Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 45 of 79
Found at i:14989348 original size:18 final size:18
Alignment explanation
Indices: 14989284--14989348 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
14989274 GTTCCTCACT
*
14989284 TGCATCTTCTTCCTCGAC
1 TGCATCTTCTTCCTTGAC
* * * *
14989302 CGTATCTTCTTGCTT-AT
1 TGCATCTTCTTCCTTGAC
* *
14989319 TAGGATCATCTTCCTTGAC
1 T-GCATCTTCTTCCTTGAC
14989338 TGCATCTTCTT
1 TGCATCTTCTT
14989349 GCTCATTAGG
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
17 1 0.03
18 30 0.91
19 2 0.06
ACGTcount: A:0.14, C:0.29, G:0.12, T:0.45
Consensus pattern (18 bp):
TGCATCTTCTTCCTTGAC
Found at i:14991726 original size:23 final size:23
Alignment explanation
Indices: 14991666--14991744 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 23
14991656 CTAAGCCAAA
*
14991666 AAACCATAAAAATATTAAAACCCT
1 AAACC-TAAAAATATTAAAAACCT
*
14991690 AAACCCTAAGAATATTAAAAACCT
1 AAA-CCTAAAAATATTAAAAACCT
*
14991714 AAACCTAAAAATATTTAAAACCAT
1 AAACCTAAAAATATTAAAAACC-T
*
14991738 AACCCTA
1 AAACCTA
14991745 GGAGAGAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 17 0.35
24 29 0.60
25 2 0.04
ACGTcount: A:0.56, C:0.22, G:0.01, T:0.22
Consensus pattern (23 bp):
AAACCTAAAAATATTAAAAACCT
Found at i:14992191 original size:15 final size:17
Alignment explanation
Indices: 14992171--14992202 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14992161 TATATGTATA
14992171 AAAT-AATATA-CACAT
1 AAATAAATATACCACAT
14992186 AAATAAATATACCACAT
1 AAATAAATATACCACAT
14992203 CTAGATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 6 0.40
17 5 0.33
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATATACCACAT
Found at i:14994568 original size:45 final size:45
Alignment explanation
Indices: 14994499--14994589 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
14994489 AGATACTTGA
* * *
14994499 TGGATTCAGCCCATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
*
14994544 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
14994589 T
1 T
14994590 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:14998684 original size:135 final size:136
Alignment explanation
Indices: 14998528--14998801 Score: 435
Period size: 138 Copynumber: 2.0 Consensus size: 136
14998518 AGTTTGAGGG
* * *
14998528 ACTTAAATAGTAATTATTCCAAGGACTAAAATGATTAAAAATCAATTTTAG-T-TAGATATTGGA
1 ACTTAAATAGTAATTATTCCAAAGACTAAAATGATTAAAAATAAATTTTAGTTATAGATAGTGGA
* *
14998591 TACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATTATTAACTAAGAGTAATTAA
66 TACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAACTAAGAGTAATT-A
14998656 ATATAAA
130 ATATAAA
* *
14998663 ACTTAGATAGTAATTATTCCAAAGACTAAAATGGTTAAAAATAAATTTTAGTTAATAGATAGTGG
1 ACTTAAATAGTAATTATTCCAAAGACTAAAATGATTAAAAATAAATTTTAGTT-ATAGATAGTGG
* *
14998728 ATGCTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAATTAAGAGTAATTA
65 ATACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAACTAAGAGTAATTA
14998793 ATATAAA
130 ATATAAA
14998800 AC
1 AC
14998802 ATGATTAACT
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
135 47 0.37
136 1 0.01
137 10 0.08
138 69 0.54
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (136 bp):
ACTTAAATAGTAATTATTCCAAAGACTAAAATGATTAAAAATAAATTTTAGTTATAGATAGTGGA
TACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAACTAAGAGTAATTAA
TATAAA
Found at i:15008039 original size:13 final size:13
Alignment explanation
Indices: 15007995--15008049 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
15007985 ATTCCCAAAT
15007995 CAAAATCCAAAGTCC
1 CAAAA-CCAAAGT-C
*
15008010 CAAAACCAAA-AC
1 CAAAACCAAAGTC
15008022 CAAAACCAAAGTC
1 CAAAACCAAAGTC
**
15008035 CAAAATTAAAGTC
1 CAAAACCAAAGTC
15008048 CA
1 CA
15008050 CAGTAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.31
13 14 0.40
14 5 0.14
15 5 0.14
ACGTcount: A:0.55, C:0.29, G:0.05, T:0.11
Consensus pattern (13 bp):
CAAAACCAAAGTC
Found at i:15008795 original size:36 final size:35
Alignment explanation
Indices: 15008755--15008861 Score: 117
Period size: 35 Copynumber: 3.0 Consensus size: 35
15008745 ACGGTTTAAC
15008755 ATAATGGCATGCTTAACATGCGAATCAGAATCAGAA
1 ATAATGGCATGCTTAACATGCGAATCAGAATCA-AA
* * *
15008791 ATAATGGCATGCTTAATATG-TAAGTCAAAATCAAA
1 ATAATGGCATGCTTAACATGCGAA-TCAGAATCAAA
* * * * *
15008826 AGAATAGCATGCTTAACTTGCGAATTAGAATAAAA
1 ATAATGGCATGCTTAACATGCGAATCAGAATCAAA
15008861 A
1 A
15008862 AATATTAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
35 29 0.50
36 29 0.50
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (35 bp):
ATAATGGCATGCTTAACATGCGAATCAGAATCAAA
Found at i:15017581 original size:3 final size:3
Alignment explanation
Indices: 15017573--15017604 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15017563 ATTTAATCTT
15017573 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15017605 TAAAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15018369 original size:23 final size:23
Alignment explanation
Indices: 15018335--15018390 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
15018325 GAAATGTGTA
* *
15018335 AAAAATATATAAATAT-AAATAG
1 AAAAATAAATAAAGATGAAATAG
15018357 ACAAAATAAATAAAGATGAAATAG
1 A-AAAATAAATAAAGATGAAATAG
15018381 AATAAATAAA
1 AA-AAATAAA
15018391 AATTATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 1 0.03
23 14 0.48
24 14 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (23 bp):
AAAAATAAATAAAGATGAAATAG
Found at i:15019089 original size:21 final size:24
Alignment explanation
Indices: 15019064--15019110 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
15019054 TTAAAATGAC
15019064 TTAAAAAA-C-AAATTT-TTATTT
1 TTAAAAAATCTAAATTTCTTATTT
*
15019085 TTAAAAAATCTAAATTTCTTTTTT
1 TTAAAAAATCTAAATTTCTTATTT
15019109 TT
1 TT
15019111 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 1 0.05
23 6 0.27
24 7 0.32
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAAAAATCTAAATTTCTTATTT
Found at i:15019416 original size:160 final size:157
Alignment explanation
Indices: 15018954--15019418 Score: 651
Period size: 161 Copynumber: 3.0 Consensus size: 157
15018944 AAAATCAAAG
* * * *
15018954 TTTTCTTTAAAAAAAATTACTACTTTTCTTAAAAATTAAAAC--TTATTTCGAAATAGTTG--AA
1 TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
* * * *
15019015 -AAAGATCAAAACTTTGTTTTAAAAATTTAAACTTTTTCTTTAAAATGACTTAAAAAACAAATTT
66 CAAAAATCAAAACTTTGTTTTAAAAATTTAAAC-TTTCCTTTAAAATGAC-TAAAAAATATATTT
15019079 TTATTTTTAAAAAATCTAAA--TTTCTTTT
129 TTATTTTT-AAAAATCTAAACTTTTCTTTT
* * *
15019107 TTTTCTTTT-AAAAAATTACTATTTTTATTAAAGATCAAAGTTTTTATTTCGAAATAGTTGAAAA
1 TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
* *
15019171 CAAAAATCAAAACTTTGTTTTAAAAATTTTAACTTTCCTTTGAAATGACTAAAATAATATATTTT
66 CAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAA-AATATATTTT
*
15019236 TATTTTTAAAAATATAAACTTTCTCTAATTT
130 TATTTTTAAAAATCTAAACTTT-TCT--TTT
*
15019267 TTTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
1 TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
*
15019332 CAAAAAT-AAAATCTTTGTTTTAAAAATTTAAACATTCCTTTAAAATGACTAAAAAATATATTTT
66 CAAAAATCAAAA-CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAATATATTTT
15019396 TATTTTTAAAAATCTAAACTTTT
130 TATTTTTAAAAATCTAAACTTTT
15019419 TCTTAAGATC
Statistics
Matches: 277, Mismatches: 22, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
152 26 0.09
153 8 0.03
154 17 0.06
155 15 0.05
156 31 0.11
157 32 0.12
158 3 0.01
159 1 0.00
160 47 0.17
161 97 0.35
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (157 bp):
TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
CAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAATATATTTTT
ATTTTTAAAAATCTAAACTTTTCTTTT
Found at i:15030079 original size:66 final size:66
Alignment explanation
Indices: 15029996--15030128 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
15029986 GAAATACAAC
* *
15029996 CTTAAAAGTTTGATGGGTGATGTGATGGTCCCAAACTGATACCATGGCTTCTCGACAAGTCCAAA
1 CTTAAAAGTTCGATGGGTGATGTGATGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
15030061 A
66 A
*
15030062 CTTAAAAGTTCGATGGGTGATGTGGTGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
1 CTTAAAAGTTCGATGGGTGATGTGATGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
15030127 A
66 A
15030128 C
1 C
15030129 CTACATGTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (66 bp):
CTTAAAAGTTCGATGGGTGATGTGATGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
A
Found at i:15036753 original size:9 final size:9
Alignment explanation
Indices: 15036739--15036769 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15036729 GTTAAACGAA
15036739 TCGAGTTAT
1 TCGAGTTAT
*
15036748 TCGAGTTAA
1 TCGAGTTAT
15036757 TCGAGTTAT
1 TCGAGTTAT
15036766 TCGA
1 TCGA
15036770 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15036839 original size:9 final size:9
Alignment explanation
Indices: 15036822--15036858 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15036812 TGAGTTTTCG
15036822 AATTCGAAT
1 AATTCGAAT
*
15036831 AACTCGAAT
1 AATTCGAAT
15036840 AATTCGAAT
1 AATTCGAAT
15036849 AATTCGAAT
1 AATTCGAAT
15036858 A
1 A
15036859 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15037700 original size:5 final size:5
Alignment explanation
Indices: 15037690--15037715 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15037680 CTCGAAAATT
15037690 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
15037716 CGAATGCTCA
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:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:15040386 original size:37 final size:37
Alignment explanation
Indices: 15040336--15040414 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
15040326 CCTGGAATTG
15040336 CCATGGCATTTCTGTTGGCAATATATCCCACCATTTA
1 CCATGGCATTTCTGTTGGCAATATATCCCACCATTTA
*
15040373 CCATGGCATTTCTGTTGGCAATATATCCCACCATTTT
1 CCATGGCATTTCTGTTGGCAATATATCCCACCATTTA
15040410 CCATG
1 CCATG
15040415 ACAATGTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (37 bp):
CCATGGCATTTCTGTTGGCAATATATCCCACCATTTA
Found at i:15055664 original size:20 final size:20
Alignment explanation
Indices: 15055639--15055679 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15055629 GACATATGGT
* *
15055639 CGTGTCTGTGCTCGTGTGGA
1 CGTGTCTATGCCCGTGTGGA
15055659 CGTGTCTATGCCCGTGTGGA
1 CGTGTCTATGCCCGTGTGGA
15055679 C
1 C
15055680 AAAAAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.24, G:0.37, T:0.32
Consensus pattern (20 bp):
CGTGTCTATGCCCGTGTGGA
Found at i:15056831 original size:25 final size:25
Alignment explanation
Indices: 15056772--15056836 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
15056762 TTGTACATGT
** * *
15056772 ATGCTCACACAAGCTGTAAATCAAA
1 ATGCTCACATGAGCTATAAAGCAAA
*
15056797 ATGCTCACATGAGCTATAAAGCAGA
1 ATGCTCACATGAGCTATAAAGCAAA
15056822 ATGCTCACATGAGCT
1 ATGCTCACATGAGCT
15056837 GTGGAGTACC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (25 bp):
ATGCTCACATGAGCTATAAAGCAAA
Found at i:15070746 original size:39 final size:39
Alignment explanation
Indices: 15070702--15070901 Score: 276
Period size: 39 Copynumber: 5.2 Consensus size: 39
15070692 TGGGATAATT
15070702 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
1 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
* ** *
15070741 ATTCTATTGAAAGTATATTCAATCGAGCCATACCCACT-
1 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
* * * * *
15070779 ATTCTATTGAATGTATGATCAATCGAGTCATACTTACTG
1 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
* *
15070818 ATTCTACTAAAAGTATGCTCAATTGAGCCATACCTACTG
1 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
* *
15070857 ATTCTACTGAAAGTATGCTCAATCAAGCCATACCCACTG
1 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
15070896 ATTCTA
1 ATTCTA
15070902 TAGAAATTTG
Statistics
Matches: 139, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 32 0.23
39 107 0.77
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.32
Consensus pattern (39 bp):
ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTG
Found at i:15070831 original size:77 final size:77
Alignment explanation
Indices: 15070701--15070901 Score: 276
Period size: 77 Copynumber: 2.6 Consensus size: 77
15070691 ATGGGATAAT
* * *
15070701 TATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTGATTCTATTGAAAGTATATTCAATCG
1 TATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTGATTCTACTAAAAGTATACTCAATCG
15070766 AGCCATACCCAC
66 AGCCATACCCAC
* * * * * * *
15070778 TATTCTATTGAATGTATGATCAATCGAGTCATACTTACTGATTCTACTAAAAGTATGCTCAATTG
1 TATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTGATTCTACTAAAAGTATACTCAATCG
*
15070843 AGCCATACCTAC
66 AGCCATACCCAC
* *
15070855 TGATTCTACTGAAAGTATGCTCAATCAAGCCATACCCACTGATTCTA
1 T-ATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTGATTCTA
15070902 TAGAAATTTG
Statistics
Matches: 105, Mismatches: 18, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
77 67 0.64
78 38 0.36
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (77 bp):
TATTCTACTGAAAGTATGCTCAATCGAGCCATACCTACTGATTCTACTAAAAGTATACTCAATCG
AGCCATACCCAC
Found at i:15076304 original size:17 final size:17
Alignment explanation
Indices: 15076282--15076318 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
15076272 GGCTATGTTG
15076282 GACTGAGTTGGGTGAGC
1 GACTGAGTTGGGTGAGC
15076299 GACTGAGTTGGGTGAGC
1 GACTGAGTTGGGTGAGC
15076316 GAC
1 GAC
15076319 GGATTTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.46, T:0.22
Consensus pattern (17 bp):
GACTGAGTTGGGTGAGC
Found at i:15079393 original size:44 final size:44
Alignment explanation
Indices: 15079330--15079505 Score: 352
Period size: 44 Copynumber: 4.0 Consensus size: 44
15079320 GAGTTCTCTG
15079330 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
1 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
15079374 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
1 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
15079418 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
1 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
15079462 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
1 AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
15079506 CTTCAGTTTA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 132 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (44 bp):
AGTCGACCCAACTCCACTTCATGATTCATATGTGGAATCCTACT
Found at i:15080645 original size:57 final size:57
Alignment explanation
Indices: 15080535--15080656 Score: 133
Period size: 57 Copynumber: 2.1 Consensus size: 57
15080525 CTGATATACA
* * *
15080535 AAAAAGAAGGAAAAAAAATTTGGGTGCTGGCTTATCAATGGCTAGCACCCAGTAC-G-
1 AAAAA-AAGGAAAAAAAATTTAGGTGCTAGCCTATCAATGGCTAGCACCCAGTACAGT
* * *
15080591 AAAAAAAGGAAAAAAAAATTTTAGGTGCTAGCCTGTCAATGG-TCGGCACTCAGTACAGT
1 AAAAAAAGG-AAAAAAAA-TTTAGGTGCTAGCCTATCAATGGCT-AGCACCCAGTACAGT
15080650 AAAAAAA
1 AAAAAAA
15080657 ATTCGAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
55 4 0.07
56 14 0.25
57 29 0.53
58 1 0.02
59 7 0.13
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (57 bp):
AAAAAAAGGAAAAAAAATTTAGGTGCTAGCCTATCAATGGCTAGCACCCAGTACAGT
Found at i:15080746 original size:108 final size:105
Alignment explanation
Indices: 15080567--15080767 Score: 285
Period size: 108 Copynumber: 1.9 Consensus size: 105
15080557 GGTGCTGGCT
* *
15080567 TATCAATGGCTAGCACCCAGTACGAAAAAAAGGAAAAAAAAATTTTAGGTGCTAGCCTGTCAATG
1 TATCAATGGCCAGCACCCAGTACAAAAAAAAGGAAAAAAAAATTTTAGGTGCTAGCCTGTCAATG
* *
15080632 GTCGGCACTCAGTACAGTAAAAAAAATTCGAGTTTTGGTC
66 GCCGGCACCCAGTACAGTAAAAAAAATTCGAGTTTTGGTC
* * * * *
15080672 TATCAATGGCCGGCACCAGAGTACAAAAAAAAGTTAAAAAAAAATTTTTGGGTGCTGGCCTGTCA
1 TATCAATGGCCAGCACC-CAGTACAAAAAAAAG-GAAAAAAAAA-TTTTAGGTGCTAGCCTGTCA
*
15080737 ATGGCCGGCACCCAGTATAGTAAAAAAAATT
63 ATGGCCGGCACCCAGTACAGTAAAAAAAATT
15080768 ACTTTTTTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
105 15 0.18
106 13 0.16
107 9 0.11
108 46 0.55
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (105 bp):
TATCAATGGCCAGCACCCAGTACAAAAAAAAGGAAAAAAAAATTTTAGGTGCTAGCCTGTCAATG
GCCGGCACCCAGTACAGTAAAAAAAATTCGAGTTTTGGTC
Found at i:15081503 original size:49 final size:49
Alignment explanation
Indices: 15081361--15081511 Score: 126
Period size: 49 Copynumber: 3.1 Consensus size: 49
15081351 AAAGAATTTT
* * *
15081361 TTTTGGGTGCTGGCCTATCAATGGTCGGCACCTAGTACAGT-AAAAAAA
1 TTTTGGGTGCTGGCCTATCAATGGACGGCACCCAGTACAATAAAAAAAA
* * * ** * * * * ** * *
15081409 TATCGAGTTTTGGTCTGTCAATGGCCGACACTAGAGTTCGA-AAAAAAAA
1 TTTTGGGTGCTGGCCTATCAATGGACGGCAC-CCAGTACAATAAAAAAAA
15081458 TTTTGGGTGCTGGCCTATCAATGGACGGCACCCAGTACAATAAAAAAAAA
1 TTTTGGGTGCTGGCCTATCAATGGACGGCACCCAGTACAAT-AAAAAAAA
15081508 TTTT
1 TTTT
15081512 ATTGCACTGG
Statistics
Matches: 72, Mismatches: 27, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
48 27 0.38
49 33 0.46
50 12 0.17
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (49 bp):
TTTTGGGTGCTGGCCTATCAATGGACGGCACCCAGTACAATAAAAAAAA
Found at i:15083181 original size:18 final size:18
Alignment explanation
Indices: 15083158--15083192 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15083148 TTTTGAGCTA
15083158 AATAAAGTGAGTTATTCG
1 AATAAAGTGAGTTATTCG
*
15083176 AATAAATTGAGTTATTC
1 AATAAAGTGAGTTATTC
15083193 TAGGCAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
AATAAAGTGAGTTATTCG
Found at i:15084732 original size:31 final size:31
Alignment explanation
Indices: 15084704--15084764 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
15084694 ACCAAAAATT
15084704 TATTTTAAAAAT-TTAAAAAAATTAAAAAAAG
1 TATTTTAAAAATATT-AAAAAATTAAAAAAAG
**
15084735 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTAAAAAATTAAAAAAA
15084765 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
TATTTTAAAAATATTAAAAAATTAAAAAAAG
Found at i:15084763 original size:41 final size:42
Alignment explanation
Indices: 15084704--15084784 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
15084694 ACCAAAAATT
*
15084704 TATTTTAAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
15084746 TATTTT-AAAATTAAAAAAAATTAAAAAAAGTATTTTAAA
1 TATTTTAAAAATTAAAAAAAATTAAAAAAAGTATTTTAAA
15084785 GGGCGGGCCG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 32 0.84
42 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (42 bp):
TATTTTAAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:15087727 original size:5 final size:5
Alignment explanation
Indices: 15087717--15087752 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
15087707 TGAGCATTCG
15087717 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
15087753 AATTTTCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:15093078 original size:21 final size:21
Alignment explanation
Indices: 15093049--15093098 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
15093039 TTGTCCTTGG
15093049 TGTCACGACACCACTAGAGGA
1 TGTCACGACACCACTAGAGGA
* *
15093070 TGTCGCGACACCACTGGAGGA
1 TGTCACGACACCACTAGAGGA
*
15093091 TGTTACGA
1 TGTCACGA
15093099 TACCCCTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (21 bp):
TGTCACGACACCACTAGAGGA
Found at i:15101820 original size:36 final size:37
Alignment explanation
Indices: 15101759--15101890 Score: 132
Period size: 36 Copynumber: 3.6 Consensus size: 37
15101749 ACTCCTTGTT
*
15101759 TTGGCGTGTTTAT-GGTTGGACTAGCTCTT-CGGACAA
1 TTGGCGTG-TTATCGGTTGGAATAGCTCTTACGGACAA
* * *
15101795 TTGGCGTGTTATCGGATGGATTAGCTTTTAC-GAGC-A
1 TTGGCGTGTTATCGGTTGGAATAGCTCTTACGGA-CAA
* *
15101831 TCTGGCATGTTATCGGGTGGAATAGCTCTTACGAGA-AA
1 T-TGGCGTGTTATCGGTTGGAATAGCTCTTACG-GACAA
15101869 TTGGCGTGTT-TCGGTTGGAATA
1 TTGGCGTGTTATCGGTTGGAATA
15101891 ACTATGTACT
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
35 4 0.05
36 36 0.45
37 36 0.45
38 2 0.03
39 2 0.03
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.35
Consensus pattern (37 bp):
TTGGCGTGTTATCGGTTGGAATAGCTCTTACGGACAA
Found at i:15103084 original size:21 final size:21
Alignment explanation
Indices: 15103060--15103105 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
15103050 TTTGCATCTT
15103060 TTTCCTAAACT-TCCCAAACTG
1 TTTCC-AAACTGTCCCAAACTG
*
15103081 TTT-CAAACTGGTCCCAAATTG
1 TTTCCAAACT-GTCCCAAACTG
15103102 TTTC
1 TTTC
15103106 TAGGTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 5 0.24
20 1 0.05
21 15 0.71
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (21 bp):
TTTCCAAACTGTCCCAAACTG
Found at i:15114730 original size:257 final size:257
Alignment explanation
Indices: 15114270--15114780 Score: 668
Period size: 257 Copynumber: 2.0 Consensus size: 257
15114260 AGGAGCTTGG
* *
15114270 GTGCATGCCTTAGATGCGGATCTTTGAACCATAAGATAAATGATTGTCCACTTCAAAATAAGTAG
1 GTGCATGCCTTAGATGCGGATCCTTGAACCATAAGATAAATGATTGTCCACTTCAAAATAAGCAG
* * * *
15114335 ATACAAGCCCCAGAACAGAATTGAGCTTAGAACTAAAAAGTTGAAAAGTAGGCTTAGAAAGGTCA
66 ATACAAGCCCCAAAACAGAATCGAGCTTAGAACCAAAAAGCTGAAAAGTAGGCTTAGAAAGGTCA
*
15114400 AGGTCCAAATAGGGGTGGTAATGTAGGTCAGAGACAGAGAACACTGGGTCAGGGTGCTAACCGAG
131 AGGTCCAAATAGGGGTGGTAATGTAGGTCAGAGACAGAGAACACTGGGTCAGGGTGCTAACCGAC
* * *
15114465 TCGATGTAAGACAACCTGCACTGGTCTGTGCAACTAGACGCAGAGAGGATCATGACACAGCC
196 TCGATGTAAGACAACCTGCACTGGTCTATGCAACTAGACACAGAGAGGACCATGACACAGCC
* * * * *
15114527 GTGCATGCCTTAGATGTGGATCCTTGAACCATAAGATCAATTACTT-TCCAGTTCGAAATGAA-C
1 GTGCATGCCTTAGATGCGGATCCTTGAACCATAAGATAAATGA-TTGTCCACTTCAAAAT-AAGC
* * * * * * * *
15114590 ATATTCAATCCCCAAAACATAATCGAGCTTAGAACCAAAGAGCTGGACAGTAGGCTTAGAGAGGT
64 AGATACAAGCCCCAAAACAGAATCGAGCTTAGAACCAAAAAGCTGAAAAGTAGGCTTAGAAAGGT
* * * * * *
15114655 CAAGGTCCGAATAGGGGTGGTAATGTTGGTCAGAGACAGAGAGCATTGGGTTAGGGTGCTAACTG
129 CAAGGTCCAAATAGGGGTGGTAATGTAGGTCAGAGACAGAGAACACTGGGTCAGGGTGCTAACCG
* * * * *
15114720 AACT-GATGTAAGACAACTTGCACTGGTCTATGTAGCTAGACATAGAGAGGACCGTGACACA
194 -ACTCGATGTAAGACAACCTGCACTGGTCTATGCAACTAGACACAGAGAGGACCATGACACA
15114781 ACCAACATCA
Statistics
Matches: 217, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
257 211 0.97
258 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (257 bp):
GTGCATGCCTTAGATGCGGATCCTTGAACCATAAGATAAATGATTGTCCACTTCAAAATAAGCAG
ATACAAGCCCCAAAACAGAATCGAGCTTAGAACCAAAAAGCTGAAAAGTAGGCTTAGAAAGGTCA
AGGTCCAAATAGGGGTGGTAATGTAGGTCAGAGACAGAGAACACTGGGTCAGGGTGCTAACCGAC
TCGATGTAAGACAACCTGCACTGGTCTATGCAACTAGACACAGAGAGGACCATGACACAGCC
Found at i:15120851 original size:16 final size:17
Alignment explanation
Indices: 15120820--15120853 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15120810 CAATTCAGTC
*
15120820 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
15120837 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
15120853 C
1 C
15120854 CCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:15123143 original size:26 final size:26
Alignment explanation
Indices: 15123105--15123172 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
15123095 TATACATCAT
*
15123105 TGCTCACATGAGCTGTGAAATGGACC
1 TGCTCACACGAGCTGTGAAATGGACC
*
15123131 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGACC
*
15123157 TGCTCACACAAGCTGT
1 TGCTCACACGAGCTGT
15123173 AGGTCGAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.22
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGACC
Found at i:15140205 original size:19 final size:19
Alignment explanation
Indices: 15140171--15140208 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15140161 CTTACATGCC
**
15140171 AAAGTGAAAATTTGATTTT
1 AAAGTGAAAAAGTGATTTT
15140190 AAAGTGAAAAAGTGATTTT
1 AAAGTGAAAAAGTGATTTT
15140209 TTTTGGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (19 bp):
AAAGTGAAAAAGTGATTTT
Found at i:15142690 original size:12 final size:12
Alignment explanation
Indices: 15142673--15142697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15142663 TGTGACACAG
15142673 CCGTGTGTGACA
1 CCGTGTGTGACA
15142685 CCGTGTGTGACA
1 CCGTGTGTGACA
15142697 C
1 C
15142698 ACGGCCTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.24
Consensus pattern (12 bp):
CCGTGTGTGACA
Found at i:15164101 original size:51 final size:50
Alignment explanation
Indices: 15163980--15164174 Score: 212
Period size: 51 Copynumber: 3.9 Consensus size: 50
15163970 TGACCATTGT
* * * * *
15163980 CATCTGATACACGTAGTAGCCTACACATAGTACTATACACATGATCAAGC
1 CATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGC
** * *
15164030 TTTCTGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGGC
1 CATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAA-GC
* * *
15164081 CATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 CATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AGC
* * * *
15164133 TATC-GATACACGTAGTAGCTTGCACTTAGTACTACACACGTG
1 CATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTG
15164175 TTCATAGGTA
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
50 39 0.32
51 78 0.64
52 4 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
CATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGC
Found at i:15175740 original size:25 final size:25
Alignment explanation
Indices: 15175666--15175741 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
15175656 ACGAATTTTC
* *
15175666 TCAAAATTTTACAAAGGT-AAATTCG
1 TCAAAATTTTACTAGGGTAAAATT-G
* *
15175691 TTAAAATTTTACTCAGAGTAAAATTG
1 TCAAAATTTTACT-AGGGTAAAATTG
*
15175717 TCAAAATTTTGCTAGGGTAAAATTG
1 TCAAAATTTTACTAGGGTAAAATTG
15175742 GATGAGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 22 0.52
26 15 0.36
27 5 0.12
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (25 bp):
TCAAAATTTTACTAGGGTAAAATTG
Found at i:15196314 original size:20 final size:20
Alignment explanation
Indices: 15196289--15196327 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15196279 TTACTTCTTT
15196289 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
15196309 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
15196328 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:15196652 original size:50 final size:50
Alignment explanation
Indices: 15196535--15196712 Score: 173
Period size: 50 Copynumber: 3.6 Consensus size: 50
15196525 ACATGCTAAA
* * * *
15196535 GCCATGTCCCAGACATGTTCTTACGTGGGATGTT-TCCTAAAC--TACCAAT
1 GCCATGTCCCAGACATGGTCTTACGTGGGA-GTTCTCAT-ATCGGTGCCAAT
* * * * *
15196584 GCCATATCTCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACGTGGGAGTTCTCATATCGGTGCCAAT
* ** * *
15196634 GCCATGTCCCAGACATGGTCTTACGGGGGAACTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGTGGGAGTTCTCATATCGGTGCCAAT
* *
15196684 GCCATGTCCCAGACATGGTATTATGTGGG
1 GCCATGTCCCAGACATGGTCTTACGTGGG
15196713 GCCTCTAATA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
48 5 0.05
49 28 0.27
50 71 0.68
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACGTGGGAGTTCTCATATCGGTGCCAAT
Found at i:15199015 original size:25 final size:25
Alignment explanation
Indices: 15198981--15199030 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15198971 AGAGGAATGT
15198981 ATGTGAATGAATGCAATATTATATA
1 ATGTGAATGAATGCAATATTATATA
15199006 ATGTGAATGAATGCAATATTATATA
1 ATGTGAATGAATGCAATATTATATA
15199031 CATTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (25 bp):
ATGTGAATGAATGCAATATTATATA
Found at i:15201003 original size:20 final size:20
Alignment explanation
Indices: 15200978--15201018 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15200968 AAAAAGAAAC
*
15200978 TTAATTTTTTGTTTCATGCT
1 TTAATTTTTTGCTTCATGCT
15200998 TTAATTTTTTGCTTCATGCT
1 TTAATTTTTTGCTTCATGCT
15201018 T
1 T
15201019 ATATAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (20 bp):
TTAATTTTTTGCTTCATGCT
Found at i:15205326 original size:6 final size:6
Alignment explanation
Indices: 15205317--15205341 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15205307 CTTGTGCTTG
15205317 TTCTTA TTCTTA TTCTTA TTCTTA T
1 TTCTTA TTCTTA TTCTTA TTCTTA T
15205342 ACTTGTACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTTA
Found at i:15214572 original size:24 final size:24
Alignment explanation
Indices: 15214545--15214592 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
15214535 GCATGAAATG
15214545 GTTGATCTATTTCCCTATGTTGAT
1 GTTGATCTATTTCCCTATGTTGAT
*
15214569 GTTGATCTATTTGCCTATGTTGAT
1 GTTGATCTATTTCCCTATGTTGAT
15214593 TTTCTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.50
Consensus pattern (24 bp):
GTTGATCTATTTCCCTATGTTGAT
Found at i:15215720 original size:159 final size:163
Alignment explanation
Indices: 15215422--15215725 Score: 449
Period size: 159 Copynumber: 1.9 Consensus size: 163
15215412 GGATTTTTTC
15215422 AAATTAAAAATTAATTCCATCTTGGATATTACCTACCATGTCGTCATTTAATGGCGAATTCTTAA
1 AAATTAAAAATTAATTCCATCTTGGATATTACCTACCATGTCG--ATTTAATGGCGAATTCTTAA
* *
15215487 CAAAATGAAATAATTTACACTTTTTGTCTAATGTACAAAGATTAATTTACTCATTTTTAAAAGAG
64 CAAAATGAAATAATTTA-ACTTTTTGTCTAATGTACAAAGATTAATTTACTCACTTTTAAAAGAA
15215552 AGAAAAAAATACAATCCTATTTCTACTAAATGGGCA
128 AGAAAAAAATACAATCCTATTTCTACTAAATGGGCA
* * *
15215588 AAATTAAACATTAATTCCATCTTGGATATTACCTACCATGATCG-TTTAATGGTGAATTTTTAAC
1 AAATTAAAAATTAATTCCATCTTGGATATTACCTACCATG-TCGATTTAATGGCGAATTCTTAAC
* *
15215652 AAAATGAAATAATTT-A-TTTTT-T-TAATGTATAAAGATTAATTTA-TCCACTTTTAATAGAAA
65 AAAATGAAATAATTTAACTTTTTGTCTAATGTACAAAGATTAATTTACT-CACTTTTAAAAGAAA
*
15215712 GAATAAAATACAAT
129 GAAAAAAATACAAT
15215726 TCAACTATTA
Statistics
Matches: 128, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
158 1 0.01
159 45 0.35
160 1 0.01
161 5 0.04
162 1 0.01
164 33 0.26
166 39 0.30
167 3 0.02
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (163 bp):
AAATTAAAAATTAATTCCATCTTGGATATTACCTACCATGTCGATTTAATGGCGAATTCTTAACA
AAATGAAATAATTTAACTTTTTGTCTAATGTACAAAGATTAATTTACTCACTTTTAAAAGAAAGA
AAAAAATACAATCCTATTTCTACTAAATGGGCA
Found at i:15216782 original size:123 final size:124
Alignment explanation
Indices: 15216283--15216936 Score: 988
Period size: 125 Copynumber: 5.3 Consensus size: 124
15216273 AACAAATAAG
* * * * * * * *
15216283 TCGCACCCACGTGTACGCACTTTTGCTATAGTAGGTCTTGAAAAAATAATTTCGAGTTGACGTTT
1 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGACGTTT
* * * *
15216348 CTGAGCAAATAGTATAAAATCGCTTCTAACAGGATGCTGTTTGATAAGAATTTGTGAAA
66 CTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
* * * *
15216407 TCGCGCCCTCGTCGATGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGACTTGACGTG
1 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTTGACTTGACGTT
* *
15216472 TCTGAGCCAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
65 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
* * *
15216532 TCGCGCCCTCCTGGACGCGCTTTTGCTACAATAGGTCCTGGAAGAAATAATTTTGACTTGACGTT
1 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTTGACTTGACGTT
*
15216597 TCTAAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
65 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
*
15216657 TCGCACCCTCGTGGACGTGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGACGTTT
1 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGACGTTT
* *
15216722 CTGAGCAAATAGTAT-AAATCGCTTCTAGCTGGATGTTATTTGAGAAGAATTTATGAAA
66 CTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
*
15216780 TCGAACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGACGTTT
1 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGACGTTT
* *
15216845 CTGAGCAAATAGTAT-AAATCGCTTCTAGCTGGATGTTATTTGAGAAGAATTTATGAAA
66 CTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
** * *
15216903 TCGTGCCCTCGTGGATGCACTTTTGCTACAGTAG
1 TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAG
15216937 CATGTTTGAG
Statistics
Matches: 492, Mismatches: 37, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
123 192 0.39
124 70 0.14
125 230 0.47
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (124 bp):
TCGCACCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGACGTTT
CTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAA
Found at i:15218339 original size:44 final size:44
Alignment explanation
Indices: 15218276--15218360 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
15218266 AGGTGTTTCA
15218276 CAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGAT
1 CAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGAT
15218320 CAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTT
1 CAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTT
15218361 CATACTACCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAGATCATCCCAAGATGGATTCAGCTATGTTAGCTAGCTTGAT
Found at i:15220177 original size:114 final size:114
Alignment explanation
Indices: 15219976--15220244 Score: 493
Period size: 114 Copynumber: 2.4 Consensus size: 114
15219966 ATTATATTTT
* *
15219976 TAAAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAACTTATTA
1 TAAAATTATTAAATGAT-AATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTA
15220041 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
65 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
15220091 TAAAATTATTAAATGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAA
1 TAAAATTATTAAATGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAA
*
15220156 TTGTTAGTACCAGTGAAAACATTTTTCCAAATCTAACATTATGTGAATG
66 TTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
*
15220205 TAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
1 TAAAATTATTAAATGATAATTGTATTAATGGTTAGTAAAA
15220245 ACCTTAAGGT
Statistics
Matches: 150, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
114 134 0.89
115 16 0.11
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (114 bp):
TAAAATTATTAAATGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAA
TTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
Found at i:15220316 original size:21 final size:21
Alignment explanation
Indices: 15220252--15221540 Score: 1440
Period size: 21 Copynumber: 61.0 Consensus size: 21
15220242 AAAACCTTAA
**
15220252 GGTTTTTAAGTTAAGAATTTAG
1 GGTTTTTAAGTTAAG-GGTTAG
15220274 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
15220296 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* **
15220317 GGTTATTAAGTTAAGATTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220338 GGTTTTTTAATTTAAGGTTTAG
1 GG-TTTTTAAGTTAAGGGTTAG
*
15220360 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
**
15220381 GGTTTTTAAGTTAAGATTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220402 GGTTTTTAAGTAAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * **
15220423 GGTTATTAATTTAAGATTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15220444 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220465 GGTTTTTAATTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220486 TGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15220507 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* *
15220529 TGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
15220550 GGTTATTAATTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15220571 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220592 GGTTTTTAATTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220613 TGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220634 GGTTTTTAAGTTAATGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15220655 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15220676 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15220697 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15220718 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
*
15220740 GGTTTTTAAGTTAAGGTTTA-
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220760 --ATTTAAAGGTT-A--G----
1 GGTTTTTAA-GTTAAGGGTTAG
*
15220773 GGTTTTTAAGTTAATGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15220794 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15220815 GGTTTTTTAGTT-AGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220835 GGTTTTTAAGTTAATAGTTTAG
1 GGTTTTTAAGTTAA-GGGTTAG
*
15220857 GG-TTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * * * *
15220877 AGTTATTAAGTTAATGTTTAA
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220898 GGTTTTTAATTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15220919 GGTTTTTAAGTTAATGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15220940 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15220961 GGTTTTTTAGTT-AGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15220981 GGTTTTTAAGTTAATAGTTTAG
1 GGTTTTTAAGTTAA-GGGTTAG
*
15221003 GG-TTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
15221023 AGTTATTAATTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221044 GGTTTTTAAGTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15221065 GGTTTTTAAGTTAATGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15221086 GGTTTTTAAGTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTT-A-----AGGGTTAG
* *
15221113 GATTTTTAAGTTAAAGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221134 GGTTTTTAAGCTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221155 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTT-A-----AGGGTTAG
* *
15221182 GATTTTTAAGTTAAAGGTTTAG
1 GGTTTTTAAGTT-AAGGGTTAG
*
15221204 GGTATTGTTGTA-TTAAGGGTTTAG
1 GGT-TT-TT-AAGTTAAGGG-TTAG
*
15221228 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221249 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15221270 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
15221291 GGCTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* **
15221312 GGTTATTAAGTTAAGATTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221333 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221354 GGTTTCTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221375 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* **
15221396 GGTTATTAAGTTAAGATTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
15221417 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15221438 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
15221459 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
15221480 GCTTTATAATTTAAGTGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15221501 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
15221521 GGTTTTTAAGTTAAGGGTTA
1 GGTTTTTAAGTTAAGGGTTA
15221541 ATGTTAGGGT
Statistics
Matches: 1087, Mismatches: 142, Indels: 77
0.83 0.11 0.06
Matches are distributed among these distances:
14 3 0.00
15 6 0.01
17 1 0.00
18 6 0.01
19 3 0.00
20 71 0.07
21 812 0.75
22 127 0.12
23 8 0.01
24 11 0.01
25 1 0.00
26 1 0.00
27 37 0.03
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:15220773 original size:33 final size:35
Alignment explanation
Indices: 15220722--15220791 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 35
15220712 GGTTAGGGTT
*
15220722 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GG
1 TTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAATGG
*
15220756 TTTAATTTAAAGG-TTAGGGTTTTTAAGTTAATGG
1 TTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAATGG
15220790 TT
1 TT
15220792 AGGGTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (35 bp):
TTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAATGG
Found at i:15222119 original size:18 final size:18
Alignment explanation
Indices: 15222092--15222135 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
15222082 GCCATAGGAC
*
15222092 TAGGAAACATATAAGGGT
1 TAGGAAACATAAAAGGGT
*
15222110 TAGGATACATAAAAGGGT
1 TAGGAAACATAAAAGGGT
15222128 TAGGAAAC
1 TAGGAAAC
15222136 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.07, G:0.27, T:0.20
Consensus pattern (18 bp):
TAGGAAACATAAAAGGGT
Found at i:15222790 original size:7 final size:7
Alignment explanation
Indices: 15222780--15222805 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15222770 TTATATACAT
15222780 AATACTA
1 AATACTA
15222787 AATACTA
1 AATACTA
15222794 AATACTA
1 AATACTA
15222801 AATAC
1 AATAC
15222806 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:15223011 original size:20 final size:20
Alignment explanation
Indices: 15222974--15223011 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15222964 TTTATTTTTA
*
15222974 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
15222994 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
15223012 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:15230490 original size:38 final size:38
Alignment explanation
Indices: 15230439--15230514 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
15230429 GGTATGTGGG
* **
15230439 TGTTACAGGGAACAGAGCCTTATTGGTTTGGAAACTAT
1 TGTTACAAGGAACAGAGCCTTATCAGTTTGGAAACTAT
15230477 TGTTACAAGGAACAGAGCCTTATCAGTTTGGAAACTAT
1 TGTTACAAGGAACAGAGCCTTATCAGTTTGGAAACTAT
15230515 CTTACGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (38 bp):
TGTTACAAGGAACAGAGCCTTATCAGTTTGGAAACTAT
Found at i:15234719 original size:19 final size:19
Alignment explanation
Indices: 15234697--15234744 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
15234687 GAAATCATAT
15234697 ATAATAAATAT-CAAATGAA
1 ATAATAAATATCCAAAT-AA
*
15234716 ATAAT-AGTATCCAAATAA
1 ATAATAAATATCCAAATAA
*
15234734 AAAATAAATAT
1 ATAATAAATAT
15234745 TATAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.27
Consensus pattern (19 bp):
ATAATAAATATCCAAATAA
Found at i:15235707 original size:17 final size:18
Alignment explanation
Indices: 15235673--15235709 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15235663 TCAGTTTTTC
15235673 AAAATGAAAATAAAAAAG
1 AAAATGAAAATAAAAAAG
15235691 AAAAT-AAAA-AAATAAAG
1 AAAATGAAAATAAA-AAAG
15235708 AA
1 AA
15235710 TAAAAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.17
17 10 0.56
18 5 0.28
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAATGAAAATAAAAAAG
Found at i:15236938 original size:44 final size:44
Alignment explanation
Indices: 15236877--15237474 Score: 301
Period size: 44 Copynumber: 13.8 Consensus size: 44
15236867 ACCTGATGCG
* * * *
15236877 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTAATACTTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
* * *** *
15236921 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA--TAGGGCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
* * *
15236963 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCT-CTGGCTTCA
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTAAT-ACTTCA
* * *
15237007 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCT--AATACTTCA
* ** * * * * * *
15237053 GTCAACTCCACTGTAACCTCAGAGAGATAAGACCT--GA-TGCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
* * * * *
15237094 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
** ** * *
15237138 ATCCACTCCACTACAACTTCAGGGAGATAGGAT-TATTGACTTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAAT-ACTTCA
* * * *
15237182 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
* ** * *
15237226 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-T-ATCGAATTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAAT--ACTTCA
* * * * ** *
15237270 ATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
* * * * * ** **
15237314 GTCAGCCCCACTGTGACTTCAGGGGGATAAGA-CTTGTTTTCTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACT-TCA
* * ** *** * *
15237358 GTCTGCTCCGCTACAACTTCAGGGAGATAAGA-C-CCGA-TGCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
* * * * *
15237399 ATCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTATTATTTTA
1 ATCTGCTCCACT-GTAACTTCAGGGAGATAAGATCTAATACTTCA
* * *
15237442 ATCCGCTCCACTGCAACTTTAGGGAGATAAGAT
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
15237475 TGATTTCTTC
Statistics
Matches: 424, Mismatches: 106, Indels: 48
0.73 0.18 0.08
Matches are distributed among these distances:
40 12 0.03
41 49 0.12
42 35 0.08
43 25 0.06
44 262 0.62
45 5 0.01
46 35 0.08
47 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTAATACTTCA
Found at i:15237223 original size:88 final size:88
Alignment explanation
Indices: 15237094--15237302 Score: 346
Period size: 88 Copynumber: 2.4 Consensus size: 88
15237084 ACCTGATGCG
* * * *
15237094 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTCA
1 ATCTACTCCACTGCAACCTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTCA
15237159 GGGAGATAGGATTATTGACTTCA
66 GGGAGATAGGATTATTGACTTCA
* *
15237182 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
1 ATCTACTCCACTGCAACCTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTCA
* *
15237247 GGGAGATAGGATTATCGAATTCA
66 GGGAGATAGGATTATTGACTTCA
15237270 ATCTACTCCACTGCAACCTCAGGGAGATAAGAT
1 ATCTACTCCACTGCAACCTCAGGGAGATAAGAT
15237303 TTGCTTCTTC
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 112 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (88 bp):
ATCTACTCCACTGCAACCTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTCA
GGGAGATAGGATTATTGACTTCA
Found at i:15237280 original size:217 final size:215
Alignment explanation
Indices: 15236840--15237301 Score: 617
Period size: 217 Copynumber: 2.1 Consensus size: 215
15236830 TCTTCGGTCC
15236840 ACTCCACTGTAACCTCA-AGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 ACTCCACTGTAACCTCAGA-GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGA
* ** * *
15236904 TAAGATCTAATACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGGGCTTCGATCTGC
65 TAAGATCTAATACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATAGGACTTCAATCTGC
* * * * * * **
15236969 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
130 TCCACTGCAACCTCAGGGAGATAAGATCTATGACTTCAATCCGCTCCACTACAACCTCAGGGAGA
* *
15237034 TAAGATCTGAAATTCTTCGGTCA
195 TAAGATATGAAATTCATC-GT-A
15237057 ACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
1 ACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
* *
15237122 AAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGACTTCAATCTG
66 AAGATCTAATACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGA-TA-GGACTTCAATCTG
* * *
15237187 CTCCACTGCAACCTCAGGGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAG
129 CTCCACTGCAACCTCAGGGAGATAAGATCTATGACTTCAATCCGCTCCACTACAACCTCAGGGAG
*
15237252 ATAGGATTATCG-AATTCAATC-T-
194 ATAAGA-TAT-GAAATTC-ATCGTA
* *
15237274 ACTCCACTGCAACCTCAGGGAGATAAGA
1 ACTCCACTGTAACCTCAGAGAGATAAGA
15237302 TTTGCTTCTT
Statistics
Matches: 216, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
217 133 0.62
218 3 0.01
219 70 0.32
220 7 0.03
221 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (215 bp):
ACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
AAGATCTAATACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATAGGACTTCAATCTGCT
CCACTGCAACCTCAGGGAGATAAGATCTATGACTTCAATCCGCTCCACTACAACCTCAGGGAGAT
AAGATATGAAATTCATCGTA
Found at i:15237516 original size:43 final size:43
Alignment explanation
Indices: 15237399--15237516 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
15237389 ACCCGATGCG
15237399 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTATTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTATTTTA
* * **
15237442 ATCCGCTCCACTGCAACTTTAGGGAGATAAGAT-TGATT-TCTTCT-
1 ATCTGCTCCACTACTGC-TTAGGGAGATAAGATCT-ATTAT-TT-TA
* *
15237486 GTCTGCTCTACTACTGCTTAGGGAGATAAGA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA
15237517 CTTGTAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
43 29 0.48
44 31 0.51
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTATTTTA
Found at i:15237841 original size:132 final size:132
Alignment explanation
Indices: 15237522--15237829 Score: 519
Period size: 132 Copynumber: 2.3 Consensus size: 132
15237512 TAAGACTTGT
* *
15237522 AATTTCCAACTTATTCCATTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTAC
1 AATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTAC
* * *
15237587 TCCTGGGGAAGATAAGATTCGTCATCTTCGATCTACTGCACTGCTGCTTAGGGAGACAAAGGTCT
66 TCCTGGGAAAGATAAGATTCGTCATCTTCGATCTACTCCACTGCTGCTCAGGGAGACAAAGGTCT
15237652 GC
131 GC
* *
15237654 AATTTCCAACCTATTCCACTGCTGGTTAGGGACATATGACTTGTGGCTTAAATCTGTTTCCCTAC
1 AATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTAC
* * *
15237719 TTCTGGGAAAGATAAGATTCGTCGTCTTCGATCTACTCCGCTGCTGCTCAGGGAGAC-AAGGTCT
66 TCCTGGGAAAGATAAGATTCGTCATCTTCGATCTACTCCACTGCTGCTCAGGGAGACAAAGGTCT
15237783 GC
131 GC
15237785 AATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
1 AATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
15237830 CTCTTTGATC
Statistics
Matches: 164, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
131 52 0.32
132 112 0.68
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (132 bp):
AATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTAC
TCCTGGGAAAGATAAGATTCGTCATCTTCGATCTACTCCACTGCTGCTCAGGGAGACAAAGGTCT
GC
Found at i:15237967 original size:87 final size:87
Alignment explanation
Indices: 15237862--15238362 Score: 822
Period size: 87 Copynumber: 5.8 Consensus size: 87
15237852 GACACGGGAG
* * * * *
15237862 GGCAAGATTTACTATCTTTAACCAGCTCCACTGCAACCGATGAAGACAAGGCTTTGTTTTTGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
*
15237927 TACTTCGCTATTAACGCAGGAA
66 TACTTCGCTGTTAACGCAGGAA
* * *
15237949 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGGAACCGATGGAGGCAAGACTTTGTTTCCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
*
15238014 TGCTTCGCTGTTAACGCAGGAA
66 TACTTCGCTGTTAACGCAGGAA
*
15238036 GGCAAGATCTGCGATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
*
15238101 TACTTCGTTGTTAACGCAGGAA
66 TACTTCGCTGTTAACGCAGGAA
15238123 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
*
15238188 TACTTCGCTATTAACGCAGGAA
66 TACTTCGCTGTTAACGCAGGAA
*
15238210 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
* *
15238275 TGCTTCGCTGTTAACGCAAGAA
66 TACTTCGCTGTTAACGCAGGAA
* * * *
15238297 GGCAAGATCTGCTATTTTTAACTAGCTCAACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
15238362 T
66 T
15238363 TCATTGATCT
Statistics
Matches: 386, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 386 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
TACTTCGCTGTTAACGCAGGAA
Found at i:15241629 original size:7 final size:7
Alignment explanation
Indices: 15241610--15241656 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
15241600 TTAGCCTCTC
15241610 CATTTTT
1 CATTTTT
15241617 -ACTTTTT
1 CA-TTTTT
15241624 CATTTTT
1 CATTTTT
15241631 CATTTTT
1 CATTTTT
15241638 CA-TTTT
1 CATTTTT
15241644 CATTTTT
1 CATTTTT
15241651 CATTTT
1 CATTTT
15241657 CTCCCCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 7 0.19
7 29 0.78
8 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:15241636 original size:13 final size:13
Alignment explanation
Indices: 15241619--15241657 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
15241609 CCATTTTTAC
15241619 TTTTTCATTTTTCA
1 TTTTTCA-TTTTCA
15241633 TTTTTCATTTTCA
1 TTTTTCATTTTCA
15241646 TTTTTCATTTTC
1 TTTTTCATTTTC
15241658 TCCCCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:15242587 original size:45 final size:46
Alignment explanation
Indices: 15242537--15242632 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 46
15242527 CCTTTTTTCT
15242537 TTTTTTCTTCTCTCTTT-T-TCATTTTCATTTTGA-CTTTGATT-TTGA
1 TTTTTTCTT-T-TCTTTCTCTCATTTT-ATTTTGATCTTTGATTCTTGA
* * *
15242582 TTTTTTCTTTTTTTTCTCTCATTTTATTTTGATTTTTTATTCTTGA
1 TTTTTTCTTTTCTTTCTCTCATTTTATTTTGATCTTTGATTCTTGA
15242628 TTTTT
1 TTTTT
15242633 CATTTTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 4 0.09
44 9 0.20
45 22 0.50
46 9 0.20
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (46 bp):
TTTTTTCTTTTCTTTCTCTCATTTTATTTTGATCTTTGATTCTTGA
Found at i:15242629 original size:14 final size:13
Alignment explanation
Indices: 15242603--15242638 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
15242593 TTTTCTCTCA
15242603 TTTTATTTTGATT
1 TTTTATTTTGATT
15242616 TTTTATTCTTGATT
1 TTTTATT-TTGATT
*
15242630 TTTCATTTT
1 TTTTATTTT
15242639 TTTGAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (13 bp):
TTTTATTTTGATT
Found at i:15242636 original size:32 final size:32
Alignment explanation
Indices: 15242575--15242638 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
15242565 TTTGACTTTG
* *
15242575 ATTTTGATTTTTTCTTTTTTTTCTCTCATTTT
1 ATTTTGATTTTTTATTTTATTTCTCTCATTTT
15242607 ATTTTGATTTTTTATTCTTGATTT-T-TCATTTT
1 ATTTTGATTTTTTATT-TT-ATTTCTCTCATTTT
15242639 TTTGAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 22 0.79
33 3 0.11
34 3 0.11
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.73
Consensus pattern (32 bp):
ATTTTGATTTTTTATTTTATTTCTCTCATTTT
Found at i:15242638 original size:53 final size:54
Alignment explanation
Indices: 15242522--15242640 Score: 138
Period size: 53 Copynumber: 2.2 Consensus size: 54
15242512 TGGCCTCTCC
* *
15242522 TTTTTCCTTTTTTCTTTTTTTCTTCTCTCTTTTTCATTTTCATTTTGACTTTGA
1 TTTTTCATTTTTTCTTTTTTTCTTCTCTCATTTTCATTTTCATTTTGACTTTGA
* * * *
15242576 -TTTTGATTTTTTC-TTTTTT-TTCTCTCATTTT-ATTTTGATTTTTTATTCTTGA
1 TTTTTCATTTTTTCTTTTTTTCTTCTCTCATTTTCATTTTCA-TTTTGACT-TTGA
15242628 TTTTTCATTTTTT
1 TTTTTCATTTTTT
15242641 TGAATTGGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
50 6 0.11
51 17 0.31
52 10 0.18
53 22 0.40
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.73
Consensus pattern (54 bp):
TTTTTCATTTTTTCTTTTTTTCTTCTCTCATTTTCATTTTCATTTTGACTTTGA
Found at i:15248683 original size:318 final size:317
Alignment explanation
Indices: 15248086--15248718 Score: 1176
Period size: 318 Copynumber: 2.0 Consensus size: 317
15248076 AGTCGCCAAA
*
15248086 CTGTCGAAACCATTTTTTCAAGTTTGAAAAATGGGGGATCGACTTTTAGAATGAAAACAGGAGTC
1 CTGTCGAAACCATTTTTTCAAGTTTGAAAAATGGGGGATCGACTTTTAAAATGAAAACAGGAGTC
15248151 GCCACCAACCTTTTATTATGGTGCGATCGGATCACCCTGAAAATAATTTTAGGTCTGCGAGTTTT
66 GCCACCAACCTTTTATTATGGTGCGATCGGATCACCCTGAAAATAATTTTAGGTCTGCGAGTTTT
* * *
15248216 GAGAAAACATGTTCGGGAGTCGGTTACGTACGAGGAAGGGTTAGCACCCTCGTGACGCCCAAAAT
131 GAGAAAAAAGGTTCGGGAGTCGGTTACGCACGAGGAAGGGTTAGCACCCTCGTGACGCCCAAAAT
15248281 TGGTACCGAATTGATTGTCTAATGTCTTAATGCCGAAAATTTGAAAAGATTTTAAAATACAATCC
196 TGGTACCGAATTGATTGTCTAATGTCTTAATGCCGAAAATTTGAAAAGATTTTAAAATACAATCC
15248346 TTTGAAATCCAAACTTAAATAATGGCATTGGTTGAATAGACGGACCTATTTCAAAAG
261 TTTGAAATCCAAACTTAAATAATGGCATTGGTTGAATAGACGGACCTATTTCAAAAG
**
15248403 CTGTCGAAACCATTTTTTCAAGTTTGAAAAATGGGGGATCGACTTTTAAAATGAAAATGGGAGTC
1 CTGTCGAAACCATTTTTTCAAGTTTGAAAAATGGGGGATCGACTTTTAAAATGAAAACAGGAGTC
*
15248468 GCCACCGACCTTTTATTATGGTGCGATCGGATCACCCTGAAAATAATTTTAGGTCTGCGAGTTTT
66 GCCACCAACCTTTTATTATGGTGCGATCGGATCACCCTGAAAATAATTTTAGGTCTGCGAGTTTT
15248533 GAGAAAAAAAGGTTCGGGAGTCGGTTACGCACGAGGAAGGGTTAGCACCCTCGTGACGCCCAAAA
131 GAG-AAAAAAGGTTCGGGAGTCGGTTACGCACGAGGAAGGGTTAGCACCCTCGTGACGCCCAAAA
15248598 TTGGTACCGAATTGATTGTCTAATGTCTTAATGCCGAAAATTTGAAAAGATTTTAAAATACAATC
195 TTGGTACCGAATTGATTGTCTAATGTCTTAATGCCGAAAATTTGAAAAGATTTTAAAATACAATC
* *
15248663 CTTTGAAATGCAAGCTTAAATAATGGCATTGGTTGAATAGACGGACCTATTTCAAA
260 CTTTGAAATCCAAACTTAAATAATGGCATTGGTTGAATAGACGGACCTATTTCAAA
15248719 GAAATAAACC
Statistics
Matches: 306, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
317 129 0.42
318 177 0.58
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (317 bp):
CTGTCGAAACCATTTTTTCAAGTTTGAAAAATGGGGGATCGACTTTTAAAATGAAAACAGGAGTC
GCCACCAACCTTTTATTATGGTGCGATCGGATCACCCTGAAAATAATTTTAGGTCTGCGAGTTTT
GAGAAAAAAGGTTCGGGAGTCGGTTACGCACGAGGAAGGGTTAGCACCCTCGTGACGCCCAAAAT
TGGTACCGAATTGATTGTCTAATGTCTTAATGCCGAAAATTTGAAAAGATTTTAAAATACAATCC
TTTGAAATCCAAACTTAAATAATGGCATTGGTTGAATAGACGGACCTATTTCAAAAG
Found at i:15249783 original size:42 final size:44
Alignment explanation
Indices: 15249719--15249801 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
15249709 GGAAAAATAC
* *
15249719 AATAATGTGAGATCAA-T-AATATACATTTGTATATAAAATGAA
1 AATAATGTGAGATAAATTAAATATACATATGTATATAAAATGAA
* * *
15249761 AATAATTTGATATAAATTATATATACATATGTATATAAAAT
1 AATAATGTGAGATAAATTAAATATACATATGTATATAAAAT
15249802 AGTATTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 13 0.38
43 1 0.03
44 20 0.59
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (44 bp):
AATAATGTGAGATAAATTAAATATACATATGTATATAAAATGAA
Found at i:15249796 original size:23 final size:22
Alignment explanation
Indices: 15249736--15249799 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
15249726 TGAGATCAAT
15249736 AATATACATTTGTATATAAAATG
1 AATATACATTTGTATAT-AAATG
* *
15249759 AAAATA-ATTTG-ATATAAATT
1 AATATACATTTGTATATAAATG
*
15249779 ATATATACATATGTATATAAA
1 A-ATATACATTTGTATATAAA
15249800 ATAGTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.15
21 8 0.24
22 9 0.26
23 12 0.35
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (22 bp):
AATATACATTTGTATATAAATG
Found at i:15257683 original size:9 final size:9
Alignment explanation
Indices: 15257669--15257714 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
15257659 TGAGTTTTCG
15257669 AATTCGAAT
1 AATTCGAAT
15257678 AATTCGAAT
1 AATTCGAAT
15257687 AATTCGAAT
1 AATTCGAAT
15257696 AATTCGAAT
1 AATTCGAAT
*
15257705 AATTCAAAT
1 AATTCGAAT
15257714 A
1 A
15257715 TCAAACTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15262260 original size:19 final size:19
Alignment explanation
Indices: 15262209--15262261 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
15262199 TCTAGAAAGA
* *
15262209 AGTTGTCAATTGTATCCACC
1 AGTTG-CAATCGTATCAACC
15262229 AGTTGCTAATCGTATCAACC
1 AGTTGC-AATCGTATCAACC
15262249 AGTTGCAATCGTA
1 AGTTGCAATCGTA
15262262 ATTGCTAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (19 bp):
AGTTGCAATCGTATCAACC
Found at i:15267004 original size:56 final size:56
Alignment explanation
Indices: 15266918--15267027 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
15266908 TCAGCGTATA
15266918 GAGTGGGTGTGTACAGTTATATGGTTATGTTAATAAATGTTCCAGGTCAAGTGGTT
1 GAGTGGGTGTGTACAGTTATATGGTTATGTTAATAAATGTTCCAGGTCAAGTGGTT
*
15266974 GAGTGGGTGTGTACAGTTATATGGTTATGTTAATAAATGTTCCTGGTCAAGTGG
1 GAGTGGGTGTGTACAGTTATATGGTTATGTTAATAAATGTTCCAGGTCAAGTGG
15267028 CAATGTTAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.37
Consensus pattern (56 bp):
GAGTGGGTGTGTACAGTTATATGGTTATGTTAATAAATGTTCCAGGTCAAGTGGTT
Found at i:15270070 original size:27 final size:26
Alignment explanation
Indices: 15270032--15270148 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 26
15270022 AAGCACGTCA
* *
15270032 GAAATGAAAGCTTTTGTGGTAAATCAT
1 GAAAAGAAAGCCTTTGTGGTAAA-CAT
* **
15270059 GAAAAGAAAGCTTTTGTGACATAACAT
1 GAAAAGAAAGCCTTTGTGGTA-AACAT
* * *
15270086 G-AAAGCAAAGCCTCTATGGTGAATCAT
1 GAAAAG-AAAGCCTTTGTGGT-AAACAT
* *
15270113 GAAAAGAAAACCTTTGTGGTGTAACAT
1 GAAAAGAAAGCCTTTGTGGT-AAACAT
15270140 G-AAAGAAAG
1 GAAAAGAAAG
15270149 TCTTCATGGC
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
26 11 0.15
27 53 0.75
28 7 0.10
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (26 bp):
GAAAAGAAAGCCTTTGTGGTAAACAT
Found at i:15271671 original size:26 final size:26
Alignment explanation
Indices: 15271641--15271703 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
15271631 TTTGCACCAG
15271641 TAAAATTTTGATGATTTTACCCCCAA
1 TAAAATTTTGATGATTTTACCCCCAA
* * *
15271667 TAAAATATTGATGATTTTACCCTCTA
1 TAAAATTTTGATGATTTTACCCCCAA
*
15271693 TAAAAATTTGA
1 TAAAATTTTGA
15271704 GAAAATTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (26 bp):
TAAAATTTTGATGATTTTACCCCCAA
Found at i:15290992 original size:43 final size:43
Alignment explanation
Indices: 15290849--15291001 Score: 123
Period size: 49 Copynumber: 3.4 Consensus size: 43
15290839 TCAATCCAAC
* **
15290849 CCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTTT
1 CCACTGCAACTTTA-GGGTATAGGATTTGTAACTTCAATCTACT
* * * *
15290893 CTACTGCAACTTTAGGATATAAGATTCACTATAGTAGA-TTCAATTTGAC-
1 CCACTGCAACTTTAGGGTATAGGA-T---T-T-GTA-ACTTCAATCT-ACT
15290942 CCACTGCAACTTTAGGGTATAGGATTTGTAACTTCAATCTACT
1 CCACTGCAACTTTAGGGTATAGGATTTGTAACTTCAATCTACT
*
15290985 GCACTGCAA-TTTCAGGG
1 CCACTGCAACTTT-AGGG
15291002 AGAGAAGATT
Statistics
Matches: 86, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
42 6 0.07
43 30 0.35
44 15 0.17
45 1 0.01
47 1 0.01
48 2 0.02
49 31 0.36
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (43 bp):
CCACTGCAACTTTAGGGTATAGGATTTGTAACTTCAATCTACT
Found at i:15291105 original size:94 final size:95
Alignment explanation
Indices: 15290847--15291263 Score: 418
Period size: 94 Copynumber: 4.5 Consensus size: 95
15290837 TTTCAATCCA
* * *
15290847 ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTT-TTCTACTGCAACTTTA-GGA
1 ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGGA
* *
15290910 TATAAGATTCACTATAGTAGATTCAATTTG
66 GATAAGATTCGCTATAGTAGATTCAATTTG
* * * *
15290940 ACCCACTGCAACTTTA-GGGTATAGGATTTGTAACTTCAATC-TACTGCACTGCAATTTCAGGGA
1 ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGGA
* * *
15291003 GAGAAGATTCGCCATGGTAGATTCAATTTG
66 GATAAGATTCGCTATAGTAGATTCAATTTG
** * * *
15291033 ACCTTCTGCAACTTTATGGGTATAGGATTTGTAGCTTC-ATCTTGCTCCACTACAACTTCAGGAA
1 ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGGA
** * ** *
15291097 GATAAGATTCGAAATTGTAG-TTTTATTTCT
66 GATAAGATTCGCTATAGTAGATTCAATTT-G
* * * * * ** *
15291127 ACCCACTACTACTTCAAGGGTATAGGAATTGTAG-TTTTATCTTGCTCCACTGCAACTTGAGGGA
1 ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGGA
**
15291191 GATAAGATTCGCTATAGTA-ACTTCAATCCG
66 GATAAGATTCGCTATAGTAGA-TTCAATTTG
* * * * *
15291221 ACACACTACAACTTCAGGGGTATAGGATTTGTAGATTTAATCT
1 ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCT
15291264 GATCTACTGT
Statistics
Matches: 265, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
91 1 0.00
92 35 0.13
93 69 0.26
94 149 0.56
95 11 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (95 bp):
ACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTCAGGGA
GATAAGATTCGCTATAGTAGATTCAATTTG
Found at i:15291293 original size:44 final size:44
Alignment explanation
Indices: 15291229--15291339 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
15291219 CGACACACTA
* *
15291229 CAACTTCAGGGGTATAGGATTTGTAGATTTAATCTGA-TCTACTG
1 CAACTTCAGGGATATAGGATTTGTAG-CTTAATCTGACTCTACTG
* * * *
15291273 TAACTTTAGGGATATAGGATTTGTAGCTTCATCTTACTCTACTG
1 CAACTTCAGGGATATAGGATTTGTAGCTTAATCTGACTCTACTG
* *
15291317 CAACTTCAGGGAGATAAGATTTG
1 CAACTTCAGGGATATAGGATTTG
15291340 CCATTGTAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 7 0.12
44 49 0.88
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (44 bp):
CAACTTCAGGGATATAGGATTTGTAGCTTAATCTGACTCTACTG
Found at i:15291391 original size:138 final size:137
Alignment explanation
Indices: 15291143--15291401 Score: 313
Period size: 138 Copynumber: 1.9 Consensus size: 137
15291133 TACTACTTCA
* * * * *
15291143 AGGGTATAGGAATTGTAGTTTTATCTTGCTCCACTGCAACTTGAGGGAGATAAGATTCGCTATAG
1 AGGGTATAGGAATTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAG
* * * *
15291208 TAACTTCAATCCGACACACTACAACTTCAGGGGTATAGGATTTGTAGATTTAATCTGATCTACTG
66 TAACTTCAATCCAACACACTACAACTTCAGGGGTATAGAAATTGTAGATTCAATCTGATCTACTG
15291273 TAACTTT
131 TAACTTT
* * * *
15291280 AGGGATATAGGATTTGTAGCTTCATCTTACTCTACTGCAACTTCAGGGAGATAAGATTTGCCATT
1 AGGG-TATAGGAATTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATA
** * * * * *
15291345 GTAGTTTCATTCCAACCCACTGCAACTTTAGGGGTATCA-AAATTGTAGCTTCAATCT
65 GTAACTTCAATCCAACACACTACAACTTCAGGGGTAT-AGAAATTGTAGATTCAATCT
15291402 ATTCCACTGC
Statistics
Matches: 100, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
137 4 0.04
138 95 0.95
139 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (137 bp):
AGGGTATAGGAATTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATAG
TAACTTCAATCCAACACACTACAACTTCAGGGGTATAGAAATTGTAGATTCAATCTGATCTACTG
TAACTTT
Found at i:15291526 original size:44 final size:44
Alignment explanation
Indices: 15291455--15291702 Score: 130
Period size: 44 Copynumber: 5.5 Consensus size: 44
15291445 TCAATCCGAC
* *
15291455 CAACTTCAAGGG-TATAGGAATT-GTAGCTTTAATCCGATCCACTG
1 CAACTTC-AGGGATATAGG-ATTCATAGCTTTAATCTGATCCACTG
* *
15291499 CAACTTCAGGGATATAGGATTCATAGC-TTCATCTTACTCCACTG
1 CAACTTCAGGGATATAGGATTCATAGCTTTAATCTGA-TCCACTG
* * * * ** * *
15291543 CAACTTCAGGGAGAGAAGATTTGCCATTGTAG-TTTCATTCCAACCCACTT
1 CAACTTCAGGGATATAGGA-TT--CA---TAGCTTT-AATCTGATCCACTG
* * * * * *
15291593 CAACTTCAGGGGTATAGAAATT-GTAGCTTCAATTTGATCCATTG
1 CAACTTCAGGGATATAG-GATTCATAGCTTTAATCTGATCCACTG
* * * *
15291637 CAACTTCAGGGATATAGGATTTATAGC-TTCATCTTGCTCCACTA
1 CAACTTCAGGGATATAGGATTCATAGCTTTAATC-TGATCCACTG
* *
15291681 CAACTTCAGGGAGATAAGATTC
1 CAACTTCAGGGATATAGGATTC
15291703 GATATGGTGA
Statistics
Matches: 150, Mismatches: 39, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
43 19 0.13
44 96 0.64
45 4 0.03
47 2 0.01
50 25 0.17
51 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGATATAGGATTCATAGCTTTAATCTGATCCACTG
Found at i:15291724 original size:138 final size:138
Alignment explanation
Indices: 15291455--15291747 Score: 381
Period size: 138 Copynumber: 2.1 Consensus size: 138
15291445 TCAATCCGAC
* *
15291455 CAACTTCAAGGGTATAGGAATTGTAGCTTTAATCCGATCCACTGCAACTTCAGGGATATAGGATT
1 CAACTTCAAGGGTATAGAAATTGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATT
* * * * * **
15291520 CATAGCTTCATCTTACTCCACTGCAACTTCAGGGAGAGAAGATTTGCCATTGTAGTTTCATTCCA
66 CATAGCTTCATCTTACTCCACTACAACTTCAGGGAGAGAAGATTCGACATGGTAGCTTCAACCCA
15291585 ACCCACTT
131 ACCCACTT
* ** *
15291593 CAACTTCAGGGGTATAGAAATTGTAGCTTCAATTTGATCCATTGCAACTTCAGGGATATAGGATT
1 CAACTTCAAGGGTATAGAAATTGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATT
* * * *
15291658 TATAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGATATGGT-GACTTCAACCC
66 CATAGCTTCATCTTACTCCACTACAACTTCAGGGAGAGAAGATTCGACATGGTAG-CTTCAACCC
* *
15291722 AACCTACTG
130 AACCCACTT
* *
15291731 CAATTTTAAGGGTATAG
1 CAACTTCAAGGGTATAG
15291748 GATTTGTGGT
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
137 1 0.01
138 131 0.99
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (138 bp):
CAACTTCAAGGGTATAGAAATTGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATT
CATAGCTTCATCTTACTCCACTACAACTTCAGGGAGAGAAGATTCGACATGGTAGCTTCAACCCA
ACCCACTT
Found at i:15301085 original size:7 final size:7
Alignment explanation
Indices: 15301058--15301098 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
15301048 TTAGAATAAT
15301058 AAAAATA
1 AAAAATA
15301065 ATAATAAT-
1 A-AA-AATA
15301073 AAAAATA
1 AAAAATA
15301080 AAAAATA
1 AAAAATA
15301087 AAAAATA
1 AAAAATA
15301094 AAAAA
1 AAAAA
15301099 AGTACCATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 3 0.10
7 22 0.71
8 3 0.10
9 3 0.10
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:15301099 original size:15 final size:16
Alignment explanation
Indices: 15301052--15301098 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
15301042 ATGATATTAG
*
15301052 AATAATAAAAAT-AAT
1 AATAATAAAAATAAAA
15301067 AATAATAAAAATAAAA
1 AATAATAAAAATAAAA
15301083 AAT-A-AAAAATAAAA
1 AATAATAAAAATAAAA
15301097 AA
1 AA
15301099 AGTACCATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.40
15 13 0.43
16 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAATAAAAATAAAA
Found at i:15311177 original size:65 final size:65
Alignment explanation
Indices: 15311073--15311203 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
15311063 CATATGACTC
15311073 AATGGAATTATTCATGGTTTTTTAATTTAATGCATTTGATAAATTTAAGTTGTTTATACAAACTT
1 AATGGAATTATTCATGGTTTTTTAATTTAATGCATTTGATAAATTTAAGTTGTTTATACAAACTT
15311138 AATGGAATTATTCATGGTTTTTTAATTTAATGCATTTGATAAATTTAAGTTGTTTATACAAACTT
1 AATGGAATTATTCATGGTTTTTTAATTTAATGCATTTGATAAATTTAAGTTGTTTATACAAACTT
15311203 A
1 A
15311204 CTAAGCCTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (65 bp):
AATGGAATTATTCATGGTTTTTTAATTTAATGCATTTGATAAATTTAAGTTGTTTATACAAACTT
Found at i:15313724 original size:31 final size:31
Alignment explanation
Indices: 15313648--15313837 Score: 186
Period size: 31 Copynumber: 6.1 Consensus size: 31
15313638 TCCCACTAGA
* *
15313648 CTCTATCTATGTTTAC-AGTCCCAACGGGCTAT
1 CTCT-TCTATGTTTACTA-TCCCAACAGACTAT
15313680 CT-TTCTATGTTTACTATCCCAACAGACTAT
1 CTCTTCTATGTTTACTATCCCAACAGACTAT
* * ***
15313710 CTCTTCTATCTTTACTATCCTAGTGGACTAT
1 CTCTTCTATGTTTACTATCCCAACAGACTAT
* * * **
15313741 CTCTTCTGTGTTTACAATCCCAGCAGGTTAT
1 CTCTTCTATGTTTACTATCCCAACAGACTAT
* * * * *
15313772 CTCTTATGTGTTTACTGTCCCGATAGACTAT
1 CTCTTCTATGTTTACTATCCCAACAGACTAT
*
15313803 CTCTTCTATGTTTACTGTCCCAACAGACTAT
1 CTCTTCTATGTTTACTATCCCAACAGACTAT
15313834 CTCT
1 CTCT
15313838 GGGGATGCTA
Statistics
Matches: 129, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
30 25 0.19
31 102 0.79
32 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (31 bp):
CTCTTCTATGTTTACTATCCCAACAGACTAT
Found at i:15321322 original size:16 final size:16
Alignment explanation
Indices: 15321280--15321310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15321270 AGAGAACAAA
*
15321280 AAAATAAAAATTAAAG
1 AAAATTAAAATTAAAG
15321296 AAAATTAAAATTAAA
1 AAAATTAAAATTAAA
15321311 ACAATTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATTAAAATTAAAG
Found at i:15325152 original size:49 final size:47
Alignment explanation
Indices: 15325089--15325187 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 47
15325079 TCCATTGATA
* * *
15325089 AATGGATGCCCATAACCCCCTCAAATTTATTCTATTGTAACTCATAAAG
1 AATGAATGCCCATAA-CCCCT-AAATTCATTATATTGTAACTCATAAAG
* * * *
15325138 AATGAATGTCCATAACCCCTGAATTCATTATCTTGTAACTCCTAAAG
1 AATGAATGCCCATAACCCCTAAATTCATTATATTGTAACTCATAAAG
15325185 AAT
1 AAT
15325188 TTATAGGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 25 0.58
48 5 0.12
49 13 0.30
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (47 bp):
AATGAATGCCCATAACCCCTAAATTCATTATATTGTAACTCATAAAG
Found at i:15328820 original size:20 final size:21
Alignment explanation
Indices: 15328784--15328827 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
15328774 CATTAGATTT
*
15328784 TTTAAAACTTTACATA-TTAA
1 TTTAAAACTTTAAATATTTAA
15328804 TTTAAAA-TTTAAAATATTTAA
1 TTTAAAACTTT-AAATATTTAA
15328825 TTT
1 TTT
15328828 TAGGAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAAAACTTTAAATATTTAA
Found at i:15330620 original size:16 final size:18
Alignment explanation
Indices: 15330599--15330643 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 18
15330589 NNNNNNNNNN
15330599 TTTTTACTTTATATA-T-
1 TTTTTACTTTATATACTC
15330615 TTTTTA---TATATACTC
1 TTTTTACTTTATATACTC
15330630 TTTTTACTTTATAT
1 TTTTTACTTTATAT
15330644 TTCTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.25
14 1 0.04
15 6 0.25
16 6 0.25
18 5 0.21
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTACTTTATATACTC
Found at i:15332769 original size:241 final size:241
Alignment explanation
Indices: 15332346--15332828 Score: 822
Period size: 241 Copynumber: 2.0 Consensus size: 241
15332336 AAGTTATTTG
*
15332346 AGTCATTTCTAAGCTTCTTTTAAAATTTGGTTGCATTTGGGGGCCATTCAGGACATTTTTGGAGC
1 AGTCATTTCTAAGCTTCCTTTAAAATTTGGTTGCATTTGGGGGCCATTCAGGACATTTTTGGAGC
* * *
15332411 AAATCTGGGTAAAGAGGATCAATATTGTGCCATTGGTAAGTGAATGTCAAAACATTGGTGGTAGA
66 AAATCTAGGTAAAGAGGATCAATATTGTGACATTGGTAAGTGAATGTCAAAACATTGGCGGTAGA
* * *
15332476 ATACCCCAAGGCCACAGCAATCGCTAGTGGTATTGTGACATTGATACCAGAATTAACCAATGTTG
131 ATACCCCAAGGCCACAACAATCGCTAGTGGTATCGCGACATTGATACCAGAATTAACCAATGTTG
* *
15332541 TAACCTTGGCTAGTGAATATCGTAACATAAGGGACAATTTGCCCAA
196 TAACCTTGGCTAGTGAAAATCATAACATAAGGGACAATTTGCCCAA
* * *
15332587 AGTCATTTCTAAGCTTCCTTTAAATTTTGGTTGCATTTGGTGGCCATTCGGGACATTTTTGGAGC
1 AGTCATTTCTAAGCTTCCTTTAAAATTTGGTTGCATTTGGGGGCCATTCAGGACATTTTTGGAGC
*
15332652 AAATCTAGGTAAAGATGATCAATATTGTGACATTGGTAAGTGAATGTCAAAACATTGGCGGTAGA
66 AAATCTAGGTAAAGAGGATCAATATTGTGACATTGGTAAGTGAATGTCAAAACATTGGCGGTAGA
* **
15332717 ATACCCCAAGGTCACAACAATCGCTAGTGGTATCGCGACATTGATACCAGAATTGCCCAATGTTG
131 ATACCCCAAGGCCACAACAATCGCTAGTGGTATCGCGACATTGATACCAGAATTAACCAATGTTG
15332782 TAACCTTGGCTAGTGAAAATCATAACATAAGGGACAATTTGCCCAA
196 TAACCTTGGCTAGTGAAAATCATAACATAAGGGACAATTTGCCCAA
15332828 A
1 A
15332829 ATATGACTGA
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
241 226 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (241 bp):
AGTCATTTCTAAGCTTCCTTTAAAATTTGGTTGCATTTGGGGGCCATTCAGGACATTTTTGGAGC
AAATCTAGGTAAAGAGGATCAATATTGTGACATTGGTAAGTGAATGTCAAAACATTGGCGGTAGA
ATACCCCAAGGCCACAACAATCGCTAGTGGTATCGCGACATTGATACCAGAATTAACCAATGTTG
TAACCTTGGCTAGTGAAAATCATAACATAAGGGACAATTTGCCCAA
Found at i:15340802 original size:12 final size:12
Alignment explanation
Indices: 15340733--15340793 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
15340723 AATCATCGAG
*
15340733 ATCAACATCAAC
1 ATCAACATCATC
15340745 ATCAACATCAGT-
1 ATCAACATCA-TC
15340757 ATCGAA-ATCATC
1 ATC-AACATCATC
*
15340769 ATCATCATCATC
1 ATCAACATCATC
* *
15340781 ATTAAGATCATC
1 ATCAACATCATC
15340793 A
1 A
15340794 AAATCATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 2 0.05
12 36 0.90
13 2 0.05
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.26
Consensus pattern (12 bp):
ATCAACATCATC
Found at i:15342092 original size:7 final size:7
Alignment explanation
Indices: 15342082--15342108 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15342072 TTTTTTCTAT
15342082 TTTTAAA
1 TTTTAAA
15342089 TTTTAAA
1 TTTTAAA
15342096 TTTTAAA
1 TTTTAAA
15342103 TTTTAA
1 TTTTAA
15342109 TAAACCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:15349128 original size:105 final size:105
Alignment explanation
Indices: 15348953--15349150 Score: 351
Period size: 105 Copynumber: 1.9 Consensus size: 105
15348943 TTAAATATTA
*
15348953 GTGAGCTTCTGAATCAACATTCTTTTAAGAGCCTCGATGTGACCATATACCTTCTTATTCCAATC
1 GTGAGCTTCTGAATCAACATTCTTTTAAGAGCCTCGACGTGACCATATACCTTCTTATTCCAATC
15349018 CTTGAGTTAACTCGTAAAATGAGAAAGCTTCTGAATATGT
66 CTTGAGTTAACTCGTAAAATGAGAAAGCTTCTGAATATGT
** *
15349058 GTGAGCTTCTGAATCAGTATTCTTTTAAGAGCCTCGACGTGACCATATACCTTTTTATTCCAATC
1 GTGAGCTTCTGAATCAACATTCTTTTAAGAGCCTCGACGTGACCATATACCTTCTTATTCCAATC
*
15349123 CTTGAGTTGACTCGTAAAATGAGAAAGC
66 CTTGAGTTAACTCGTAAAATGAGAAAGC
15349151 ACAGTGGACA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 88 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (105 bp):
GTGAGCTTCTGAATCAACATTCTTTTAAGAGCCTCGACGTGACCATATACCTTCTTATTCCAATC
CTTGAGTTAACTCGTAAAATGAGAAAGCTTCTGAATATGT
Found at i:15352764 original size:9 final size:9
Alignment explanation
Indices: 15352750--15352796 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
15352740 ATTTTGTTGG
15352750 GGAAGAAGA
1 GGAAGAAGA
15352759 GGAAGAAGA
1 GGAAGAAGA
*
15352768 AGAAGAAGA
1 GGAAGAAGA
*
15352777 AGAAGAAGA
1 GGAAGAAGA
15352786 GGAAGAGAGA
1 GGAAGA-AGA
15352796 G
1 G
15352797 AAATTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 31 0.89
10 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (9 bp):
GGAAGAAGA
Found at i:15352766 original size:3 final size:3
Alignment explanation
Indices: 15352751--15352791 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
15352741 TTTTGTTGGG
* *
15352751 GAA GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
15352792 GAGAGAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15360824 original size:27 final size:27
Alignment explanation
Indices: 15360769--15360867 Score: 67
Period size: 27 Copynumber: 3.7 Consensus size: 27
15360759 ACCTAGGCAA
* * * *
15360769 TAAACATGGGGTAGTTCATCGGGACAG
1 TAAACACGAGGTAGTCCATCGAGACAG
*
15360796 TAAACACGAGGTAGTCCATCGAGATAG
1 TAAACACGAGGTAGTCCATCGAGACAG
* * ** *
15360823 TAGAA-A-TAGGGTAGCCCGCCAAGACAG
1 TA-AACACGA-GGTAGTCCATCGAGACAG
*
15360850 TAAACACAAGGTAGTCCA
1 TAAACACGAGGTAGTCCA
15360868 CCGCGACTGC
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
26 3 0.06
27 48 0.89
28 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.17
Consensus pattern (27 bp):
TAAACACGAGGTAGTCCATCGAGACAG
Found at i:15365719 original size:20 final size:19
Alignment explanation
Indices: 15365674--15365711 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15365664 TCGATCCAAT
15365674 ATCGATACTTTTTGTCAAG
1 ATCGATACTTTTTGTCAAG
15365693 ATCGATACTTTTTGTCAAG
1 ATCGATACTTTTTGTCAAG
15365712 TACTGATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
ATCGATACTTTTTGTCAAG
Found at i:15367362 original size:17 final size:17
Alignment explanation
Indices: 15367340--15367373 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15367330 TGCAAAAGAA
15367340 GGTTAAATTCTATTACT
1 GGTTAAATTCTATTACT
15367357 GGTTAAATTCTATTACT
1 GGTTAAATTCTATTACT
15367374 AGGCTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
GGTTAAATTCTATTACT
Found at i:15370892 original size:15 final size:15
Alignment explanation
Indices: 15370871--15370901 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15370861 TTATGTTCAT
15370871 CTTTTTTTT-CTTTC
1 CTTTTTTTTACTTTC
15370885 CTTTTTTTTACTTTC
1 CTTTTTTTTACTTTC
15370900 CT
1 CT
15370902 CAAAATCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
CTTTTTTTTACTTTC
Found at i:15373421 original size:19 final size:19
Alignment explanation
Indices: 15373399--15373436 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15373389 TCAATCATCC
15373399 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
15373418 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
15373437 ACTCTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:15387185 original size:60 final size:61
Alignment explanation
Indices: 15387101--15387259 Score: 178
Period size: 61 Copynumber: 2.6 Consensus size: 61
15387091 TTCAAGAAGT
* * * *
15387101 TCGCCACGAAGGCTTACATTTCCAGAGTTTTGCCACAAAGAC-AT-CTCTTACATCCAATAC
1 TCGCCACAAAGGATTTCATGTCCAGAGTTTTGCCACAAAGACTATCCT-TTACATCCAATAC
* * * * * *
15387161 TCGCCATAAAGGATTTCATGTCCAGAGTTGTGCCAGAAAGGCTATCCTTTACATTCAGTAC
1 TCGCCACAAAGGATTTCATGTCCAGAGTTTTGCCACAAAGACTATCCTTTACATCCAATAC
* * *
15387222 TCGCCACAAAGGATTTCTTGTCTAGAGATTTGCCACAA
1 TCGCCACAAAGGATTTCATGTCCAGAGTTTTGCCACAA
15387260 GGTTTATCAT
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
60 34 0.42
61 45 0.56
62 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (61 bp):
TCGCCACAAAGGATTTCATGTCCAGAGTTTTGCCACAAAGACTATCCTTTACATCCAATAC
Found at i:15387226 original size:61 final size:59
Alignment explanation
Indices: 15387121--15387299 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 59
15387111 GGCTTACATT
* * *
15387121 TCCAGAGTTTTGCCACAAAGAC-AT-CTCTTACATCCAATACTCGCCATAAAGGATTTCATG
1 TCCAGAG-TTTGCCA-AAAGGCTATCCT-TTACATTCAGTACTCGCCATAAAGGATTTCATG
* *
15387181 TCCAGAGTTGTGCCAGAAAGGCTATCCTTTACATTCAGTACTCGCCACAAAGGATTTCTTG
1 TCCAGAGTT-TGCCA-AAAGGCTATCCTTTACATTCAGTACTCGCCATAAAGGATTTCATG
* * * * * *
15387242 TCTAGAGATTTGCCACAAGGTTTATCATTTACATTCAGTACTTGCCATAAAGGCTTTC
1 TCCAGAG-TTTGCCAAAAGG-CTATCCTTTACATTCAGTACTCGCCATAAAGGATTTC
15387300 CTTTGACCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
59 2 0.02
60 21 0.21
61 74 0.73
62 4 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (59 bp):
TCCAGAGTTTGCCAAAAGGCTATCCTTTACATTCAGTACTCGCCATAAAGGATTTCATG
Found at i:15392191 original size:214 final size:215
Alignment explanation
Indices: 15391947--15392376 Score: 853
Period size: 214 Copynumber: 2.0 Consensus size: 215
15391937 CAATAAATTT
15391947 TTATATTAATGGTTTAAAACTATTTTTTTTTCTTAATCTAAATATCGATTCAAAGTAAAATTAAA
1 TTATATTAATGGTTTAAAACTATTTTTTTTTCTTAATCTAAATATCGATTCAAAGTAAAATTAAA
15392012 TTCAAAATATTTTTAAAATGTAAAATATTATTGTCCATTTTCATAATTTAGGAATTAACTATAAT
66 TTCAAAATATTTTTAAAATGTAAAATATTATTGTCCATTTTCATAATTTAGGAATTAACTATAAT
15392077 AGTTTCTATACTTATATGCTGCATTCAATTAATTCATAGTATTTGAGGAAATTATACTCAATTAG
131 AGTTTCTATACTTATATGCTGCATTCAATTAATTCATAGTATTTGAGGAAATTATACTCAATTAG
15392142 TATTTTTTTTGTCAAATTAG
196 TATTTTTTTTGTCAAATTAG
15392162 TTATATTAAT-GTTTAAAACTATTTTTTTTTCTTAATCTAAATATCGATTCAAAGTAAAATTAAA
1 TTATATTAATGGTTTAAAACTATTTTTTTTTCTTAATCTAAATATCGATTCAAAGTAAAATTAAA
15392226 TTCAAAATATTTTTAAAATGTAAAATATTATTGTCCATTTTCATAATTTAGGAATTAACTATAAT
66 TTCAAAATATTTTTAAAATGTAAAATATTATTGTCCATTTTCATAATTTAGGAATTAACTATAAT
15392291 AGTTTCTATACTTATATGCTGCATTCAATTAATTCATAGTATTTGAGGAAATTATACTCAATTAG
131 AGTTTCTATACTTATATGCTGCATTCAATTAATTCATAGTATTTGAGGAAATTATACTCAATTAG
15392356 TATTTTTTTTGTCAAATTAG
196 TATTTTTTTTGTCAAATTAG
15392376 T
1 T
15392377 AAATTATATT
Statistics
Matches: 215, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 205 0.95
215 10 0.05
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (215 bp):
TTATATTAATGGTTTAAAACTATTTTTTTTTCTTAATCTAAATATCGATTCAAAGTAAAATTAAA
TTCAAAATATTTTTAAAATGTAAAATATTATTGTCCATTTTCATAATTTAGGAATTAACTATAAT
AGTTTCTATACTTATATGCTGCATTCAATTAATTCATAGTATTTGAGGAAATTATACTCAATTAG
TATTTTTTTTGTCAAATTAG
Found at i:15415686 original size:50 final size:50
Alignment explanation
Indices: 15415569--15415757 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 50
15415559 GATAATAACA
* ** * *
15415569 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * **
15415618 TGCCAATGCCATATCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15415668 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
15415723 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
15415758 AGATCTCTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.33
50 37 0.32
53 5 0.04
55 2 0.02
56 33 0.28
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15415744 original size:56 final size:50
Alignment explanation
Indices: 15415569--15415765 Score: 200
Period size: 56 Copynumber: 3.8 Consensus size: 50
15415559 GATAATAACA
* * ** * *
15415569 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-CGG
* * ** *
15415618 TGCCAATGCCATATCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
*
15415668 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCTC--GG
*
15415723 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
15415766 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.31
50 37 0.30
53 5 0.04
55 2 0.02
56 40 0.33
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:15416135 original size:30 final size:30
Alignment explanation
Indices: 15416101--15416158 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15416091 CCTCGACTCT
*
15416101 AACTTTGGCAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * *
15416131 AACTTTTACATAATTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
15416159 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:15426161 original size:50 final size:50
Alignment explanation
Indices: 15426037--15426325 Score: 296
Period size: 50 Copynumber: 5.7 Consensus size: 50
15426027 GATAATAACA
* ** * *
15426037 TGCCAAAT-CCATGTCCCATACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
15426086 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
15426136 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
15426186 TGCCAACGCCATGTCCCAGAGATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
15426236 TGCCAATTCCATGCCCCAGACATGGTCTTACATGGCACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATC----GG
15426291 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
15426326 AGATCTCTTT
Statistics
Matches: 199, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.02
49 36 0.18
50 123 0.62
51 2 0.01
55 2 0.01
56 32 0.16
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:15428778 original size:18 final size:20
Alignment explanation
Indices: 15428749--15428798 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
15428739 AAAGCAAAAA
15428749 CCAAAAACCAAAACACAGC-
1 CCAAAAACCAAAACACAGCT
*
15428768 CCAAAAA-CAAAATACAGCT
1 CCAAAAACCAAAACACAGCT
15428787 CCAAAAATCCAA
1 CCAAAAA-CCAA
15428799 GAATAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 10 0.37
19 14 0.52
21 3 0.11
ACGTcount: A:0.58, C:0.32, G:0.04, T:0.06
Consensus pattern (20 bp):
CCAAAAACCAAAACACAGCT
Found at i:15429103 original size:5 final size:5
Alignment explanation
Indices: 15429059--15429151 Score: 102
Period size: 5 Copynumber: 18.8 Consensus size: 5
15429049 TATATTAGAA
* * * * *
15429059 CATAT CTTAT CATAC CAGAG CATGT CATAT CGAT-T CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT C-ATAT CATAT CATAT CATAT
15429109 CGAT-T CATAT CATAT CATAT CATA- CATAT CATAT CATAT CATA
1 C-ATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
15429152 CAAAGTCCTA
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
4 8 0.11
5 62 0.84
6 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (5 bp):
CATAT
Found at i:15429106 original size:20 final size:20
Alignment explanation
Indices: 15429083--15429148 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
15429073 CCAGAGCATG
15429083 TCATATCGATTCATATCATA
1 TCATATCGATTCATATCATA
15429103 TCATATCGATTCATATCATA
1 TCATATCGATTCATATCATA
*
15429123 TCATATC-ATACATATCATA
1 TCATATCGATTCATATCATA
15429142 TCATATC
1 TCATATC
15429149 ATACAAAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 18 0.40
20 27 0.60
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.39
Consensus pattern (20 bp):
TCATATCGATTCATATCATA
Found at i:15433876 original size:22 final size:24
Alignment explanation
Indices: 15433838--15433881 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15433828 CCGGCCCGGT
*
15433838 TTTTAATAAATACAAAA-AAAATA
1 TTTTAATAAATAAAAAATAAAATA
15433861 TTTTAA-AAATAAAAAATAAAA
1 TTTTAATAAATAAAAAATAAAA
15433882 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
TTTTAATAAATAAAAAATAAAATA
Found at i:15437110 original size:144 final size:145
Alignment explanation
Indices: 15436938--15437232 Score: 583
Period size: 144 Copynumber: 2.0 Consensus size: 145
15436928 CTCATATATA
15436938 TATATATATATATATATTATTTTGTCTTACTGTTGTCTATTTTTGTCCTAGTTGAGACGATTGGC
1 TATATATATATATATATTATTTTGTCTTACTGTTGTCTATTTTTGTCCTAGTTGAGACGATTGGC
15437003 TTTTTATAATAAGAGAAATTTAATAGATAACAGACGGTTTTAGGTAGCTAAGATAAATTTCATGA
66 TTTTTATAATAAGAGAAATTTAATAGATAACAGACGGTTTTAGGTAGCTAAGATAAATTTCATGA
15437068 AAGAAACAAATTGTC
131 AAGAAACAAATTGTC
15437083 TATATATATATA-ATATTATTTTGTCTTACTGTTGTCTATTTTTGTCCTAGTTGAGACGATTGGC
1 TATATATATATATATATTATTTTGTCTTACTGTTGTCTATTTTTGTCCTAGTTGAGACGATTGGC
15437147 TTTTTATAATAAGAGAAATTTAATAGATAACAGACGGTTTTAGGTAGCTAAGATAAATTTCATGA
66 TTTTTATAATAAGAGAAATTTAATAGATAACAGACGGTTTTAGGTAGCTAAGATAAATTTCATGA
15437212 AAGAAACAAATTGTC
131 AAGAAACAAATTGTC
15437227 TATATA
1 TATATA
15437233 AGGATAAAAG
Statistics
Matches: 150, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 138 0.92
145 12 0.08
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.41
Consensus pattern (145 bp):
TATATATATATATATATTATTTTGTCTTACTGTTGTCTATTTTTGTCCTAGTTGAGACGATTGGC
TTTTTATAATAAGAGAAATTTAATAGATAACAGACGGTTTTAGGTAGCTAAGATAAATTTCATGA
AAGAAACAAATTGTC
Found at i:15448233 original size:24 final size:23
Alignment explanation
Indices: 15448197--15448242 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
15448187 ACAACTGGAC
15448197 AAAAGATGCCATCCTTATTCAAAG
1 AAAAGATGCCATCCTTA-TCAAAG
* * *
15448221 AAAATATGTCATCTTTATCAAA
1 AAAAGATGCCATCCTTATCAAA
15448243 AAACTGTGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAGATGCCATCCTTATCAAAG
Found at i:15449131 original size:34 final size:34
Alignment explanation
Indices: 15449088--15449157 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
15449078 TTCAGTAGTC
*
15449088 ACTTCCCAAGCCTGATACGAGAGAACTAATTGCT
1 ACTTCCCAAGCCAGATACGAGAGAACTAATTGCT
15449122 ACTTCCCAAGCCAGATACGAGAGAACTAATTGCT
1 ACTTCCCAAGCCAGATACGAGAGAACTAATTGCT
15449156 AC
1 AC
15449158 GTACCGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (34 bp):
ACTTCCCAAGCCAGATACGAGAGAACTAATTGCT
Found at i:15451740 original size:1 final size:1
Alignment explanation
Indices: 15451734--15451778 Score: 72
Period size: 1 Copynumber: 45.0 Consensus size: 1
15451724 ACTTGCTCAG
* *
15451734 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15451779 TACTTGTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:15455012 original size:17 final size:18
Alignment explanation
Indices: 15454983--15455036 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
15454973 AAATCTACGC
15454983 AAATT-TTTT-TAAAAAT
1 AAATTATTTTATAAAAAT
15454999 -AATTATTTTAT-AAAAT
1 AAATTATTTTATAAAAAT
15455015 AAATTATTTTATATAAAA-
1 AAATTATTTTATA-AAAAT
15455033 AAAT
1 AAAT
15455037 AAATTTCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.12
16 9 0.27
17 12 0.36
18 4 0.12
19 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTATTTTATAAAAAT
Found at i:15455013 original size:16 final size:17
Alignment explanation
Indices: 15454983--15455027 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
15454973 AAATCTACGC
*
15454983 AAATTTTTTTA-AAAAT
1 AAATTATTTTATAAAAT
15454999 -AATTATTTTATAAAAT
1 AAATTATTTTATAAAAT
15455015 AAATTATTTTATA
1 AAATTATTTTATA
15455028 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 5 0.19
17 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTATTTTATAAAAT
Found at i:15458768 original size:16 final size:16
Alignment explanation
Indices: 15458747--15458778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15458737 TCAATTAATC
*
15458747 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
15458763 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
15458779 CAACCAATTA
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:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Done.