Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 39 of 106
Found at i:14898108 original size:22 final size:22
Alignment explanation
Indices: 14898080--14898161 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
14898070 ATTTAACACG
14898080 GCGTGTAACAATTTTTGAACTT
1 GCGTGTAACAATTTTTGAACTT
**
14898102 GCGTGTAAC-ATTTTTGAACAAG
1 GCGTGTAACAATTTTTGAAC-TT
*
14898124 GCATGTAACAATTTTTGAACTT
1 GCGTGTAACAATTTTTGAACTT
*
14898146 GCGTATAA-AATTTTTG
1 GCGTGTAACAATTTTTG
14898162 GGCATTGCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 18 0.35
22 23 0.45
23 10 0.20
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (22 bp):
GCGTGTAACAATTTTTGAACTT
Found at i:14898140 original size:44 final size:44
Alignment explanation
Indices: 14898056--14898225 Score: 144
Period size: 44 Copynumber: 3.8 Consensus size: 44
14898046 TAGCACATGA
* * *
14898056 CGTGTAACATTTTTATTTAACACGGCGTGTAACAATTTTTGAACTTG
1 CGTGTAACA--TTT-TTGAACAAGGCATGTAACAATTTTTGAACTTG
14898103 CGTGTAACATTTTTGAACAAGGCATGTAACAATTTTTGAACTTG
1 CGTGTAACATTTTTGAACAAGGCATGTAACAATTTTTGAACTTG
* * ** ** * *
14898147 CGTATAAAATTTTTGGGCATTGCATGTAAC-ATTTTCTAAACATGG
1 CGTGTAACATTTTTGAACAAGGCATGTAACAATTTT-TGAAC-TTG
* * * *
14898192 TGTGTAACATTTTTTAAAAATGGCGTGTAACAAT
1 CGTGTAACATTTTTGAACAA-GGCATGTAACAAT
14898226 ATGACTGACA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
43 5 0.05
44 57 0.58
45 17 0.17
46 8 0.08
47 11 0.11
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (44 bp):
CGTGTAACATTTTTGAACAAGGCATGTAACAATTTTTGAACTTG
Found at i:14898141 original size:23 final size:23
Alignment explanation
Indices: 14898056--14898225 Score: 91
Period size: 22 Copynumber: 7.5 Consensus size: 23
14898046 TAGCACATGA
* * *
14898056 CGTGTAACATTTTTATTTAACACGG
1 CGTGTAACA-ATTT-TTGAACAAGG
**
14898081 CGTGTAACAATTTTTGAAC-TTG
1 CGTGTAACAATTTTTGAACAAGG
14898103 CGTGTAAC-ATTTTTGAACAAGG
1 CGTGTAACAATTTTTGAACAAGG
* **
14898125 CATGTAACAATTTTTGAAC-TTG
1 CGTGTAACAATTTTTGAACAAGG
* ** **
14898147 CGTATAA-AATTTTTGGGCATTG
1 CGTGTAACAATTTTTGAACAAGG
* * *
14898169 CATGTAAC-ATTTTCTAAACATGG
1 CGTGTAACAATTTT-TGAACAAGG
* * *
14898192 TGTGTAAC-ATTTTTTAAAAATGG
1 CGTGTAACAATTTTTGAACAA-GG
14898215 CGTGTAACAAT
1 CGTGTAACAAT
14898226 ATGACTGACA
Statistics
Matches: 113, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
21 19 0.17
22 40 0.35
23 40 0.35
24 5 0.04
25 9 0.08
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (23 bp):
CGTGTAACAATTTTTGAACAAGG
Found at i:14898219 original size:25 final size:23
Alignment explanation
Indices: 14898171--14898223 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
14898161 GGGCATTGCA
*
14898171 TGTAACATTTTCTAAACATGGTG
1 TGTAACATTTTCTAAAAATGGTG
* *
14898194 TGTAACATTTTTTAAAAATGGCG
1 TGTAACATTTTCTAAAAATGGTG
14898217 TGTAACA
1 TGTAACA
14898224 ATATGACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (23 bp):
TGTAACATTTTCTAAAAATGGTG
Found at i:14905196 original size:31 final size:31
Alignment explanation
Indices: 14905152--14905484 Score: 202
Period size: 31 Copynumber: 11.0 Consensus size: 31
14905142 TCATTTTTTG
*
14905152 GTGACACGTTGAGTGGTAGCAGATTTATGGC
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
* **
14905183 GTAACACGCTGAGTGCAAGCAGATTTATGGC
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
* * *
14905214 GTGACACGCTGTGTGGTAGCAAATTTATGGT
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
* * * *
14905245 GTGACATGCTAAGTGGAAGTAGATTTATGGC
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
* ** * *
14905276 ATGACACTTTGAGTGGT-----A---ACGGA
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
* ** ** * **
14905299 GTGAAAATCTGAGTGCAAGCAGATTTTTTAC
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
* * ** *
14905330 GTGAAACGTTGAGTGCAAGCAGATTTTTGGC
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
*
14905361 ATGACACGCTGAGT-GTAAGCAGATTTATGGC
1 GTGACACGCTGAGTGGT-AGCAGATTTATGGC
* * *
14905392 GCGACACTCTAAGTGGTAGCAGATTTATAGG-
1 GTGACACGCTGAGTGGTAGCAGATTTAT-GGC
* *
14905423 GTGACACGTTGAGT-GTAAGCAGATTTTTGGC
1 GTGACACGCTGAGTGGT-AGCAGATTTATGGC
* * ** *
14905454 ATGACACACTGAGTGCAAGCAGATTTTTGGC
1 GTGACACGCTGAGTGGTAGCAGATTTATGGC
14905485 TTGTCATACT
Statistics
Matches: 227, Mismatches: 61, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
23 14 0.06
26 1 0.00
28 1 0.00
30 4 0.02
31 203 0.89
32 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.28
Consensus pattern (31 bp):
GTGACACGCTGAGTGGTAGCAGATTTATGGC
Found at i:14905407 original size:116 final size:116
Alignment explanation
Indices: 14905191--14905409 Score: 258
Period size: 116 Copynumber: 1.9 Consensus size: 116
14905181 GCGTAACACG
* * * ** ** *
14905191 CTGAGTGCAAGCAGATTTATGGCGTGACACGCTGTGTGGTAGCAAATTTATGGTGTGACATGCTA
1 CTGAGTGCAAGCAGATTTATGACGTGAAACGCTGAGTGCAAGCAAATTTATGGCATGACACGCTA
* * * *
14905256 AGTGGAAGTAGATTTATGGCATGACACTTTGAGTGGTAACGGAGTGAAAAT
66 AGTGGAAGCAGATTTATGGCACGACACTCTAAGTGGTAACGGAGTGAAAAT
* * * * * *
14905307 CTGAGTGCAAGCAGATTTTTTACGTGAAACGTTGAGTGCAAGCAGATTTTTGGCATGACACGCTG
1 CTGAGTGCAAGCAGATTTATGACGTGAAACGCTGAGTGCAAGCAAATTTATGGCATGACACGCTA
* *
14905372 AGTGTAAGCAGATTTATGGCGCGACACTCTAAGTGGTA
66 AGTGGAAGCAGATTTATGGCACGACACTCTAAGTGGTA
14905410 GCAGATTTAT
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
116 83 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (116 bp):
CTGAGTGCAAGCAGATTTATGACGTGAAACGCTGAGTGCAAGCAAATTTATGGCATGACACGCTA
AGTGGAAGCAGATTTATGGCACGACACTCTAAGTGGTAACGGAGTGAAAAT
Found at i:14908149 original size:60 final size:61
Alignment explanation
Indices: 14908053--14908202 Score: 230
Period size: 60 Copynumber: 2.5 Consensus size: 61
14908043 ATAAGAGACC
* * * * *
14908053 AAAACAGAAAGTTTTTCGCTGCAGCGAGATTCAATCTCGCTACAGCGAAATTTCAACCTA-
1 AAAACAGAAAGTTTCTCGTTGCAGCGAGATTAAATCTCGCTACAGCGAAATTACAACCCAG
* *
14908113 AAAACAGAATGTTTCTCGTTGCAGCGAGATTAAATCTCGCTGCAGCGAAATTACAACCCAG
1 AAAACAGAAAGTTTCTCGTTGCAGCGAGATTAAATCTCGCTACAGCGAAATTACAACCCAG
14908174 AAAACAGAAAGTTTCTCGTTGCAGCGAGA
1 AAAACAGAAAGTTTCTCGTTGCAGCGAGA
14908203 AGCTACAGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 53 0.65
61 28 0.35
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (61 bp):
AAAACAGAAAGTTTCTCGTTGCAGCGAGATTAAATCTCGCTACAGCGAAATTACAACCCAG
Found at i:14908156 original size:21 final size:21
Alignment explanation
Indices: 14908126--14908165 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14908116 ACAGAATGTT
* *
14908126 TCTCGTTGCAGCGAGATTAAA
1 TCTCGCTGCAGCGAAATTAAA
14908147 TCTCGCTGCAGCGAAATTA
1 TCTCGCTGCAGCGAAATTA
14908166 CAACCCAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
TCTCGCTGCAGCGAAATTAAA
Found at i:14909051 original size:43 final size:43
Alignment explanation
Indices: 14909003--14909112 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
14908993 TCACCAGCTC
** *
14909003 ATGCGCACTCCCTACTCGCACAT-GGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-GGGTCATC-CTCGAGTT
*
14909046 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGATTT
1 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGAGTT
* *
14909089 ATGTGCACTCCCTACTTGCACATA
1 ATGCGCACTCCCTACTCGCACATA
14909113 GCCGAGTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
42 1 0.02
43 57 0.97
44 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGAGTT
Found at i:14910922 original size:145 final size:145
Alignment explanation
Indices: 14910742--14911079 Score: 428
Period size: 145 Copynumber: 2.3 Consensus size: 145
14910732 GAAATTACTG
* * * *
14910742 TGTTACTCGATAAACATATGTGGAAATGTTAAACACAAACTGTTAGAACCGATCTTA-CTGACGG
1 TGTTATTCGATAAACATATGTGGAAATGTTGAACACAAACTGTTAAAACCGATATTATC-GACGG
* * *
14910806 CTCATTAGCACTGTATGTTTGA-AAATGACCTCTCGGTGGTTGTGGAGCTATCGTCGCATGGTCC
65 CTCATTAGCACTGTACGTCTGAGAAA-GACCTCTCGGTGGTTATGGAGCTATCGTCGCATGGTCC
14910870 AACTGCAAACAAAAATA
129 AACTGCAAACAAAAATA
* * *
14910887 TGTTATTCAATAAACATATGTGGAAATGTTGAACACAAACCGTTAAAACTGATATTATCGACGGC
1 TGTTATTCGATAAACATATGTGGAAATGTTGAACACAAACTGTTAAAACCGATATTATCGACGGC
* * * * *
14910952 TCATTAGCATTGTGCGTCTGAGAAAGACCTCTTGGTGGTTATGGAGTTATCGTTGCATGGTCCAA
66 TCATTAGCACTGTACGTCTGAGAAAGACCTCTCGGTGGTTATGGAGCTATCGTCGCATGGTCCAA
* * * *
14911017 TTGCAAATACATATA
131 CTGCAAACAAAAATA
* * * * *
14911032 TGTTATTCGATAATCACATATGGAATTGTTGAACACAAACTATTAAAA
1 TGTTATTCGATAAACATATGTGGAAATGTTGAACACAAACTGTTAAAA
14911080 TCGTCCTTAC
Statistics
Matches: 165, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
145 161 0.98
146 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (145 bp):
TGTTATTCGATAAACATATGTGGAAATGTTGAACACAAACTGTTAAAACCGATATTATCGACGGC
TCATTAGCACTGTACGTCTGAGAAAGACCTCTCGGTGGTTATGGAGCTATCGTCGCATGGTCCAA
CTGCAAACAAAAATA
Found at i:14912558 original size:31 final size:31
Alignment explanation
Indices: 14912522--14912787 Score: 361
Period size: 31 Copynumber: 8.6 Consensus size: 31
14912512 AGAAAGAAAT
** *
14912522 AAATGTTGTTACACGCCACACATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTC
* * *
14912553 AAATGTTATTACATGCCATGCATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTC
14912584 AAATGTTGTTACACGCCATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTC
* *
14912615 AAATTTTGTTACATGCCATGCATATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTC
* * *
14912646 AAATGTTGTTACATGCCATGCATATCAGGTA
1 AAATGTTGTTACACGCCATGCATATCAAGTC
* *
14912677 AAATGTTGTTACATGCCATGCGTATCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTC
* * * *
14912708 AAATATTGTTACACACCATGCGTATCAAGTG
1 AAATGTTGTTACACGCCATGCATATCAAGTC
*
14912739 AAATGTTGTTACACGCCATGCATCTCAAGTC
1 AAATGTTGTTACACGCCATGCATATCAAGTC
*
14912770 AAATGTTGCTACACGCCA
1 AAATGTTGTTACACGCCA
14912788 ACGTTAACAC
Statistics
Matches: 210, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 210 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (31 bp):
AAATGTTGTTACACGCCATGCATATCAAGTC
Found at i:14922593 original size:24 final size:24
Alignment explanation
Indices: 14922564--14922691 Score: 82
Period size: 24 Copynumber: 5.4 Consensus size: 24
14922554 CAAGTCATGT
*
14922564 CATGTCACAAACTCTGAACCCTGT
1 CATGTCACAAACTCTGAACCCTGG
* * * ** *
14922588 CGTGTCACAGATTCT-CTCCATGG
1 CATGTCACAAACTCTGAACCCTGG
14922611 CATGTCACAAACTCTGAACCCT-G
1 CATGTCACAAACTCTGAACCCTGG
* * * *** *
14922634 CTGTGTCACAGATTC-CCTCCATGG
1 C-ATGTCACAAACTCTGAACCCTGG
* *
14922658 CGTGTCACAAACTCTGAACCCTGC
1 CATGTCACAAACTCTGAACCCTGG
14922682 CATGTCACAA
1 CATGTCACAA
14922692 CCGTGTCACA
Statistics
Matches: 72, Mismatches: 28, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
23 32 0.44
24 40 0.56
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (24 bp):
CATGTCACAAACTCTGAACCCTGG
Found at i:14922615 original size:47 final size:46
Alignment explanation
Indices: 14922559--14922690 Score: 201
Period size: 47 Copynumber: 2.8 Consensus size: 46
14922549 ATATTCAAGT
* *
14922559 CATGTCATGTCACAAACTCTGAACCCTGTCGTGTCACAGATTCTCTC
1 CATGGCATGTCACAAACTCTGAACCCTG-CGTGTCACAGATTCCCTC
14922606 CATGGCATGTCACAAACTCTGAACCCTGCTGTGTCACAGATTCCCTC
1 CATGGCATGTCACAAACTCTGAACCCTGC-GTGTCACAGATTCCCTC
* *
14922653 CATGGCGTGTCACAAACTCTGAACCCTGCCATGTCACA
1 CATGGCATGTCACAAACTCTGAACCCTG-CGTGTCACA
14922691 ACCGTGTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
46 1 0.01
47 77 0.97
48 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (46 bp):
CATGGCATGTCACAAACTCTGAACCCTGCGTGTCACAGATTCCCTC
Found at i:14922746 original size:23 final size:23
Alignment explanation
Indices: 14922693--14922885 Score: 149
Period size: 23 Copynumber: 8.4 Consensus size: 23
14922683 ATGTCACAAC
* * *
14922693 CGTGTCACATATGCTCGCCATGT
1 CGTGTCACATATTCTCACCATGG
* *
14922716 TGTCTCACATATTCTCACCATGG
1 CGTGTCACATATTCTCACCATGG
* *
14922739 CGTGTCACACATATGCACACCATGG
1 CGTGT--CACATATTCTCACCATGG
* *
14922764 CGTG-C-CACATTCTCA-CACTAG
1 CGTGTCACATATTCTCACCA-TGG
*
14922785 CGTGTCACATATTCTCACCATGT
1 CGTGTCACATATTCTCACCATGG
* * * * * *
14922808 CATCTCACATATTCCCTCCAAGT
1 CGTGTCACATATTCTCACCATGG
* * *
14922831 TGTGTCACATATTCTCACCCTGT
1 CGTGTCACATATTCTCACCATGG
*
14922854 CGTGTCACATATTCTCTCCATGG
1 CGTGTCACATATTCTCACCATGG
*
14922877 CATGTCACA
1 CGTGTCACA
14922886 AACTCTAAAT
Statistics
Matches: 131, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.02
21 13 0.10
22 2 0.02
23 92 0.70
24 2 0.02
25 20 0.15
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.31
Consensus pattern (23 bp):
CGTGTCACATATTCTCACCATGG
Found at i:14922883 original size:46 final size:46
Alignment explanation
Indices: 14922693--14922885 Score: 169
Period size: 46 Copynumber: 4.2 Consensus size: 46
14922683 ATGTCACAAC
* * *
14922693 CGTGTCACATATGCTCGCCATGTTGTCTCACATATTCTCACCATGG
1 CGTGTCACATATGCTCACCATGTCGTCTCACATATTCTCTCCATGG
* * * *
14922739 CGTGTCACACATATGCACACCATGGCGTGC-CAC--ATTCTC-ACACTAG
1 CGTGT--CACATATGCTCACCATGTCGT-CTCACATATTCTCTCCA-TGG
* * * * *
14922785 CGTGTCACATATTCTCACCATGTCATCTCACATATTCCCTCCAAGT
1 CGTGTCACATATGCTCACCATGTCGTCTCACATATTCTCTCCATGG
* * * *
14922831 TGTGTCACATATTCTCACCCTGTCGTGTCACATATTCTCTCCATGG
1 CGTGTCACATATGCTCACCATGTCGTCTCACATATTCTCTCCATGG
*
14922877 CATGTCACA
1 CGTGTCACA
14922886 AACTCTAAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 20 0.17
45 2 0.02
46 69 0.60
47 2 0.02
48 20 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.31
Consensus pattern (46 bp):
CGTGTCACATATGCTCACCATGTCGTCTCACATATTCTCTCCATGG
Found at i:14922941 original size:23 final size:23
Alignment explanation
Indices: 14922911--14922966 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
14922901 AGTGTCACAA
*
14922911 CCGTGTCACACATTCCCACCATG
1 CCGTGTCACACATTCCCAACATG
14922934 CCGTGTCACACATTCCCAACATG
1 CCGTGTCACACATTCCCAACATG
* *
14922957 TCGTTTCACA
1 CCGTGTCACA
14922967 AACTCTAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.39, G:0.12, T:0.25
Consensus pattern (23 bp):
CCGTGTCACACATTCCCAACATG
Found at i:14935176 original size:21 final size:21
Alignment explanation
Indices: 14935146--14935234 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
14935136 GGATATGTTC
**
14935146 ATGCAATTCATGACAAAGACAA
1 ATGC-ATTCATGACAAAGACTG
*
14935168 ATGCATTCATGACAAAAACTG
1 ATGCATTCATGACAAAGACTG
*
14935189 ATGCATTCATAACAAAGACTG
1 ATGCATTCATGACAAAGACTG
* * *
14935210 ATGCATTTATGATAAGGACTG
1 ATGCATTCATGACAAAGACTG
14935231 ATGC
1 ATGC
14935235 CTCCATTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
21 54 0.93
22 4 0.07
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (21 bp):
ATGCATTCATGACAAAGACTG
Found at i:14936656 original size:13 final size:12
Alignment explanation
Indices: 14936638--14936735 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 12
14936628 AAGTTCATGT
14936638 AAAAAAAATTCA
1 AAAAAAAATTCA
14936650 AAAAAAAATTCAAGA
1 AAAAAAAATTC---A
14936665 AAAAAATATATTTCA
1 AAAAAA-A-A-TTCA
**
14936680 AAAAAATTTTCA
1 AAAAAAAATTCA
14936692 AAAAAAATTTCATGTCA
1 AAAAAAA----AT-TCA
*
14936709 AAAAAATATTTCA
1 AAAAAA-AATTCA
14936722 AAAAAAAATTCA
1 AAAAAAAATTCA
14936734 AA
1 AA
14936736 TTTTTTTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 24
0.69 0.06 0.24
Matches are distributed among these distances:
12 28 0.41
13 9 0.13
14 1 0.01
15 14 0.21
16 2 0.03
17 10 0.15
18 4 0.06
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:14936682 original size:30 final size:30
Alignment explanation
Indices: 14936646--14936730 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
14936636 GTAAAAAAAA
*
14936646 TTCAAAAAAAAATTCAAGAAAAAAATAT-AT
1 TTCAAAAAAAATTTCAA-AAAAAAATATCAT
* *
14936676 TTCAAAAAAATTTTC-AAAAAAAATTTCAT
1 TTCAAAAAAAATTTCAAAAAAAAATATCAT
*
14936705 GTCAAAAAAATATTTCAAAAAAAAAT
1 TTCAAAAAAA-ATTTCAAAAAAAAAT
14936731 TCAAATTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.19
29 12 0.26
30 17 0.36
31 9 0.19
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (30 bp):
TTCAAAAAAAATTTCAAAAAAAAATATCAT
Found at i:14936696 original size:42 final size:41
Alignment explanation
Indices: 14936638--14936735 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 41
14936628 AAGTTCATGT
14936638 AAAAAAAATTCAAAAAAAAATTCAAG-AAAAAAATATATTTC
1 AAAAAAAATTCAAAAAAAAATTCAAGTAAAAAAA-ATATTTC
* * * *
14936679 AAAAAAATTTTCAAAAAAAATTTCATGTCAAAAAAATATTTC
1 AAAAAAA-ATTCAAAAAAAAATTCAAGTAAAAAAAATATTTC
14936721 AAAAAAAAATTCAAA
1 -AAAAAAAATTCAAA
14936736 TTTTTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
41 7 0.14
42 29 0.59
43 13 0.27
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (41 bp):
AAAAAAAATTCAAAAAAAAATTCAAGTAAAAAAAATATTTC
Found at i:14938579 original size:22 final size:23
Alignment explanation
Indices: 14938547--14938593 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14938537 ATATAGAGTT
14938547 ATTTGAGCTTAATTTTGATAATA
1 ATTTGAGCTTAATTTTGATAATA
* * *
14938570 ATTTG-GCTTAGTTTTTATAGTA
1 ATTTGAGCTTAATTTTGATAATA
14938592 AT
1 AT
14938594 ACACAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (23 bp):
ATTTGAGCTTAATTTTGATAATA
Found at i:14946374 original size:199 final size:198
Alignment explanation
Indices: 14946009--14946383 Score: 535
Period size: 199 Copynumber: 1.9 Consensus size: 198
14945999 TACCTCTAAC
* * *
14946009 ATTAATTAATTTAAACTTTTAAAACCTAAATAATATTACTTATTTAATTAAATTTTATTTAATCA
1 ATTAATCAATTTAAACTTTTAAAAACTAAATAATATTAATTATTTAATTAAATTTTATTTAATCA
14946074 ATTAAACTATTTAAGTTATTAATACATTAACTAATTTAATTTTTTAAAATTAAATATTATTACTT
66 ATTAAACTATTTAAGTTATTAATACATTAACTAATTTAATTTTTTAAAATTAAATATTATTACTT
*
14946139 ATTTAATTAATTGTTAACTAATACATTATTTTATTTT-GTTAATTACACTATTTAATTAAGTTTT
131 ATTTAATTAATTGTTAACTAATA-ATGA-TTTATTTTAGTTAATTACACTATTTAATTAAGTTTT
14946203 AGTAA
194 AGTAA
* *
14946208 ATTAATCAATTTAAACTTTTAAAAACTAAATAATATTAATTCTTTAATTAATTTTTATTTAATCA
1 ATTAATCAATTTAAACTTTTAAAAACTAAATAATATTAATTATTTAATTAAATTTTATTTAATCA
* * * *
14946273 ATTAAACTATTTAAGTAAGTTGTTAATGCATTAACTAATTTAATTATTTTTTAAATTCAATATTA
66 ATTAAACTA-TT---TAAGTTATTAATACATTAACTAATTTAA-T-TTTTTAAAATTAAATATTA
* *
14946338 TTACTTATTTAA-TAATTGTTTACTAAT-A-GA-TTATTTTAGTTTATTA
125 TTACTTATTTAATTAATTGTTAACTAATAATGATTTATTTTAGTTAATTA
14946384 TTTATATTAT
Statistics
Matches: 157, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
199 76 0.48
200 9 0.06
201 1 0.01
202 1 0.01
203 26 0.17
204 15 0.10
205 29 0.18
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (198 bp):
ATTAATCAATTTAAACTTTTAAAAACTAAATAATATTAATTATTTAATTAAATTTTATTTAATCA
ATTAAACTATTTAAGTTATTAATACATTAACTAATTTAATTTTTTAAAATTAAATATTATTACTT
ATTTAATTAATTGTTAACTAATAATGATTTATTTTAGTTAATTACACTATTTAATTAAGTTTTAG
TAA
Found at i:14948622 original size:31 final size:31
Alignment explanation
Indices: 14948584--14948655 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
14948574 TCAATTTCGA
14948584 TCGATTTTGGTTTTGGGAGAAACCAAAACCG
1 TCGATTTTGGTTTTGGGAGAAACCAAAACCG
14948615 TCGATTTTGGTTTTGGGAGAAACCAAAACCG
1 TCGATTTTGGTTTTGGGAGAAACCAAAACCG
14948646 TCGATTTTGG
1 TCGATTTTGG
14948656 CGGTCCCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (31 bp):
TCGATTTTGGTTTTGGGAGAAACCAAAACCG
Found at i:14948931 original size:25 final size:26
Alignment explanation
Indices: 14948883--14948932 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
14948873 TCCAACCCAT
* *
14948883 ATAATTTATTTTTAAATAAGAATTAC
1 ATAATTTAATTTTAAATAAAAATTAC
*
14948909 ATAA-TTAATTTTAAGTAAAAATTA
1 ATAATTTAATTTTAAATAAAAATTA
14948933 TTTTGTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (26 bp):
ATAATTTAATTTTAAATAAAAATTAC
Found at i:14951193 original size:19 final size:19
Alignment explanation
Indices: 14951166--14951203 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14951156 CCATTTGACT
*
14951166 TATTAGAGTATGATTTGAG
1 TATTAGAGTATAATTTGAG
*
14951185 TATTGGAGTATAATTTGAG
1 TATTAGAGTATAATTTGAG
14951204 GGTTTGACAG
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:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATAATTTGAG
Found at i:14951410 original size:28 final size:29
Alignment explanation
Indices: 14951369--14951433 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
14951359 GTCTATGGGC
* *
14951369 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
14951397 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
*
14951427 AAATTTT
1 AATTTTT
14951434 AAAAATTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:14957179 original size:28 final size:28
Alignment explanation
Indices: 14957145--14957199 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
14957135 GATTAAAATT
14957145 TTATTTATATTTGATGTAATATATTTGC
1 TTATTTATATTTGATGTAATATATTTGC
* * *
14957173 TTATTTATGTTTGGTGTAATTTATTTG
1 TTATTTATATTTGATGTAATATATTTG
14957200 TTTGTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.60
Consensus pattern (28 bp):
TTATTTATATTTGATGTAATATATTTGC
Found at i:14963789 original size:15 final size:16
Alignment explanation
Indices: 14963759--14963801 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
14963749 AAATTATAAA
*
14963759 TAAAAAATTAATTTTT
1 TAAAATATTAATTTTT
14963775 TAAAATATTAA-TTTT
1 TAAAATATTAATTTTT
14963790 TAAAATTATTAA
1 TAAAA-TATTAA
14963802 GTAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAATATTAATTTTT
Found at i:14963960 original size:17 final size:17
Alignment explanation
Indices: 14963927--14963960 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14963917 TTAAAAGTAT
*
14963927 TAATATTTTAATCATAA
1 TAATATTTAAATCATAA
*
14963944 TAATATTTAAATTATAA
1 TAATATTTAAATCATAA
14963961 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTAAATCATAA
Found at i:14975275 original size:45 final size:45
Alignment explanation
Indices: 14975214--14975304 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14975204 AAATTTAAAA
* * *
14975214 AATACTAAATAATATTCTTTATTACATTTATTATA-TTCAAATAAT
1 AATACTAAAAAATATTCCTTATAACATTTATTATAGTT-AAATAAT
* *
14975259 AATATTAAAAAATATTCCTTATAATATTTATTATAGTTAAATAAT
1 AATACTAAAAAATATTCCTTATAACATTTATTATAGTTAAATAAT
14975304 A
1 A
14975305 TTAATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (45 bp):
AATACTAAAAAATATTCCTTATAACATTTATTATAGTTAAATAAT
Found at i:14975318 original size:18 final size:19
Alignment explanation
Indices: 14975279--14975324 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
14975269 AATATTCCTT
*
14975279 ATAATATTTATTATAGTTAA
1 ATAATA-TTAATATAGTTAA
14975299 ATAATATTAATATA-TTAA
1 ATAATATTAATATAGTTAA
14975317 ATAATATT
1 ATAATATT
14975325 TAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.48
19 7 0.28
20 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAATATTAATATAGTTAA
Found at i:14975331 original size:18 final size:18
Alignment explanation
Indices: 14975279--14975332 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
14975269 AATATTCCTT
*
14975279 ATAATATTTATTATAGTTAA
1 ATAATATTTA-AATA-TTAA
14975299 ATAATA-TTAATATATTAA
1 ATAATATTTAA-ATATTAA
14975317 ATAATATTTAAATATT
1 ATAATATTTAAATATT
14975333 TTCATTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATAATATTTAAATATTAA
Found at i:14976075 original size:29 final size:29
Alignment explanation
Indices: 14975961--14976107 Score: 108
Period size: 29 Copynumber: 5.2 Consensus size: 29
14975951 ACACAGCAAA
*
14975961 TTGAATGGCGTGATG-AAACACGACA--AG
1 TTGAATGGCGTGA-GAAAACACGGCATGAG
** *
14975988 TT-AATGATGTGATG-AAACATGGCATGAG
1 TTGAATGGCGTGA-GAAAACACGGCATGAG
* * * * *
14976016 TCGAATGTCGTGACAAAACACTGTATGAG
1 TTGAATGGCGTGAGAAAACACGGCATGAG
*
14976045 TTGAATGGCATGAGAAAACACGGCATGAG
1 TTGAATGGCGTGAGAAAACACGGCATGAG
* * *
14976074 TTAAATGGCGTG-GCGAAACACAGCATGAG
1 TTGAATGGCGTGAG-AAAACACGGCATGAG
14976103 TTGAA
1 TTGAA
14976108 CATCGTGGCG
Statistics
Matches: 93, Mismatches: 22, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
26 18 0.19
27 2 0.02
28 4 0.04
29 69 0.74
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.22
Consensus pattern (29 bp):
TTGAATGGCGTGAGAAAACACGGCATGAG
Found at i:14976114 original size:29 final size:29
Alignment explanation
Indices: 14976060--14976207 Score: 94
Period size: 29 Copynumber: 5.2 Consensus size: 29
14976050 TGGCATGAGA
*
14976060 AAACACGGCATGAGTT-AA-ATGGCGTGGCG
1 AAACACAGCATGAGTTGAACAT--CGTGGCG
14976089 AAACACAGCATGAGTTGAACATCGTGGCG
1 AAACACAGCATGAGTTGAACATCGTGGCG
* * * * ***
14976118 AAACA-TGATATGAGTTGAACATTGCGATAA
1 AAACACAG-CATGAGTTGAACATCGTG-GCG
*
14976148 AAACACAGCA--AGTTGAACATCATGGCG
1 AAACACAGCATGAGTTGAACATCGTGGCG
* ** *
14976175 AAACAC-G-ATAAGTTGAACGCCATGGCG
1 AAACACAGCATGAGTTGAACATCGTGGCG
14976202 AAACAC
1 AAACAC
14976208 CCACGACAAG
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 27 0.29
28 12 0.13
29 42 0.45
30 8 0.09
31 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.18
Consensus pattern (29 bp):
AAACACAGCATGAGTTGAACATCGTGGCG
Found at i:14976187 original size:27 final size:27
Alignment explanation
Indices: 14976084--14976207 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 27
14976074 TTAAATGGCG
* *
14976084 TGGCGAAACACAGCATGAGTTGAACATCG
1 TGGCGAAACAC-G-ATAAGTTGAACATCA
*
14976113 TGGCGAAACATGATATGAGTTGAACAT--
1 TGGCGAAACACGATA--AGTTGAACATCA
*
14976140 T-GCGATAAAAACAC-AGCAAGTTGAACATCA
1 TGGCG----AAACACGA-TAAGTTGAACATCA
**
14976170 TGGCGAAACACGATAAGTTGAACGCCA
1 TGGCGAAACACGATAAGTTGAACATCA
14976197 TGGCGAAACAC
1 TGGCGAAACAC
14976208 CCACGACAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 24
0.71 0.06 0.22
Matches are distributed among these distances:
26 3 0.04
27 31 0.40
28 12 0.16
29 21 0.27
30 7 0.09
31 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (27 bp):
TGGCGAAACACGATAAGTTGAACATCA
Found at i:14981348 original size:2 final size:2
Alignment explanation
Indices: 14981343--14981394 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
14981333 TGTGTGTGTG
* * * *
14981343 TA TA TA TA TA TA TA TA TA TA TA TA TG TG TG TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14981385 TA TA TA TA TA
1 TA TA TA TA TA
14981395 CACGTGTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14981371 original size:30 final size:30
Alignment explanation
Indices: 14981337--14981403 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
14981327 AAAGCTTGTG
*
14981337 TGTGTGTATATATATATATATATATATATA
1 TGTGTGTATATATATATATATATATATACA
*
14981367 TGTGTGTATATTTATATATATATATATACA
1 TGTGTGTATATATATATATATATATATACA
*
14981397 CGTGTGT
1 TGTGTGT
14981404 GTGATTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.49
Consensus pattern (30 bp):
TGTGTGTATATATATATATATATATATACA
Found at i:14986106 original size:20 final size:21
Alignment explanation
Indices: 14986076--14986114 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14986066 AAAAACACGA
14986076 TTTTCCCTTTGAATTTTCTAG
1 TTTTCCCTTTGAATTTTCTAG
*
14986097 TTTT-CCTTTGATTTTTCT
1 TTTTCCCTTTGAATTTTCT
14986115 CTTTTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.18, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTTCCCTTTGAATTTTCTAG
Found at i:14990299 original size:19 final size:20
Alignment explanation
Indices: 14990275--14990314 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14990265 CCATTTGACT
14990275 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
14990294 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
14990314 T
1 T
14990315 TTAGAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:14995724 original size:15 final size:15
Alignment explanation
Indices: 14995704--14995736 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14995694 AAAGTATATA
14995704 TTTATAA-TTAATAAT
1 TTTATAAGTT-ATAAT
14995719 TTTATAAGTTATAAT
1 TTTATAAGTTATAAT
14995734 TTT
1 TTT
14995737 TGTAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTATAAGTTATAAT
Found at i:15001802 original size:29 final size:29
Alignment explanation
Indices: 15001717--15001796 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
15001707 GATTATACAT
* * *
15001717 CAATTAATAAACTAAACGCTCGGATGTAC
1 CAATTAATGAACTAAATGCTCGGATGCAC
15001746 CAATTAATGAACTAAATGCTCGGATGCAC
1 CAATTAATGAACTAAATGCTCGGATGCAC
15001775 CAATTAATGAACTAAATGCTCG
1 CAATTAATGAACTAAATGCTCG
15001797 AGTGCAGAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (29 bp):
CAATTAATGAACTAAATGCTCGGATGCAC
Found at i:15013063 original size:15 final size:16
Alignment explanation
Indices: 15013037--15013066 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15013027 TTTTTAATTT
15013037 TTAAAAATTAAAATCA
1 TTAAAAATTAAAATCA
15013053 TTAAAAA-TAAAATC
1 TTAAAAATTAAAATC
15013067 TACATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAATCA
Found at i:15013224 original size:3 final size:3
Alignment explanation
Indices: 15013216--15013240 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15013206 GAAAGAAATA
15013216 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
15013241 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15014228 original size:16 final size:17
Alignment explanation
Indices: 15014208--15014245 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
15014198 AAATTCGAAA
15014208 CAATCTAAATTTAAAAT
1 CAATCTAAATTTAAAAT
*
15014225 -AATCTAAGTTTAAAAT
1 CAATCTAAATTTAAAAT
15014241 CAATC
1 CAATC
15014246 CGATTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (17 bp):
CAATCTAAATTTAAAAT
Found at i:15014407 original size:100 final size:101
Alignment explanation
Indices: 15014209--15014399 Score: 285
Period size: 100 Copynumber: 1.9 Consensus size: 101
15014199 AATTCGAAAC
**
15014209 AATCTAAATTTAAAATAATCTAAGTTTAAAATCAATCCGATTCAAAATCATAAAAACTTGAACTT
1 AATCTAAATTTAAAATAATCTAAACTTAAAATCAATCCGATTCAAAATCATAAAAACTTGAACTT
*
15014274 AACAGTAAAAATGTAAAATTTAATTACCTACAAAAT
66 AACACTAAAAATGTAAAATTTAATTACCTACAAAAT
* * * ** * *
15014310 AATCTGAATTTGAAATTATCTAAACTTAAAATC-ATTTGATTCAAAATCATAAAAACTTTACCTT
1 AATCTAAATTTAAAATAATCTAAACTTAAAATCAATCCGATTCAAAATCATAAAAACTTGAACTT
15014374 AACACTAAAAATGTAAAATTTAATTA
66 AACACTAAAAATGTAAAATTTAATTA
15014400 TTTACAAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 52 0.65
101 28 0.35
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.33
Consensus pattern (101 bp):
AATCTAAATTTAAAATAATCTAAACTTAAAATCAATCCGATTCAAAATCATAAAAACTTGAACTT
AACACTAAAAATGTAAAATTTAATTACCTACAAAAT
Found at i:15016856 original size:30 final size:30
Alignment explanation
Indices: 15016770--15016856 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 30
15016760 ATTGTAAAAT
* *
15016770 TGAACAAGGTTTCCTTAATTTCATTTTCCA
1 TGAACAAGGTTTCCTTGATTTCATTCTCCA
* * * * *
15016800 TCGAATAGGGTTTCCTTGAATCCATTCTCTA
1 T-GAACAAGGTTTCCTTGATTTCATTCTCCA
* *
15016831 TGAACATGGTTTTCTTGATTTCATTC
1 TGAACAAGGTTTCCTTGATTTCATTC
15016857 CTTTTGAATA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 21 0.48
31 23 0.52
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.44
Consensus pattern (30 bp):
TGAACAAGGTTTCCTTGATTTCATTCTCCA
Found at i:15017249 original size:36 final size:36
Alignment explanation
Indices: 15017209--15017299 Score: 85
Period size: 37 Copynumber: 2.5 Consensus size: 36
15017199 TCTTTAGCAT
*
15017209 CGTACATGATTTGTT-TTCCATCGATTGCTTTAATGC
1 CGTACATGATTTGTTCTTCC-TCGATTGATTTAATGC
* * * **
15017245 CGTACGTGAATTTATTCTTCCTCGGTTGATTTGGTGC
1 CGTACATG-ATTTGTTCTTCCTCGATTGATTTAATGC
* *
15017282 CGTACATGCTTTGCTCTT
1 CGTACATGATTTGTTCTT
15017300 TGTCGGTTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
36 14 0.33
37 25 0.58
38 4 0.09
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (36 bp):
CGTACATGATTTGTTCTTCCTCGATTGATTTAATGC
Found at i:15018673 original size:42 final size:42
Alignment explanation
Indices: 15018613--15018694 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
15018603 CATCTCATAT
* *
15018613 GCAACGGCTTATGCGCACTCCTACTCGCACATAGCCGGGTTA
1 GCAACAGCTTATGCGCACTCATACTCGCACATAGCCGGGTTA
*
15018655 GCAACAGCTTATGTGCACTCATACTCGCACATAGCCGGGT
1 GCAACAGCTTATGCGCACTCATACTCGCACATAGCCGGGT
15018695 CCACATCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (42 bp):
GCAACAGCTTATGCGCACTCATACTCGCACATAGCCGGGTTA
Found at i:15020894 original size:9 final size:9
Alignment explanation
Indices: 15020852--15020895 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
15020842 CCAAACATAC
15020852 AAAAATG-T
1 AAAAATGAT
*
15020860 AAAAATCTAT
1 AAAAAT-GAT
*
15020870 AAAAATAAT
1 AAAAATGAT
15020879 AAAAATGAT
1 AAAAATGAT
15020888 AAAAATGA
1 AAAAATGA
15020896 GTACAACCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 6 0.19
9 18 0.58
10 7 0.23
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (9 bp):
AAAAATGAT
Found at i:15021231 original size:43 final size:44
Alignment explanation
Indices: 15021152--15021236 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 44
15021142 AATCATAAAC
* *
15021152 CACAATTAACCCCAGTGGTATGGGTCATAATCATATC-GAAAAT
1 CACAATGAACCCCAGTGGCATGGGTCATAATCATATCAGAAAAT
*
15021195 CACAATGAACCCTAGTGGCATGGGTCATAAGT-ATATCAGAAA
1 CACAATGAACCCCAGTGGCATGGGTCATAA-TCATATCAGAAA
15021237 CAACTATTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 32 0.86
44 5 0.14
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (44 bp):
CACAATGAACCCCAGTGGCATGGGTCATAATCATATCAGAAAAT
Found at i:15024250 original size:31 final size:31
Alignment explanation
Indices: 15024205--15024268 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
15024195 TCATTGTAAA
*
15024205 ATTGAACAACGTTTCCCT-AATTCCATTTTCC
1 ATTGAACAACGTTTCCCTGAA-TCCATTCTCC
** *
15024236 ATTGAACAGGGTTTCCTTGAATCCATTCTCC
1 ATTGAACAACGTTTCCCTGAATCCATTCTCC
15024267 AT
1 AT
15024269 GGTTTTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.38
Consensus pattern (31 bp):
ATTGAACAACGTTTCCCTGAATCCATTCTCC
Found at i:15025108 original size:24 final size:25
Alignment explanation
Indices: 15025059--15025109 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
15025049 GTTATTAGAC
***
15025059 AAAATATTCTTAATTGCTTTTAAAA
1 AAAATATTCTTAATCAATTTTAAAA
15025084 AAAATATTCTTAATCAATTTTAAAA
1 AAAATATTCTTAATCAATTTTAAAA
15025109 A
1 A
15025110 TTACTGTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (25 bp):
AAAATATTCTTAATCAATTTTAAAA
Found at i:15026594 original size:23 final size:23
Alignment explanation
Indices: 15026567--15026620 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
15026557 ACTTTCTTCC
15026567 AGCAGCTTCTTCTCCCATTTTCT
1 AGCAGCTTCTTCTCCCATTTTCT
15026590 AGCAGCTTCTTCTCCCATTTTCT
1 AGCAGCTTCTTCTCCCATTTTCT
15026613 AGCAGCTT
1 AGCAGCTT
15026621 GTCTTCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.15, C:0.33, G:0.11, T:0.41
Consensus pattern (23 bp):
AGCAGCTTCTTCTCCCATTTTCT
Found at i:15027493 original size:43 final size:43
Alignment explanation
Indices: 15027413--15027536 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
15027403 ATTGACTCAG
**
15027413 CTATGTGCGAGTAGGGAGTGCGCATAAGCC-GAG-GATGACCCGG
1 CTATGTGCGAGTAGGGAGTGCGCATAA-CCTG-GTGATGACCCAA
* * *
15027456 TTATGTGCGAATAGGGAGTGCACATAACCTGGTGATGACCCAA
1 CTATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAA
* *
15027499 CCATGTACGAGTAGGGAGTGCGCATGAA-CTGGTGATGA
1 CTATGTGCGAGTAGGGAGTGCGCAT-AACCTGGTGATGA
15027537 TGATGATGTG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.04
43 63 0.93
44 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.35, T:0.20
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCAA
Found at i:15027563 original size:23 final size:23
Alignment explanation
Indices: 15027533--15027592 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
15027523 TGAACTGGTG
* * * *
15027533 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGCGC
15027556 ATGATGATGATGGGATGATGCGC
1 ATGATGATGATGGGATGATGCGC
*
15027579 ATGATAATGATGGG
1 ATGATGATGATGGG
15027593 TATACGTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.38, T:0.32
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGCGC
Found at i:15028033 original size:60 final size:60
Alignment explanation
Indices: 15027913--15028044 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
15027903 CTGTAGCTTC
* **
15027913 TTGCTGCAGCGAAAAGGAATCTCGCTGCAGCGAGAAACTCTCTGTTTCATCAGTTGAATT
1 TTGCTGCAGCGAAAAGGAATCTCCCTGCAGCGAGAAACTCTCTGTTTCATCAGTACAATT
* * **
15027973 TTGCTGCAGC-AAGAATGAATCTCCCTGTAGCGAGAAACGT-TCTGTTTC-TGGGTCACAATT
1 TTGCTGCAGCGAA-AAGGAATCTCCCTGCAGCGAGAAAC-TCTCTGTTTCATCAGT-ACAATT
*
15028033 TCGCTGCAGCGA
1 TTGCTGCAGCGA
15028045 GATTCAATCT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 5 0.08
60 53 0.88
61 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (60 bp):
TTGCTGCAGCGAAAAGGAATCTCCCTGCAGCGAGAAACTCTCTGTTTCATCAGTACAATT
Found at i:15031650 original size:49 final size:48
Alignment explanation
Indices: 15031572--15031681 Score: 157
Period size: 49 Copynumber: 2.3 Consensus size: 48
15031562 CATTCATCGT
* * * *
15031572 CATAGTCGGGTCATAATCACATCGGCTTATGCGCACTCTCTACTCGCA
1 CATAGCCGGGTCATAATCACATCGACTTATGCGCACTCCCTACTCACA
* *
15031620 CATAGCCGAGTCATCATCATCATCGACTTATGCGCACTCCCTACTCACA
1 CATAGCCGGGTCATAATCA-CATCGACTTATGCGCACTCCCTACTCACA
15031669 CATAGCCGGGTCA
1 CATAGCCGGGTCA
15031682 ATATTATCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 16 0.30
49 38 0.70
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.25
Consensus pattern (48 bp):
CATAGCCGGGTCATAATCACATCGACTTATGCGCACTCCCTACTCACA
Found at i:15036555 original size:80 final size:80
Alignment explanation
Indices: 15036467--15036696 Score: 304
Period size: 80 Copynumber: 2.9 Consensus size: 80
15036457 ACAACATTTC
*
15036467 CATAAATCA-TCATCATACTTAGCCCATAGTGTATATGACTATCTCAACACTTACATCTCATGAC
1 CATAAATCACTCA-CATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGAC
*
15036531 ATACTTTTCATAACCT
65 ATACATTTCATAACCT
* * * * *
15036547 CATAAATCACTCGCATACTTAGCCCATAGTTTATATGACTCTCTCAGCACATACATCTCATGGCA
1 CATAAATCACTCACATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGACA
*
15036612 TACATTTCATAGCCT
66 TACATTTCATAACCT
* * * *
15036627 CATAAATCAGTCACATGCTTAGCCCATAGTGTACATGA-TATGCTTAACACATACATCTCATGGA
1 CATAAATCACTCACATACTTAGCCCATAGTGTATATGACTAT-CTCAACACATACATCTCAT-GA
15036691 -ATACAT
64 CATACAT
15036697 GTTACAATCT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 125 0.96
81 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (80 bp):
CATAAATCACTCACATACTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGACA
TACATTTCATAACCT
Found at i:15037768 original size:21 final size:21
Alignment explanation
Indices: 15037744--15037816 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
15037734 AATTGTACCA
15037744 ATACATTATGAACATGTATTG
1 ATACATTATGAACATGTATTG
* ** *
15037765 ATACATGA-CCATATGTATTG
1 ATACATTATGAACATGTATTG
* * *
15037785 ATACATCATAAACATATATTG
1 ATACATTATGAACATGTATTG
15037806 ATACATT-TGAA
1 ATACATTATGAA
15037817 ACAGAATGCA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 19 0.47
21 21 0.52
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (21 bp):
ATACATTATGAACATGTATTG
Found at i:15041014 original size:33 final size:33
Alignment explanation
Indices: 15040972--15041068 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
15040962 TATGCAAAAT
*
15040972 GTTGGTGGTGATGATGTGAATGCCACTACTAGA
1 GTTGGTGGTGATGATGTGAATGCCATTACTAGA
*
15041005 GTTGGTGGTGATGATGTGAATGCCATTACTGGA
1 GTTGGTGGTGATGATGTGAATGCCATTACTAGA
* * **
15041038 GTTAGTGATGATGATGAAAATGCCATTACTA
1 GTTGGTGGTGATGATGTGAATGCCATTACTA
15041069 AGGTTGATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.32
Consensus pattern (33 bp):
GTTGGTGGTGATGATGTGAATGCCATTACTAGA
Found at i:15041363 original size:39 final size:39
Alignment explanation
Indices: 15041274--15041368 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
15041264 TTCTTTAGGA
* * * *
15041274 TGTTATGAATGCTACTCGCAATGCTTCTTCTTTTAGAGG
1 TGTTATGAATTCTACTCGCAATACTTCTTCTCTTAAAGG
*** * *
15041313 TGTTCCAAATTCTACTTGTAATACTTCTTCTCTTAAAGG
1 TGTTATGAATTCTACTCGCAATACTTCTTCTCTTAAAGG
*
15041352 TGTTTTGAATTCTACTC
1 TGTTATGAATTCTACTC
15041369 ATAATTCTTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (39 bp):
TGTTATGAATTCTACTCGCAATACTTCTTCTCTTAAAGG
Found at i:15069646 original size:21 final size:21
Alignment explanation
Indices: 15069629--15069671 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
15069619 AATTTAAAGC
15069629 AAAATAACATAAAATTAAACT
1 AAAATAACATAAAATTAAACT
* *
15069650 AAAATAAC-TTAAACTAAACT
1 AAAATAACATAAAATTAAACT
15069670 AA
1 AA
15069672 TCAACATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAACATAAAATTAAACT
Found at i:15071190 original size:13 final size:13
Alignment explanation
Indices: 15071172--15071196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15071162 ATTTTCAAAA
15071172 ATTTTATAAAATT
1 ATTTTATAAAATT
15071185 ATTTTATAAAAT
1 ATTTTATAAAAT
15071197 CCCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:15072408 original size:28 final size:29
Alignment explanation
Indices: 15072350--15072415 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
15072340 GCAAATTTTT
**
15072350 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAAGTG
* * *
15072379 AAAAATTACATTTTTA-CCTCAAAAATTG
1 AAAAATTACACTTTTACCCCCAAAAAGTG
15072407 AAAAATTAC
1 AAAAATTAC
15072416 CCATAGACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAAGTG
Found at i:15079686 original size:2 final size:2
Alignment explanation
Indices: 15079679--15079735 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
15079669 GTTCTACTTC
15079679 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15079721 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
15079736 CACACACCTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15085685 original size:21 final size:20
Alignment explanation
Indices: 15085661--15085713 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
15085651 CTTAAAATGA
*
15085661 TTATTTTGAAAAATAATTATT
1 TTATTTT-AAAAATAATAATT
15085682 TTA-TTTAATCAAAT-ATAATT
1 TTATTTTAA--AAATAATAATT
15085702 TTATTTTAAAAA
1 TTATTTTAAAAA
15085714 ATAAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 5 0.18
20 11 0.39
21 12 0.43
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATTTTAAAAATAATAATT
Found at i:15085715 original size:20 final size:20
Alignment explanation
Indices: 15085661--15085716 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
15085651 CTTAAAATGA
* *
15085661 TTATTTTGAAAAATAATTATT
1 TTATTTTAAAAAAT-ATAATT
*
15085682 TTA-TTTAATCAAATATAATT
1 TTATTTTAA-AAAATATAATT
15085702 TTATTTTAAAAAATA
1 TTATTTTAAAAAATA
15085717 AAAATAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TTATTTTAAAAAATATAATT
Found at i:15092917 original size:3 final size:3
Alignment explanation
Indices: 15092909--15092941 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
15092899 TTCCCATCCC
*
15092909 CTT CTT CTT CTT CAT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
15092942 GTGAAGACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:15102465 original size:24 final size:24
Alignment explanation
Indices: 15102436--15102484 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
15102426 AATGACTCAT
*
15102436 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAACAGTCATGGCAGCA
*
15102460 CTGGAAGAAGCAGTCATGGCAGCA
1 CTGGAAGAAACAGTCATGGCAGCA
15102484 C
1 C
15102485 AATTACGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.14
Consensus pattern (24 bp):
CTGGAAGAAACAGTCATGGCAGCA
Found at i:15105527 original size:18 final size:18
Alignment explanation
Indices: 15105504--15105553 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 18
15105494 CAAACCTATT
15105504 TATATATTATATTATATA
1 TATATATTATATTATATA
15105522 TATATATTA-A-TATATA
1 TATATATTATATTATATA
15105538 TATAT-TT-T-TTATATA
1 TATATATTATATTATATA
15105553 T
1 T
15105554 TAAGAAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.30
16 11 0.37
17 1 0.03
18 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATATTATATTATATA
Found at i:15105553 original size:2 final size:2
Alignment explanation
Indices: 15105504--15105542 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
15105494 CAAACCTATT
15105504 TA TA TA T- TA TA T- TA TA TA TA TA TA T- TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15105542 T
1 T
15105543 TTTTTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:15105838 original size:18 final size:18
Alignment explanation
Indices: 15105815--15105853 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15105805 AGTAATGTTT
*
15105815 TATATAAAATGTTATGAA
1 TATATAAAATGTTATAAA
* *
15105833 TATATACAATTTTATAAA
1 TATATAAAATGTTATAAA
15105851 TAT
1 TAT
15105854 TATATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (18 bp):
TATATAAAATGTTATAAA
Found at i:15105898 original size:1 final size:1
Alignment explanation
Indices: 15105892--15105970 Score: 149
Period size: 1 Copynumber: 79.0 Consensus size: 1
15105882 CTATAATTAG
*
15105892 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15105957 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
15105971 GTTATTATTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.00, C:0.01, G:0.00, T:0.99
Consensus pattern (1 bp):
T
Found at i:15106045 original size:2 final size:2
Alignment explanation
Indices: 15106033--15106103 Score: 74
Period size: 2 Copynumber: 35.5 Consensus size: 2
15106023 CATTAATTTC
*
15106033 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
15106074 AA AGT A- AT AC AT AT AA AT AT AT ACT AT AT A
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A
15106104 AAATTAACAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
1 2 0.04
2 52 0.91
3 3 0.05
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15117459 original size:17 final size:17
Alignment explanation
Indices: 15117437--15117469 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15117427 TAAAACTATG
15117437 CACACACTAAGGGGGAC
1 CACACACTAAGGGGGAC
*
15117454 CACACACTTAGGGGGA
1 CACACACTAAGGGGGA
15117470 GGAAAACCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.30, T:0.09
Consensus pattern (17 bp):
CACACACTAAGGGGGAC
Found at i:15122487 original size:23 final size:23
Alignment explanation
Indices: 15122457--15122507 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
15122447 CAAATAGATC
15122457 ATTT-TTTGACTCTTGATTTGAA
1 ATTTGTTTGACTCTTGATTTGAA
15122479 ATTTGTTTGACTCTTGATTTGAA
1 ATTTGTTTGACTCTTGATTTGAA
15122502 ATTTGT
1 ATTTGT
15122508 GTTTAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.55
Consensus pattern (23 bp):
ATTTGTTTGACTCTTGATTTGAA
Found at i:15124416 original size:51 final size:50
Alignment explanation
Indices: 15124333--15124447 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 50
15124323 AAAATACAAT
* * *
15124333 TTGATTTGGTCTTTGATTATGCCAAAATTATAAAATAAACTTTTATAGGA
1 TTGATTTGGTCTTTGATTATGCCAAAACTATAAAATAAACTATTACAGGA
* **
15124383 CTTGATTTGGTCTTTGATT-TAGCTAACGCTATAAAATAAACTATTACAGGA
1 -TTGATTTGGTCTTTGATTAT-GCCAAAACTATAAAATAAACTATTACAGGA
15124434 TATGATTTGGTCTT
1 T-TGATTTGGTCTT
15124448 ATATTATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.04
51 54 0.96
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (50 bp):
TTGATTTGGTCTTTGATTATGCCAAAACTATAAAATAAACTATTACAGGA
Found at i:15130694 original size:15 final size:15
Alignment explanation
Indices: 15130674--15130710 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
15130664 AACTAATCGA
15130674 GTTAGTTCAGTTTCG
1 GTTAGTTCAGTTTCG
15130689 GTTAGTTCAGTTTCG
1 GTTAGTTCAGTTTCG
15130704 GTTAGTT
1 GTTAGTT
15130711 TTATACAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.27, T:0.49
Consensus pattern (15 bp):
GTTAGTTCAGTTTCG
Found at i:15133314 original size:32 final size:31
Alignment explanation
Indices: 15133278--15133388 Score: 125
Period size: 32 Copynumber: 3.4 Consensus size: 31
15133268 TTTACCGAGA
15133278 TCAACCAAAACCCAAAGTGGTTTTTCAAATGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAA-GC
*
15133310 TCAACCACAACCTTTCACAA-TGGTTTTTCACAAGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCA-AAGC
*
15133345 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAA-GC
*
15133377 TCAACCATAACC
1 TCAACCAAAACC
15133389 TACAACAATG
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
31 4 0.06
32 35 0.51
35 25 0.37
36 4 0.06
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (31 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGC
Found at i:15133336 original size:35 final size:32
Alignment explanation
Indices: 15133257--15133404 Score: 124
Period size: 32 Copynumber: 4.4 Consensus size: 32
15133247 CCAAAACTTT
** *
15133257 TCACAATGGTTTTTACCGAGATCAACCAAAACC
1 TCACAATGGTTTTT-CAAAGCTCAACCAAAACC
*
15133290 -CA-AAGTGGTTTTTCAAATGCTCAACCACAACC
1 TCACAA-TGGTTTTTCAAA-GCTCAACCAAAACC
15133322 TTTCACAATGGTTTTTCACAAGCTCAACCAAAACC
1 --TCACAATGGTTTTTCA-AAGCTCAACCAAAACC
* *
15133357 -CA-AAGTGATTTTTCAAAGGCTCAACCATAACC
1 TCACAA-TGGTTTTTCAAA-GCTCAACCAAAACC
15133389 TACAACAATGGTTTTT
1 T-C-ACAATGGTTTTT
15133405 TACGGGATCA
Statistics
Matches: 94, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
31 8 0.09
32 46 0.49
34 1 0.01
35 33 0.35
36 6 0.06
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (32 bp):
TCACAATGGTTTTTCAAAGCTCAACCAAAACC
Found at i:15133349 original size:67 final size:67
Alignment explanation
Indices: 15133255--15133426 Score: 215
Period size: 67 Copynumber: 2.6 Consensus size: 67
15133245 AGCCAAAACT
* * *
15133255 TTTCACAATGGTTTTTACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAATGCTCAACCACAA
1 TTTCACAATGGTTTTTACCAAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAA
15133320 CC
66 CC
* *
15133322 TTTCACAATGGTTTTT-CACAAGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCATA
1 TTTCACAATGGTTTTTAC-CAAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACA
15133386 ACC
65 ACC
* ** *
15133389 -TACAACAATGGTTTTTTA-CGGGATCAACCAAAATCCAA
1 TTTC-ACAATGG-TTTTTACCAAGATCAACCAAAACCCAA
15133427 CAACTAACTT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
66 3 0.03
67 83 0.91
68 5 0.05
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.27
Consensus pattern (67 bp):
TTTCACAATGGTTTTTACCAAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACCACAA
CC
Found at i:15136866 original size:135 final size:134
Alignment explanation
Indices: 15136624--15136888 Score: 521
Period size: 135 Copynumber: 2.0 Consensus size: 134
15136614 ATTTCCCTTT
15136624 AAATGAATGTTTTACACGTCTAAACTTATTTTTGGTTATGAAATATGTATATTTCACTCATATAC
1 AAATGAATGTTTTACACGTCTAAACTTATTTTTGGTTATGAAATATGTATATTTCACTCATATAC
15136689 TACATTTTTAGATGGTTTTGAAATTTTCAGGGAAAAATGACCAAAATACTCCTGTGAGACGAAAA
66 TACATTTTTAGATGGTTTTGAAATTTTCAGGGAAAAATGACCAAAATACTCCTGTGAGACGAAAA
15136754 ATTA
131 ATTA
15136758 NAAATGAATGTTTTACACGTCTAAACTTATTTTTGGTTATGAAATATGTATATTTCACTCATATA
1 -AAATGAATGTTTTACACGTCTAAACTTATTTTTGGTTATGAAATATGTATATTTCACTCATATA
15136823 CTACATTTTTAGATGGTTTTGAAATTTTCAGGGAAAAATGACCAAAATACTCCTGTGAGACGAAA
65 CTACATTTTTAGATGGTTTTGAAATTTTCAGGGAAAAATGACCAAAATACTCCTGTGAGACGAAA
15136888 A
130 A
15136889 TTATTTTTTT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (134 bp):
AAATGAATGTTTTACACGTCTAAACTTATTTTTGGTTATGAAATATGTATATTTCACTCATATAC
TACATTTTTAGATGGTTTTGAAATTTTCAGGGAAAAATGACCAAAATACTCCTGTGAGACGAAAA
ATTA
Found at i:15138033 original size:14 final size:14
Alignment explanation
Indices: 15138011--15138043 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15138001 AAATTAGTAG
15138011 ATTTT-AATTAATT
1 ATTTTAAATTAATT
*
15138024 ATTTTAAATTAGTT
1 ATTTTAAATTAATT
15138038 ATTTTA
1 ATTTTA
15138044 GGTGAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
ATTTTAAATTAATT
Found at i:15139160 original size:2 final size:2
Alignment explanation
Indices: 15139153--15139181 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15139143 AACTGAGTTA
15139153 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15139182 CAATAATCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15139766 original size:28 final size:29
Alignment explanation
Indices: 15139725--15139784 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15139715 GTCTATGGGC
*
15139725 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15139753 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15139783 AA
1 AA
15139785 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15145406 original size:18 final size:18
Alignment explanation
Indices: 15145380--15145416 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15145370 TAAACTCTAG
15145380 GAGAAGAAGAAAGAAAAA
1 GAGAAGAAGAAAGAAAAA
* *
15145398 GAGAGGAAGGAAGAAAAA
1 GAGAAGAAGAAAGAAAAA
15145416 G
1 G
15145417 CTTGGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
GAGAAGAAGAAAGAAAAA
Found at i:15146654 original size:61 final size:60
Alignment explanation
Indices: 15146506--15146794 Score: 332
Period size: 61 Copynumber: 4.7 Consensus size: 60
15146496 TTGATGTAAC
* * * *
15146506 CGTGCATGTGCGGAGTGGGCAGTGCACATGCTGGT--TGAGTGACAATGTTGTGACAATTACAA
1 CGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGA-TG-C--TGTCGTGATATTTACAA
* **
15146568 CCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGAAAATGATGCTGTCGTGATATTTACAA
1 -CGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTTACAA
* * *
15146629 TCATGCATGTGTGGAGTAGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTTACAA
1 -CGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTTACAA
* *** *
15146690 C-TGCACATGTGCGAAGTGGGCAGTGCACATATTGGTAATGATGCTGTTGTGATATTTACAA
1 CGTG--CATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTTACAA
*
15146751 CTGTGCATGTGCAGAGTGGGCAGTGCACATGCCGGTAATGATGC
1 C-GTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGC
15146795 ACATGAGCCG
Statistics
Matches: 194, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.01
60 1 0.01
61 152 0.78
63 34 0.18
64 2 0.01
65 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (60 bp):
CGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTTACAA
Found at i:15151468 original size:22 final size:21
Alignment explanation
Indices: 15151439--15151479 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15151429 GGACAAGTGT
*
15151439 ATGGTGAAAATTTGAAAACAA
1 ATGGTGAAAATTTAAAAACAA
*
15151460 ATGGATGAAATTTTAAAAAC
1 ATGG-TGAAAATTTAAAAAC
15151480 GGACCAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (21 bp):
ATGGTGAAAATTTAAAAACAA
Found at i:15155439 original size:18 final size:18
Alignment explanation
Indices: 15155413--15155449 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15155403 TGAACTCTAG
15155413 GAGAAGAAGAAAGAAAAA
1 GAGAAGAAGAAAGAAAAA
* *
15155431 GAGAGGAAGGAAGAAAAA
1 GAGAAGAAGAAAGAAAAA
15155449 G
1 G
15155450 CTTGGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
GAGAAGAAGAAAGAAAAA
Found at i:15156676 original size:61 final size:61
Alignment explanation
Indices: 15156536--15156827 Score: 413
Period size: 61 Copynumber: 4.8 Consensus size: 61
15156526 TAATTGATGT
* * *** * * *
15156536 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTTGAATGACAATGTTGGGACAATTAC
1 AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCC-GAT-AATGATGCTGTTGTGATATTTAC
* * *
15156599 AGCCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGATAATGATGCTGTAGTGATATTTAT
1 AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGATAATGATGCTGTTGTGATATTTAC
* * *
15156660 AACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTTAC
1 AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGATAATGATGCTGTTGTGATATTTAC
*
15156721 AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGACAATGATGCTGTTGTGATATTTAC
1 AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGATAATGATGCTGTTGTGATATTTAC
* *
15156782 AACCGTGCATGTGCAGAGTGGGTAGTGCACATGCCGGTAATGATGC
1 AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGATAATGATGC
15156828 ACATGAACCG
Statistics
Matches: 206, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
61 171 0.83
62 2 0.01
63 33 0.16
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (61 bp):
AACCGTGCATGTGCGGAGTGGGTAGTGCACATGCCGATAATGATGCTGTTGTGATATTTAC
Found at i:15161565 original size:2 final size:2
Alignment explanation
Indices: 15161560--15161592 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15161550 AACCCCCCCT
15161560 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15161593 GANGGCAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15166643 original size:25 final size:26
Alignment explanation
Indices: 15166610--15166660 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
15166600 CTTTATCCAG
*
15166610 ACAATTAAAATAAAA-AAAAATTAAA
1 ACAAATAAAATAAAACAAAAATTAAA
* *
15166635 ACAAATAAACTAAAACTAAAATTAAA
1 ACAAATAAAATAAAACAAAAATTAAA
15166661 TAGTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.20
Consensus pattern (26 bp):
ACAAATAAAATAAAACAAAAATTAAA
Found at i:15171302 original size:12 final size:12
Alignment explanation
Indices: 15171270--15171303 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15171260 TGTTAAACCA
15171270 CAATTTCTTTTT
1 CAATTTCTTTTT
* *
15171282 CAGTATCTTTTT
1 CAATTTCTTTTT
15171294 CAATTTCTTT
1 CAATTTCTTT
15171304 CTTATCAGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.62
Consensus pattern (12 bp):
CAATTTCTTTTT
Found at i:15175361 original size:36 final size:36
Alignment explanation
Indices: 15175318--15175393 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
15175308 CTTAACTTTT
*
15175318 ACAACATGCCTTTTAACAAGATCAAGTGTAACCTTC
1 ACAACATGCCTTTTAACAAGATCAAGTGGAACCTTC
* * *
15175354 ACAACATGCCTTTTCACAAGATTAGGTGGAACCTTC
1 ACAACATGCCTTTTAACAAGATCAAGTGGAACCTTC
15175390 ACAA
1 ACAA
15175394 AAACACTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (36 bp):
ACAACATGCCTTTTAACAAGATCAAGTGGAACCTTC
Found at i:15176219 original size:54 final size:55
Alignment explanation
Indices: 15176093--15176221 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 55
15176083 TTCCATTAGA
* * * * *
15176093 AAAGCGTTTCCAACGGAATTCCATGGAACATTTCCAACGGAAGTTTTCTATTGGT
1 AAAGCATTTCCAACAGAATTCCATCGAAAATTTCCAACGGAAATTTTCTATTGGT
* ** * *
15176148 AAAGCATTTCCAGCAGAATTCTGTCGAAAATTTTCAAC-GAAATTTT-TATTTTGT
1 AAAGCATTTCCAACAGAATTCCATCGAAAATTTCCAACGGAAATTTTCTA-TTGGT
15176202 AAAGCATTTCCAACAGAATT
1 AAAGCATTTCCAACAGAATT
15176222 TCGTTAGAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.03
54 30 0.48
55 30 0.48
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (55 bp):
AAAGCATTTCCAACAGAATTCCATCGAAAATTTCCAACGGAAATTTTCTATTGGT
Found at i:15184848 original size:19 final size:18
Alignment explanation
Indices: 15184808--15184853 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15184798 TTATATTTTA
*
15184808 TTAATAAATAAATAAAAT
1 TTAATATATAAATAAAAT
15184826 TTAAATATATAAAT-AAAT
1 TT-AATATATAAATAAAAT
15184844 CTTAATATAT
1 -TTAATATAT
15184854 TTATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAATATATAAATAAAAT
Found at i:15191995 original size:8 final size:8
Alignment explanation
Indices: 15191982--15192054 Score: 83
Period size: 8 Copynumber: 8.2 Consensus size: 8
15191972 AATATAGATT
15191982 AAAATAAA
1 AAAATAAA
15191990 AAAATAAA
1 AAAATAAA
15191998 AAAATAAAA
1 AAAAT-AAA
15192007 AAAATAAAAA
1 AAAAT--AAA
15192017 AAAATAAA
1 AAAATAAA
15192025 AGATAATAAA
1 A-A-AATAAA
15192035 AAAATGAAAA
1 AAAAT--AAA
15192045 AAAATAAA
1 AAAATAAA
15192053 AA
1 AA
15192055 CGAGTAAGGT
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
8 25 0.42
9 10 0.17
10 24 0.41
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:15192008 original size:10 final size:10
Alignment explanation
Indices: 15191981--15192054 Score: 75
Period size: 10 Copynumber: 7.6 Consensus size: 10
15191971 AAATATAGAT
15191981 TAAAATAAAAA
1 TAAAA-AAAAA
15191992 -AATAAAAAAA
1 TAA-AAAAAAA
15192002 T-AAAAAAAA
1 TAAAAAAAAA
15192011 TAAAAAAAAA
1 TAAAAAAAAA
* *
15192021 TAAAAGATAA
1 TAAAAAAAAA
15192031 T--AAAAAAA
1 TAAAAAAAAA
*
15192039 TGAAAAAAAA
1 TAAAAAAAAA
15192049 TAAAAA
1 TAAAAA
15192055 CGAGTAAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
8 6 0.11
9 8 0.15
10 37 0.70
11 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:15192019 original size:28 final size:27
Alignment explanation
Indices: 15191987--15192054 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 27
15191977 AGATTAAAAT
15191987 AAAAAAATAAAAA-AATAAAAAAAATAA
1 AAAAAAATAAAAATAAT-AAAAAAATAA
*
15192014 AAAAAAATAAAAGATAATAAAAAAATGA
1 AAAAAAATAAAA-ATAATAAAAAAATAA
15192042 AAAAAAATAAAAA
1 AAAAAAATAAAAA
15192055 CGAGTAAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
27 13 0.34
28 22 0.58
29 3 0.08
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (27 bp):
AAAAAAATAAAAATAATAAAAAAATAA
Found at i:15202622 original size:15 final size:16
Alignment explanation
Indices: 15202602--15202633 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15202592 TAGAGCTATC
15202602 TTTTCATCATCA-TCT
1 TTTTCATCATCACTCT
15202617 TTTTCATCATCACTCT
1 TTTTCATCATCACTCT
15202633 T
1 T
15202634 AATATTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCATCATCACTCT
Found at i:15203894 original size:34 final size:34
Alignment explanation
Indices: 15203847--15203927 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
15203837 GGAGAAGGAG
* * * * *
15203847 CTGATTTTCAAGGCTGAAGGTGTGGTTTTGACTA
1 CTGATTTTGAAGGCTAAAGCTGCGATTTTGACTA
*
15203881 CTGATTTTGAAGGCTAAAGCTGCGATTTTGGCTA
1 CTGATTTTGAAGGCTAAAGCTGCGATTTTGACTA
15203915 CTGATCTTTGAAG
1 CTGAT-TTTGAAG
15203928 CTTTGGCTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 33 0.82
35 7 0.17
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (34 bp):
CTGATTTTGAAGGCTAAAGCTGCGATTTTGACTA
Found at i:15203996 original size:35 final size:34
Alignment explanation
Indices: 15203942--15204048 Score: 133
Period size: 35 Copynumber: 3.1 Consensus size: 34
15203932 GGCTGTCGAG
* *
15203942 TTTTGAGGGAGGAAAAGAGCAGCTTAGCTACTGAT
1 TTTTGAGGGA-GAATAGAGCAGCTTAGCTACTAAT
*
15203977 TTTTGGAGGGAGAATAGAGCAGCTTAGCTGCTAAT
1 TTTT-GAGGGAGAATAGAGCAGCTTAGCTACTAAT
* * * *
15204012 TTTTGAGGAAAAATAGAGCAACTTGGCTACTAAT
1 TTTTGAGGGAGAATAGAGCAGCTTAGCTACTAAT
15204046 TTT
1 TTT
15204049 GATGTTGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
34 28 0.44
35 29 0.46
36 6 0.10
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (34 bp):
TTTTGAGGGAGAATAGAGCAGCTTAGCTACTAAT
Found at i:15204045 original size:34 final size:35
Alignment explanation
Indices: 15203957--15204048 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 35
15203947 AGGGAGGAAA
* * *
15203957 AGAGCAGCTTAGCTACTGATTTTTGGAGGGAGAAT
1 AGAGCAGCTTAGCTACTAATTTTTGGAGGAAAAAT
*
15203992 AGAGCAGCTTAGCTGCTAATTTTT-GAGGAAAAAT
1 AGAGCAGCTTAGCTACTAATTTTTGGAGGAAAAAT
* *
15204026 AGAGCAACTTGGCTACTAATTTT
1 AGAGCAGCTTAGCTACTAATTTT
15204049 GATGTTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 28 0.56
35 22 0.44
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (35 bp):
AGAGCAGCTTAGCTACTAATTTTTGGAGGAAAAAT
Found at i:15227347 original size:34 final size:34
Alignment explanation
Indices: 15227302--15227375 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
15227292 AGGAGATGGA
15227302 GCTGATTTTGAAGGCTGAAGGTGCGATTTTGACT
1 GCTGATTTTGAAGGCTGAAGGTGCGATTTTGACT
* * *
15227336 GTTGATTTTGAAGGCTGAAGGTGCGGTTTTGGCT
1 GCTGATTTTGAAGGCTGAAGGTGCGATTTTGACT
15227370 GCTGAT
1 GCTGAT
15227376 CTTTAAAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.18, C:0.11, G:0.35, T:0.36
Consensus pattern (34 bp):
GCTGATTTTGAAGGCTGAAGGTGCGATTTTGACT
Found at i:15227490 original size:34 final size:34
Alignment explanation
Indices: 15227414--15227538 Score: 151
Period size: 34 Copynumber: 3.6 Consensus size: 34
15227404 GGGAGGAAAG
* * *
15227414 GAGCAACTTAGTTGCTGATTTTTGGAGGGAGAATA
1 GAGCAGCTTAGTTGCTGATTTTT-GAGGAAAAATA
* * *
15227449 GAACAGCTTAGCTGTTGATTTTTGAGGAAAAATA
1 GAGCAGCTTAGTTGCTGATTTTTGAGGAAAAATA
* *
15227483 GAGCAGCTTGGTTGCTAATTTTTGAGGAAAAATA
1 GAGCAGCTTAGTTGCTGATTTTTGAGGAAAAATA
* *
15227517 TAGCAGCTTGGTTGCTGATTTT
1 GAGCAGCTTAGTTGCTGATTTT
15227539 GATGTTGACA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
34 58 0.75
35 19 0.25
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (34 bp):
GAGCAGCTTAGTTGCTGATTTTTGAGGAAAAATA
Found at i:15228599 original size:28 final size:29
Alignment explanation
Indices: 15228556--15228625 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
15228546 GGAGTGTAAA
*
15228556 AGAGAAACCAAAGAACAAAGAAGAAA-CG-G
1 AGAGAAA-GAAAGAACAAAG-AGAAACCGAG
15228585 AGAGAAAGAAAGAACAAAGAGAAAGCCGAG
1 AGAGAAAGAAAGAACAAAGAGAAA-CCGAG
15228615 AGAGAAAGAAA
1 AGAGAAAGAAA
15228626 AATAAAAGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 11 0.30
29 9 0.24
30 12 0.32
ACGTcount: A:0.63, C:0.10, G:0.27, T:0.00
Consensus pattern (29 bp):
AGAGAAAGAAAGAACAAAGAGAAACCGAG
Found at i:15228728 original size:34 final size:34
Alignment explanation
Indices: 15228687--15228783 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 34
15228677 GAAGGAAAAG
*
15228687 AGAGCCATTTAAGGGCTAGTTTTGGAGGCTGAAA
1 AGAGCCATTTAACGGCTAGTTTTGGAGGCTGAAA
** * * *
15228721 AGAGCCATTTTTCTGCTGGTTTTGGAGGCTGGAA
1 AGAGCCATTTAACGGCTAGTTTTGGAGGCTGAAA
* ** * *
15228755 AGTGCCATTTTTCTGCTGGTTTTGGAGGC
1 AGAGCCATTTAACGGCTAGTTTTGGAGGC
15228784 CAAAAAGTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (34 bp):
AGAGCCATTTAACGGCTAGTTTTGGAGGCTGAAA
Found at i:15228791 original size:34 final size:34
Alignment explanation
Indices: 15228705--15228793 Score: 142
Period size: 34 Copynumber: 2.6 Consensus size: 34
15228695 TTAAGGGCTA
*
15228705 GTTTTGGAGGCTGAAAAGAGCCATTTTTCTGCTG
1 GTTTTGGAGGCTGAAAAGTGCCATTTTTCTGCTG
*
15228739 GTTTTGGAGGCTGGAAAGTGCCATTTTTCTGCTG
1 GTTTTGGAGGCTGAAAAGTGCCATTTTTCTGCTG
**
15228773 GTTTTGGAGGCCAAAAAGTGC
1 GTTTTGGAGGCTGAAAAGTGC
15228794 AGAATTTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (34 bp):
GTTTTGGAGGCTGAAAAGTGCCATTTTTCTGCTG
Found at i:15228930 original size:35 final size:34
Alignment explanation
Indices: 15228885--15228970 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
15228875 AGGGAAAGGT
* *
15228885 GCAGCTTAGCTGCTGAATATTT-GAGGAAAAACAGA
1 GCAGCATAGCTGCTGAAT-TTTGGAGCAAAAA-AGA
* * *
15228920 GCAGCATAGCTGTTG-ATTTTGGAGCCAAAATGA
1 GCAGCATAGCTGCTGAATTTTGGAGCAAAAAAGA
15228953 GCAGCTATAGCTGCTGAA
1 GCAGC-ATAGCTGCTGAA
15228971 AAAAATTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
33 10 0.24
34 18 0.43
35 14 0.33
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (34 bp):
GCAGCATAGCTGCTGAATTTTGGAGCAAAAAAGA
Found at i:15229138 original size:22 final size:22
Alignment explanation
Indices: 15229096--15229139 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
15229086 CTAGACTATG
*
15229096 GAAAAGAAAGAAAGAAAGAAAA
1 GAAAAGAAAGAAACAAAGAAAA
*
15229118 GAAAAGAAA-ATAACAAGGAAAA
1 GAAAAGAAAGA-AACAAAGAAAA
15229140 TAGGCATGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.02
Consensus pattern (22 bp):
GAAAAGAAAGAAACAAAGAAAA
Found at i:15229217 original size:25 final size:25
Alignment explanation
Indices: 15229162--15229219 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
15229152 AACAAGCAAG
*
15229162 AAAAATGGACATGGTCCAATAAAGG
1 AAAAATGGACATGGTCCAATAAAGA
*
15229187 AAAAATGGACATGGTCCAAT-TAGA
1 AAAAATGGACATGGTCCAATAAAGA
15229211 AAGAAATGG
1 AA-AAATGG
15229220 GAGAAATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.17
Consensus pattern (25 bp):
AAAAATGGACATGGTCCAATAAAGA
Found at i:15231303 original size:5 final size:5
Alignment explanation
Indices: 15231286--15231324 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
15231276 GAGAGAGGAG
*
15231286 AAAGA GAAAGA AAGGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA -AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
15231325 AATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:15234103 original size:13 final size:13
Alignment explanation
Indices: 15234085--15234109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15234075 TTTCAGAAAA
15234085 TTTATAAAATCAT
1 TTTATAAAATCAT
15234098 TTTATAAAATCA
1 TTTATAAAATCA
15234110 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15239633 original size:5 final size:5
Alignment explanation
Indices: 15239626--15239665 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
15239616 CTATTCAATC
* *
15239626 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
15239666 GGACTTGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:15239727 original size:15 final size:15
Alignment explanation
Indices: 15239707--15239752 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
15239697 TTCTTAAAAC
15239707 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
15239722 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
15239737 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
15239752 A
1 A
15239753 TATCTGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:15241161 original size:13 final size:13
Alignment explanation
Indices: 15241143--15241167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15241133 TTTCAGAAAA
15241143 TTTATAAAATCAT
1 TTTATAAAATCAT
15241156 TTTATAAAATCA
1 TTTATAAAATCA
15241168 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15244648 original size:36 final size:36
Alignment explanation
Indices: 15244581--15244683 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 36
15244571 TCAGCTCTCA
* *
15244581 TTTTCAACAAGATCATA-CATAACCTTTACAACATGCT
1 TTTT-AACAAGATCA-AGCATAACCTTCACAACATGCC
15244618 TTTTAAC-AGAATCAAGCATAACCTTCACAACATGCC
1 TTTTAACAAG-ATCAAGCATAACCTTCACAACATGCC
* * *
15244654 TTTTCACAAGATCAAGCGTAATCTTCACAA
1 TTTTAACAAGATCAAGCATAACCTTCACAA
15244684 AAACACTACC
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
35 3 0.05
36 49 0.84
37 6 0.10
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (36 bp):
TTTTAACAAGATCAAGCATAACCTTCACAACATGCC
Found at i:15245316 original size:63 final size:63
Alignment explanation
Indices: 15245188--15245306 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
15245178 TTGTCAATTT
* * ** *
15245188 TTCATAAAGTCTGGAACTTCTTATTTTTGGAGAATCGATTCTTTTTTCCTTAGATGCCCGTTC
1 TTCATAAAGTCTGGAACTTCTTATATCTAAAGAATCGATTCTTCTTTCCTTAGATGCCCGTTC
15245251 TTCATAAAGTCTGGAACTT-TCTATATCTAAAGAATCGATTCTTCTTT-CTTAAGATG
1 TTCATAAAGTCTGGAACTTCT-TATATCTAAAGAATCGATTCTTCTTTCCTT-AGATG
15245307 TTGGTTCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
62 4 0.08
63 45 0.92
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (63 bp):
TTCATAAAGTCTGGAACTTCTTATATCTAAAGAATCGATTCTTCTTTCCTTAGATGCCCGTTC
Found at i:15245733 original size:22 final size:21
Alignment explanation
Indices: 15245708--15245750 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15245698 ATAGCTTCTG
15245708 TTTTCCAAGAACCGACTTCTTC
1 TTTTCCAAGAACCGA-TTCTTC
**
15245730 TTTTCTTAGAACCGATTCTTC
1 TTTTCCAAGAACCGATTCTTC
15245751 CATGTTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (21 bp):
TTTTCCAAGAACCGATTCTTC
Found at i:15245819 original size:52 final size:52
Alignment explanation
Indices: 15245722--15245825 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
15245712 CCAAGAACCG
* * *
15245722 ACTTCTTCTTTTCTTAGAACCGATTCTTCCATGTTTCTATCTGCTAAGAACT
1 ACTTCTTCTTTTCTCAGAACCAATTCTTCCATATTTCTATCTGCTAAGAACT
* * * *
15245774 ACTTCTTCTTTTCTCAGAACTAATTCTT-CACTATTTGTGTTTGCTAAGAACT
1 ACTTCTTCTTTTCTCAGAACCAATTCTTCCA-TATTTCTATCTGCTAAGAACT
15245826 TGCAAGACCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.05
52 42 0.95
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (52 bp):
ACTTCTTCTTTTCTCAGAACCAATTCTTCCATATTTCTATCTGCTAAGAACT
Done.