATGCATGGTAAAACAG
Found at i:19681300 original size:47 final size:47
Alignment explanation
Indices: 19681132--19681289 Score: 210
Period size: 47 Copynumber: 3.4 Consensus size: 47
19681122 ACAACTCGCG
* *
19681132 CATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTACTTGCA
1 CATACATTTCAAAGACAGCTCACACATGCATGGTAAAACTGCTTGCA
* * * * * **
19681179 CATACATTTCAAATATAG-TTAGCACATGCATGGTAAAACAGCTCGTG
1 CATACATTTCAAAGACAGCTCA-CACATGCATGGTAAAACTGCTTGCA
*
19681226 CATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTTGCA
1 CATACATTTCAAAGACAGCTCACACATGCATGGTAAAACTGCTTGCA
19681273 CATACATTTCAAAGACA
1 CATACATTTCAAAGACA
19681290 ACTAGCACAT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 2 0.02
47 89 0.96
48 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CATACATTTCAAAGACAGCTCACACATGCATGGTAAAACTGCTTGCA
Found at i:19682014 original size:20 final size:20
Alignment explanation
Indices: 19681983--19682058 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
19681973 AAACCAATAA
*
19681983 GGGCACCGAAGTGCATA-CAG
1 GGGCACCAAAGTGCA-ACCAG
*
19682003 GGACACCAAAGTGCAACCAG
1 GGGCACCAAAGTGCAACCAG
* *
19682023 GGGCACGAAAGTGCAATCAG
1 GGGCACCAAAGTGCAACCAG
*
19682043 GGGCACCAGAGTGCAA
1 GGGCACCAAAGTGCAA
19682059 TTCAAGGGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.34, C:0.25, G:0.33, T:0.08
Consensus pattern (20 bp):
GGGCACCAAAGTGCAACCAG
Found at i:19682035 original size:40 final size:40
Alignment explanation
Indices: 19681983--19682079 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
19681973 AAACCAATAA
19681983 GGGCACCGAAGTGC-ATACAGGGACACCAAAGTGCAACCAG
1 GGGCACCGAAGTGCAAT-CAGGGACACCAAAGTGCAACCAG
* * * *
19682023 GGGCA-CGAAAGTGCAATCAGGGGCACCAGAGTGCAATTCAA
1 GGGCACCG-AAGTGCAATCAGGGACACCAAAGTGCAA-CCAG
*
19682064 GGGCACCGGAGTGCAA
1 GGGCACCGAAGTGCAA
19682080 ATCATACATC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
39 2 0.04
40 28 0.58
41 16 0.33
42 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.33, T:0.09
Consensus pattern (40 bp):
GGGCACCGAAGTGCAATCAGGGACACCAAAGTGCAACCAG
Found at i:19682059 original size:20 final size:20
Alignment explanation
Indices: 19681983--19682079 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
19681973 AAACCAATAA
19681983 GGGCACC-GAAGTGC-ATACAG
1 GGGCACCAG-AGTGCAAT-CAG
* * *
19682003 GGACACCAAAGTGCAACCAG
1 GGGCACCAGAGTGCAATCAG
* *
19682023 GGGCACGAAAGTGCAATCAG
1 GGGCACCAGAGTGCAATCAG
*
19682043 GGGCACCAGAGTGCAATTCAA
1 GGGCACCAGAGTGCAA-TCAG
*
19682064 GGGCACCGGAGTGCAA
1 GGGCACCAGAGTGCAA
19682080 ATCATACATC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
20 45 0.70
21 19 0.30
ACGTcount: A:0.33, C:0.25, G:0.33, T:0.09
Consensus pattern (20 bp):
GGGCACCAGAGTGCAATCAG
Found at i:19686609 original size:3 final size:3
Alignment explanation
Indices: 19686601--19686643 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19686591 CCTTAATGAT
19686601 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19686644 CCATATCATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19687198 original size:29 final size:30
Alignment explanation
Indices: 19687159--19687218 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
19687149 TAATTACACA
*
19687159 AACCTTTAAGTGATGGCAGTTATAATTTTT
1 AACCTTTAAGTAATGGCAGTTATAATTTTT
*
19687189 AACC-TTAAGTAATGGCGGTTATAATTTTT
1 AACCTTTAAGTAATGGCAGTTATAATTTTT
19687218 A
1 A
19687219 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (30 bp):
AACCTTTAAGTAATGGCAGTTATAATTTTT
Found at i:19687797 original size:3 final size:3
Alignment explanation
Indices: 19687791--19687829 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
19687781 AAAAAACCCT
*
19687791 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AA- AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
19687830 CTGTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19695109 original size:14 final size:13
Alignment explanation
Indices: 19695087--19695128 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
19695077 AGATAAAATA
19695087 AATTATTTTTTAT
1 AATTATTTTTTAT
*
19695100 AATTGTTTTTTAT
1 AATTATTTTTTAT
19695113 AATTATATTTTTAT
1 AATTAT-TTTTTAT
19695127 AA
1 AA
19695129 AATAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
AATTATTTTTTAT
Found at i:19695417 original size:21 final size:21
Alignment explanation
Indices: 19695391--19695457 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 21
19695381 CATGTTTGAT
19695391 ATTATAAATTTTAATTATAAA
1 ATTATAAATTTTAATTATAAA
*
19695412 ATTATATAATTTATAATTTTAAA
1 ATTATA-AATTT-TAATTATAAA
* *
19695435 AATAT-TA-TTT-ATTATAAA
1 ATTATAAATTTTAATTATAAA
19695453 ATTAT
1 ATTAT
19695458 TAGTATGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.28
19 1 0.03
20 2 0.05
21 7 0.18
22 5 0.13
23 13 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATAAATTTTAATTATAAA
Found at i:19696235 original size:31 final size:31
Alignment explanation
Indices: 19696197--19696259 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
19696187 TAAAGAGGAA
*
19696197 GAAAAAGATTGTGATTTCTCAGTCAAACTTT
1 GAAAAAGATTATGATTTCTCAGTCAAACTTT
19696228 GAAAAAGATTATGATTTCTCAGTCAAACTTT
1 GAAAAAGATTATGATTTCTCAGTCAAACTTT
19696259 G
1 G
19696260 TTTATGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (31 bp):
GAAAAAGATTATGATTTCTCAGTCAAACTTT
Found at i:19698630 original size:100 final size:100
Alignment explanation
Indices: 19698514--19698713 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
19698504 ATGCAAATTA
* *
19698514 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTTAAATTTATGGTATCTAAATGATCTGT
1 ACATATTTTATATGTTGGAATTATTGAGATCGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
19698579 ATGAATGTATCTGAAGGTTGATAAATTTCATATTG
66 ATGAATGTATCTGAAGGTTGATAAATTTCATATTG
19698614 ACATATTTTATATGTTGGAATTATTGAGATCGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
1 ACATATTTTATATGTTGGAATTATTGAGATCGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
* *
19698679 ATGAATGTGTCTGAAGGTTGATAAATTTCCTATTG
66 ATGAATGTATCTGAAGGTTGATAAATTTCATATTG
19698714 TGTGACAATG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (100 bp):
ACATATTTTATATGTTGGAATTATTGAGATCGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
ATGAATGTATCTGAAGGTTGATAAATTTCATATTG
Done.