Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 346 of 378
Found at i:104396409 original size:44 final size:44
Alignment explanation
Indices: 104396355--104396498 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
104396345 ACCTATTACC
*
104396355 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
* * * * * *
104396399 CTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTC-ATCTTCGATCTGCT-CCA
* * *
104396441 CTACTGCTTAGGGGTTTAAGGTTCTTCTTCTTCGATCTACACCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
104396485 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
104396499 GATAAGATCT
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
41 1 0.01
42 22 0.29
43 18 0.24
44 34 0.45
45 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
Found at i:104396409 original size:86 final size:86
Alignment explanation
Indices: 104396264--104396546 Score: 284
Period size: 86 Copynumber: 3.3 Consensus size: 86
104396254 TTTCAGCCTG
* * * * * *
104396264 TTACCCTACTGCTTAAGGGATTAATGCTT-GTCATCTTTGATCTGTTTCC-CTACTGCTTAGGG-
1 TTACCCTACTGCTTAGGGGTTTAA-GGTTCTTCATCTTCGATCTG-CTCCACTACTGCTTAGGGA
** * *
104396326 TTTTAGATCTGTATACTCAACCTA
64 GATAAGATCTGCA-ACTCAACCTA
*
104396350 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
104396415 TAAGATCTGCAATTTAACCTG
66 TAAGATCTGCAACTCAACCTA
* * * *
104396436 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCTTCTTCGATCTACACCACTACTGCTTAGGGGGA
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
* * **** *
104396501 TAAGATCTACAATTTGGTCTG
66 TAAGATCTGCAACTCAACCTA
*
104396522 TTTCCCTACTGCTTAGGGGTTTAAG
1 TTACCCTACTGCTTAGGGGTTTAAG
104396547 ATCCTATGAA
Statistics
Matches: 171, Mismatches: 23, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
85 6 0.04
86 156 0.91
87 9 0.05
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGCAACTCAACCTA
Found at i:104396844 original size:179 final size:179
Alignment explanation
Indices: 104396626--104397084 Score: 839
Period size: 179 Copynumber: 2.6 Consensus size: 179
104396616 CTGCATTCGA
* * *
104396626 GGAGGCAAGATCTGTAATTTTCAACTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
1 GGAGACAAAATCTGTAATTTTCAGCTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
*
104396691 CGATCTGTTTCCCTACTGCTTAGGGGATTAAGATTTATAAATCTTCAATCTACTTCACTGCAACT
66 CGATCTGTTTCCCTACTGCTTAGGGGATTAAGATCTATAAATCTTCAATCTACTTCACTGCAACT
104396756 TCAGGAAGACAAAATTCGCTGGATTCGATTTGTTCCACTGCAACTTCAG
131 TCAGGAAGACAAAATTCGCTGGATTCGATTTGTTCCACTGCAACTTCAG
104396805 GGAGACAAAATCTGTAATTTTCAGCTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
1 GGAGACAAAATCTGTAATTTTCAGCTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
*
104396870 CGATCTGTTTCCCTACTGCTTAGGGGATTAAGATCTATAAATCTTCAATCTGCTTCACTGCAACT
66 CGATCTGTTTCCCTACTGCTTAGGGGATTAAGATCTATAAATCTTCAATCTACTTCACTGCAACT
*
104396935 TCAGGAAGACAAGATTCGCTGGATTCGATTTGTTCCACTGCAACTTCAG
131 TCAGGAAGACAAAATTCGCTGGATTCGATTTGTTCCACTGCAACTTCAG
104396984 GGAGACAAAATCTGTAATTTTCAGCTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
1 GGAGACAAAATCTGTAATTTTCAGCTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
*
104397049 TGATCTGTTTCCCTACTGCTTAGGAGG-TTAAGATCT
66 CGATCTGTTTCCCTACTGCTTAGG-GGATTAAGATCT
104397085 TCATCTTCGA
Statistics
Matches: 272, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
179 270 0.99
180 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (179 bp):
GGAGACAAAATCTGTAATTTTCAGCTTATTACCCTACTACTTAGGGGGTTAAAGCTCATTATCTT
CGATCTGTTTCCCTACTGCTTAGGGGATTAAGATCTATAAATCTTCAATCTACTTCACTGCAACT
TCAGGAAGACAAAATTCGCTGGATTCGATTTGTTCCACTGCAACTTCAG
Found at i:104397078 original size:44 final size:43
Alignment explanation
Indices: 104397015--104397211 Score: 186
Period size: 43 Copynumber: 4.6 Consensus size: 43
104397005 CAGCTTATTA
* * * *
104397015 CCCTACTACTTAGGGGGTTAAAGCTCATT-ATCTTTGATCTGTTT
1 CCCTACTGCTTAGGAGGTT-AAGATC-TTCATCTTCGATCTGTTT
104397059 CCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTT
* * * * * *
104397102 CCCTACTGCCTAGG-GAGATAAGATCTGCA-ATTCGGTCTGTTA
1 CCCTACTGCTTAGGAG-GTTAAGATCTTCATCTTCGATCTGTTT
* * * *
104397144 CCCTACCGATTAGG-GGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGAGG-TTAAGA-TCTTCATCTTCGATCTGTTT
*
104397188 CCCTACTGCTTAGGGGGTTAAGAT
1 CCCTACTGCTTAGGAGGTTAAGAT
104397212 TTGTAAATCT
Statistics
Matches: 124, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.24
43 46 0.37
44 45 0.36
45 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (43 bp):
CCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTT
Found at i:104397196 original size:86 final size:85
Alignment explanation
Indices: 104397052--104397211 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 85
104397042 TTATCTTTGA
* * * *
104397052 TCTGTTTCCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGGG
1 TCTGTTACCCTACCGATTAGGAGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCCTAGGG
104397117 AGATAAGATCTGCAATTCGG
66 AGATAAGATCTGCAATTCGG
* *
104397137 TCTGTTACCCTACCGATTAGG-GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAG
1 TCTGTTACCCTACCGATTAGGAGG-TTAAGA-CCTTCATCTTCGATCTGTTTCCCTACTGCCTAG
* *
104397201 GGGGTTAAGAT
64 GGAGATAAGAT
104397212 TTGTAAATCT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 2 0.03
85 24 0.37
86 39 0.60
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (85 bp):
TCTGTTACCCTACCGATTAGGAGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCCTAGGG
AGATAAGATCTGCAATTCGG
Found at i:104398090 original size:1 final size:1
Alignment explanation
Indices: 104398084--104398111 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
104398074 CCTCTCTCCC
104398084 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
104398112 AGGCGAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:104406800 original size:35 final size:35
Alignment explanation
Indices: 104406756--104406921 Score: 208
Period size: 35 Copynumber: 4.6 Consensus size: 35
104406746 TCCTCATTGA
** *
104406756 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
104406791 AATGCCATACCTACATTTCTTAACTCAGTATGGATTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G---GAT
*
104406830 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
104406865 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
104406900 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
104406922 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
35 87 0.74
38 3 0.03
39 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:104406838 original size:74 final size:73
Alignment explanation
Indices: 104406751--104406921 Score: 233
Period size: 74 Copynumber: 2.4 Consensus size: 73
104406741 GGTTTTCCTC
** * * **
104406751 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
104406815 TCAGTATGG
65 TCAGTATGG
*
104406824 ATTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAAC
1 ATTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAAC
104406889 TCAGTATGG
65 TCAGTATGG
104406898 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
104406922 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 21 0.24
73 10 0.11
74 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:104410325 original size:80 final size:80
Alignment explanation
Indices: 104410211--104410369 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
104410201 ACACACGCCC
104410211 GTGTGCTCGACCGTGTGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGCA
1 GTGTGCTCGACCGTGTGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGCA
104410276 TACCTAAGCCACAAT
66 TACCTAAGCCACAAT
**
104410291 GTGT-CTCGACCGTGTGGAGGGTAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGC
1 GTGTGCTCGACCGTGTGG-GGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGC
104410355 ATACCTAAGCCACAA
65 ATACCTAAGCCACAA
104410370 CATTTAATAC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 13 0.17
80 63 0.83
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (80 bp):
GTGTGCTCGACCGTGTGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGCA
TACCTAAGCCACAAT
Found at i:104411341 original size:43 final size:42
Alignment explanation
Indices: 104411294--104411400 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
104411284 TATCCCAGAT
* *
104411294 ATGGTTTTACATGCTATCACACATTGATGCCAATGTCCCAAAC
1 ATGGTTTTACATG-TATCACACAATGATACCAATGTCCCAAAC
* * * * *
104411337 ATGGTTTTACACGAAATCATATAATGATACCAATGTCCCAGAC
1 ATGGTTTTACATG-TATCACACAATGATACCAATGTCCCAAAC
*
104411380 ATGGTCTTACATGTAATCACA
1 ATGGTTTTACATGT-ATCACA
104411401 TCTCTGTAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGGTTTTACATGTATCACACAATGATACCAATGTCCCAAAC
Found at i:104413883 original size:11 final size:10
Alignment explanation
Indices: 104413867--104413937 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 10
104413857 GTCTTTCTCC
104413867 TTTTCTTTCCT
1 TTTTCTTT-CT
104413878 TTTTCTTTCT
1 TTTTCTTTCT
*
104413888 TTTTCCCTTCT
1 TTTT-CTTTCT
* *
104413899 GTTTCGTTTGT
1 TTTTC-TTTCT
104413910 TCTTTCTTTCT
1 T-TTTCTTTCT
*
104413921 TTTCTATTTCT
1 TTT-TCTTTCT
*
104413932 ATTTCT
1 TTTTCT
104413938 ATTTCTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 11 0.23
11 32 0.68
12 4 0.09
ACGTcount: A:0.03, C:0.23, G:0.04, T:0.70
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:104413892 original size:29 final size:29
Alignment explanation
Indices: 104413860--104413918 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
104413850 AGCTTTGGTC
*
104413860 TTTCTCCTTTTCTTTCCTTT-TTCTTTCTT
1 TTTC-CCTTCTCTTTCCTTTGTTCTTTCTT
* *
104413889 TTTCCCTTCTGTTTCGTTTGTTCTTTCTT
1 TTTCCCTTCTCTTTCCTTTGTTCTTTCTT
104413918 T
1 T
104413919 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.69
Consensus pattern (29 bp):
TTTCCCTTCTCTTTCCTTTGTTCTTTCTT
Found at i:104413938 original size:12 final size:11
Alignment explanation
Indices: 104413916--104413946 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
104413906 TTGTTCTTTC
104413916 TTTCTTTTCTA
1 TTTCTTTTCTA
104413927 TTTCTATTTCTA
1 TTTCT-TTTCTA
104413939 TTTCTTTT
1 TTTCTTTT
104413947 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTTCTA
Found at i:104414232 original size:13 final size:14
Alignment explanation
Indices: 104414214--104414242 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
104414204 AACTAACTTC
104414214 ATAAATATTT-CTA
1 ATAAATATTTACTA
104414227 ATAAATATTTACTA
1 ATAAATATTTACTA
104414241 AT
1 AT
104414243 CTAATTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATATTTACTA
Found at i:104416726 original size:25 final size:25
Alignment explanation
Indices: 104416696--104416745 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
104416686 AAGAGTTGTT
104416696 CGTTGGGCAACAATTTGAAAACGAG
1 CGTTGGGCAACAATTTGAAAACGAG
104416721 CGTTGGGCAACAATTTGAAAACGAG
1 CGTTGGGCAACAATTTGAAAACGAG
104416746 GTGGACTGTG
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:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (25 bp):
CGTTGGGCAACAATTTGAAAACGAG
Found at i:104419556 original size:23 final size:23
Alignment explanation
Indices: 104419513--104419556 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
104419503 TTATTAAAAT
*
104419513 ATTAAATAAATAATAATTATCTA
1 ATTAAATAAATAATAAATATCTA
104419536 ATTAAAT-AATAATAAAATATC
1 ATTAAATAAATAAT-AAATATC
104419557 CCCAACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAATAAATAATAAATATCTA
Found at i:104435038 original size:24 final size:25
Alignment explanation
Indices: 104435011--104435059 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
104435001 GCTTTTTTAT
*
104435011 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
104435035 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
104435060 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:104435052 original size:25 final size:23
Alignment explanation
Indices: 104435023--104435087 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
104435013 AATAAAAAAC
*
104435023 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
104435048 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
104435069 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
104435088 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:104435082 original size:19 final size:20
Alignment explanation
Indices: 104435049--104435087 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
104435039 TCAAATACAT
104435049 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
104435069 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
104435088 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:104436123 original size:17 final size:17
Alignment explanation
Indices: 104436093--104436137 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
104436083 CCGGTTAAGG
*
104436093 TTTTC-TTTTCTTTTTT
1 TTTTCTTTTTCTTTTAT
*
104436109 TTTTCTTTTTTTTTTAT
1 TTTTCTTTTTCTTTTAT
104436126 TTTTCTATTTTC
1 TTTTCT-TTTTC
104436138 GAATCTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTAT
Found at i:104436129 original size:12 final size:11
Alignment explanation
Indices: 104436093--104436129 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
104436083 CCGGTTAAGG
*
104436093 TTTTCTTTTCT
1 TTTTTTTTTCT
104436104 TTTTTTTTTCT
1 TTTTTTTTTCT
*
104436115 TTTTTTTTTAT
1 TTTTTTTTTCT
104436126 TTTT
1 TTTT
104436130 CTATTTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:104436797 original size:11 final size:11
Alignment explanation
Indices: 104436781--104436810 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
104436771 TCCTTTTCGT
104436781 TATATTATATA
1 TATATTATATA
*
104436792 TATATTATGTA
1 TATATTATATA
104436803 TATATTAT
1 TATATTAT
104436811 TATTTACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
TATATTATATA
Found at i:104436813 original size:3 final size:3
Alignment explanation
Indices: 104436783--104437096 Score: 89
Period size: 3 Copynumber: 106.3 Consensus size: 3
104436773 CTTTTCGTTA
* *
104436783 TAT TAT ATAT ATAT TAT GTAT ATAT TAT TAT T-T ACAT CAT TAT TAT
1 TAT TAT -TAT -TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * * * *
104436829 TAT TAC AAT TTT TAT T-T TCTT TAT T-T TAT TAC TAT TAA CAT TAG
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * * *
104436873 TAC TAT TTT TAT TAC TAT TAC T-T TAT TAC TAT TAC TAC TAA CAT CAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
104436920 TAT TAT CAT T-T T-T TTT TAT TAC TAT TAT TAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
104436965 TTT TAC TAT CTAA TA- TAT TAT TA- TACCT TTT TAT TAT TAT TAC TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT
* * * *
104437011 TAT TA- TAT T-T TCT T-T T-T TAT TAC TAT TAC TA- TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
104437054 TTT TAC TAC TAT TAT TAT TAT CAA TAT TAT CAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
104437097 GTTTTCGTTA
Statistics
Matches: 227, Mismatches: 65, Indels: 38
0.69 0.20 0.12
Matches are distributed among these distances:
2 26 0.11
3 182 0.80
4 18 0.08
5 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:104436882 original size:41 final size:41
Alignment explanation
Indices: 104436827--104436906 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
104436817 CATCATTATT
* * *
104436827 ATTATTACAATTTTTATTTTCT-TTATTTTATTACTATTAAC
1 ATTAGTACAATTTTTA-TTACTATTACTTTATTACTATTAAC
*
104436868 ATTAGTACTATTTTTATTACTATTACTTTATTACTATTA
1 ATTAGTACAATTTTTATTACTATTACTTTATTACTATTA
104436907 CTACTAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (41 bp):
ATTAGTACAATTTTTATTACTATTACTTTATTACTATTAAC
Found at i:104436944 original size:22 final size:23
Alignment explanation
Indices: 104436918--104437013 Score: 67
Period size: 22 Copynumber: 4.3 Consensus size: 23
104436908 TACTAACATC
*
104436918 ACTATTATCATTTT-TTTTTATT
1 ACTATTATCATTTTATTATTATT
*
104436940 ACTATTATTATTTTATTATTATT
1 ACTATTATCATTTTATTATTATT
* * * *
104436963 ATTTTTA-C-TATCTAATA-TATT
1 ACTATTATCAT-TTTATTATTATT
* * *
104436984 ATTA-TACCTTTTTATTATTATT
1 ACTATTATCATTTTATTATTATT
104437006 ACTATTAT
1 ACTATTAT
104437014 TATATTTTCT
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
20 2 0.04
21 14 0.25
22 26 0.46
23 14 0.25
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (23 bp):
ACTATTATCATTTTATTATTATT
Found at i:104436988 original size:30 final size:30
Alignment explanation
Indices: 104436920--104437096 Score: 114
Period size: 30 Copynumber: 5.9 Consensus size: 30
104436910 CTAACATCAC
* * * *
104436920 TATTATCATTTTTTTTTATTACTATTATTA
1 TATTATTATTATTATTTATTACTATTAATA
*
104436950 TTTTATTATTATTATTT-TTACTATCTAATA
1 TATTATTATTATTATTTATTACTAT-TAATA
* *
104436980 TATTATTA-TACCTT-TTTATTATTATTACTA
1 TATTATTATTA--TTATTTATTACTATTAATA
* * * *
104437010 TTATTATATTTTCTTTTTTATTACTATTACTA
1 -TATTAT-TATTATTATTTATTACTATTAATA
* *
104437042 TATTATTTTTATT-TTTACTACTATT-AT-
1 TATTATTATTATTATTTATTACTATTAATA
* *
104437069 TATTATCAATATTATCATTATTACTATT
1 TATTATTATTATTAT--TTATTACTATT
104437097 GTTTTCGTTA
Statistics
Matches: 118, Mismatches: 18, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
27 10 0.08
28 2 0.02
29 20 0.17
30 47 0.40
31 22 0.19
32 16 0.14
33 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTATTATTATTATTTATTACTATTAATA
Found at i:104437030 original size:26 final size:26
Alignment explanation
Indices: 104436953--104437071 Score: 107
Period size: 26 Copynumber: 4.3 Consensus size: 26
104436943 ATTATTATTT
* * *
104436953 TATTATTATTATTTTTACTATCTAATA-
1 TATTATTA-TATTTTTA-TTTTTATTAC
*
104436980 TATTATTATACCTTTTTATTATTATTAC
1 TATTATTATA--TTTTTATTTTTATTAC
104437008 TATTATTATATTTTCT-TTTTTATTAC
1 TATTATTATATTTT-TATTTTTATTAC
*
104437034 TATTACTATATTATTTTTATTTTTACTAC
1 TATTA-T-TA-TATTTTTATTTTTATTAC
104437063 TATTATTAT
1 TATTATTAT
104437072 TATCAATATT
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
26 21 0.27
27 17 0.22
28 20 0.26
29 20 0.26
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTATTATATTTTTATTTTTATTAC
Found at i:104437048 original size:92 final size:85
Alignment explanation
Indices: 104436931--104437096 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 85
104436921 ATTATCATTT
* * ** *
104436931 TTTTTTATTACTATTATTATTTTATTATTATTATTTTTACTATCTAATATATTATTATACCTTTT
1 TTTTTTATTACTATTACTA---TATTATTTTTATTTTTACTA-CT-AT-TATTATTAT-CAATAT
*
104436996 TATTATTATTACTATTATTATATTTTC
59 TATCATTATTACTATTATTATATTTTC
104437023 TTTTTTATTACTATTACTATATTATTTTTATTTTTACTACTATTATTATTATCAATATTATCATT
1 TTTTTTATTACTATTACTATATTATTTTTATTTTTACTACTATTATTATTATCAATATTATCATT
104437088 ATTACTATT
66 ATTACTATT
104437097 GTTTTCGTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 18 0.26
86 9 0.13
87 2 0.03
88 2 0.03
89 19 0.28
92 18 0.26
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (85 bp):
TTTTTTATTACTATTACTATATTATTTTTATTTTTACTACTATTATTATTATCAATATTATCATT
ATTACTATTATTATATTTTC
Found at i:104437068 original size:21 final size:20
Alignment explanation
Indices: 104436953--104437074 Score: 70
Period size: 20 Copynumber: 6.6 Consensus size: 20
104436943 ATTATTATTT
104436953 TATTATTATTATTTTTACTA
1 TATTATTATTATTTTTACTA
* * * *
104436973 TCTAATATATTA-TTATAC-C
1 TATTAT-TATTATTTTTACTA
*
104436992 T-TT-TTATTATTATTAC--
1 TATTATTATTATTTTTACTA
104437008 TATTATTA-TA-TTTT-CT-
1 TATTATTATTATTTTTACTA
* *
104437024 T-TT-TTATTACTATTACTA
1 TATTATTATTATTTTTACTA
*
104437042 TATTATTTTTATTTTTACTA
1 TATTATTATTATTTTTACTA
104437062 CTATTATTATTAT
1 -TATTATTATTAT
104437075 CAATATTATC
Statistics
Matches: 77, Mismatches: 13, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.04
15 5 0.06
16 13 0.17
17 11 0.14
18 5 0.06
19 3 0.04
20 21 0.27
21 16 0.21
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTATTATTTTTACTA
Found at i:104437143 original size:2 final size:2
Alignment explanation
Indices: 104437136--104437168 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
104437126 TGTCATGTTT
104437136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104437169 CTTATGTATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104439957 original size:44 final size:44
Alignment explanation
Indices: 104439894--104439985 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
104439884 TTTGGTTAGT
104439894 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
1 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
104439938 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
1 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
104439982 ATAC
1 ATAC
104439986 CTGGAACCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (44 bp):
ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
Found at i:104449254 original size:87 final size:87
Alignment explanation
Indices: 104449002--104449679 Score: 957
Period size: 87 Copynumber: 7.7 Consensus size: 87
104448992 GAATTCATAA
* * * * * * * *
104449002 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAACAATA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAGATCTTATCACCCTAAGCAGTA
* * ** *
104449067 GTGG-AGCAGATCAAAGACGAAGG
65 G-GGAAACAGATCGAAGGTGATGG
* *
104449090 GCCTT-AACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCCTAAGTAGT
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGATCTTATCACCCTAAGCAGT
104449154 AGGGAAACAGATCGAAGGTGATGG
64 AGGGAAACAGATCGAAGGTGATGG
* *
104449178 GCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
104449243 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCGAAGGTGATGG
* *
104449265 GCCTTAAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTA
1 GCCTTAAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTA
*
104449330 GGGAAACAGATCGAAGGTAATGG
65 GGGAAACAGATCGAAGGTGATGG
* * *
104449353 GCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAATAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
* *
104449418 GGAAACAGATCAAAAGTGATGG
66 GGAAACAGATCGAAGGTGATGG
104449440 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
104449505 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCGAAGGTGATGG
* *
104449527 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTATCACCCTAAGCAATA-
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
*
104449591 GGAGAACAGATCGAAGATGATGG
66 GGA-AACAGATCGAAGGTGATGG
* * * * * * *
104449614 GCCTTAAACCCCTGAGCAGTAGGTTAACAGGTTGAAAATCAAAGATCTTATCTCCCTAAGCAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGATCTTATCACCCTAAGCAGTA
104449679 G
65 G
104449680 TGGAGTAGAT
Statistics
Matches: 541, Mismatches: 41, Indels: 15
0.91 0.07 0.03
Matches are distributed among these distances:
86 3 0.01
87 330 0.61
88 205 0.38
89 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
GGAAACAGATCGAAGGTGATGG
Found at i:104449355 original size:175 final size:175
Alignment explanation
Indices: 104449002--104449751 Score: 978
Period size: 175 Copynumber: 4.3 Consensus size: 175
104448992 GAATTCATAA
* * * * * *
104449002 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAACAATA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAAATCTTATCACCCTAAGCAATA
* * *
104449067 GTGG-AGCAGATCAAAGACGAAGGGCCTT-AACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
65 G-GGAAACAGATCAAAGATGATGGGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAAATT
* *
104449130 ACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGG
128 ACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGG
* * * *
104449178 GCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTATCACCCTAAGCAATAG
* * * *
104449243 GGAAACAGATCGAAGGTGATGGGCCTTAAACCCCCTAAGTAGTAGGGTAACAGGCTG-AATTTAC
66 GGAAACAGATCAAAGATGATGGGCCTTAAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
*
104449307 AGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTAATGG
130 AGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGG
* * *
104449353 GCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAATAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTATCACCCTAAGCAATAG
*
104449418 GGAAACAGATCAAA-AGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-AATTTAC
66 GGAAACAGATCAAAGA-TGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
*
104449481 AGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGG
130 AGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGG
104449527 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTATCACCCTAAGCAATA-
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTATCACCCTAAGCAATAG
* * * * * *
104449591 GGAGAACAGATCGAAGATGATGGGCCTTAAACCCCTGAGCAGTAGGTTAACAGGTTGAAAATCAA
66 GGA-AACAGATCAAAGATGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
* ** *
104449656 AGATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATCGAA--TACAGTGA
130 AGATCTTATCACCCTAAGCAGTAG-GGAAACAGATCGAAGGTA-A-TGG
* * * * * *
104449702 GTCTTAACCCCCTAAACAGTAGGGTAAAAGGCTGGAAATTACAAACCTTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAAATCTTA
104449752 ACCCCTGAAT
Statistics
Matches: 516, Mismatches: 47, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
173 4 0.01
174 187 0.36
175 251 0.49
176 73 0.14
177 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (175 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAATCTTATCACCCTAAGCAATAG
GGAAACAGATCAAAGATGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
GATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGG
Found at i:104451411 original size:18 final size:17
Alignment explanation
Indices: 104451388--104451430 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
104451378 AAATACTATT
*
104451388 ATTATTTCTACTATTGTC
1 ATTATTTCTACTATTG-A
* *
104451406 ATTATTACTATTATTGA
1 ATTATTTCTACTATTGA
104451423 ATTATTTC
1 ATTATTTC
104451431 ATCATCATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTATTTCTACTATTGA
Found at i:104451557 original size:3 final size:3
Alignment explanation
Indices: 104451520--104451820 Score: 73
Period size: 3 Copynumber: 104.0 Consensus size: 3
104451510 TTTCAAATCG
* * *
104451520 TTA TCA TTA -TA TTA -TA TATA TTA TGTA TATA TTA TTA TT- TGCA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA T-TA T-TA TTA TTA TTA T-TA TTA
** * * *
104451566 TTA TTA TTA TTA CAA TTT TTA TT- TTCT TTA TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
** * * * * * * * *
104451610 ACA TTA GTA CTA TTT TTA TTA CTA TTA CT- TTA TTA CTA TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
104451657 ACA TCA CTA TTA TCA TT- TT- TTA TTA TTA TTT TTA TTA TT- TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
104451701 TTA TT- TT- TTA CTA TCTA ATA -TA TTA TTA -TA CCTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA
* * * * *
104451745 -TA TT- TTC TT- TT- TTA TTA CTA TTA CTA -TA TTA TTT TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
104451788 CTA CTA TTA TTA TTA TCA ATA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
104451821 CTATCGTTTT
Statistics
Matches: 217, Mismatches: 58, Indels: 46
0.68 0.18 0.14
Matches are distributed among these distances:
2 36 0.17
3 165 0.76
4 14 0.06
5 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:104451626 original size:41 final size:41
Alignment explanation
Indices: 104451571--104451650 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
104451561 CATCATTATT
* * *
104451571 ATTATTACAATTTTTATTTTCT-TTATTTTATTACTATTAAC
1 ATTAGTACAATTTTTA-TTACTATTACTTTATTACTATTAAC
*
104451612 ATTAGTACTATTTTTATTACTATTACTTTATTACTATTA
1 ATTAGTACAATTTTTATTACTATTACTTTATTACTATTA
104451651 CTACTAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (41 bp):
ATTAGTACAATTTTTATTACTATTACTTTATTACTATTAAC
Found at i:104451696 original size:22 final size:21
Alignment explanation
Indices: 104451666--104451709 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
104451656 AACATCACTA
104451666 TTATCATTTT-TTATTATTATTT
1 TTATCATTTTATT-TTATT-TTT
*
104451688 TTATTATTTTATTTTATTTTT
1 TTATCATTTTATTTTATTTTT
104451709 T
1 T
104451710 ACTATCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 14 0.70
23 2 0.10
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (21 bp):
TTATCATTTTATTTTATTTTT
Found at i:104451699 original size:57 final size:58
Alignment explanation
Indices: 104451632--104451771 Score: 135
Period size: 60 Copynumber: 2.4 Consensus size: 58
104451622 TTTTTATTAC
* * *
104451632 TATTACTTTATTACTATTACTA-CTAACATCACTATTAT-CATTTTTTATTATTAT-TTT
1 TATTATTTTATTACTATTACTATCTAACAT-ACTATTATAC-CTTATTATTATTATATTT
* * * *
104451689 TATTATTTTATTTTATTTTTTACTATCTAATATATTATTATACCTTATTATTATTATATTT
1 TATTATTTTA--TTA-CTATTACTATCTAACATACTATTATACCTTATTATTATTATATTT
*
104451750 TCTT-TTTTATTACTATTACTAT
1 TATTATTTTATTACTATTACTAT
104451772 ATTATTTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
57 17 0.25
58 3 0.04
59 3 0.04
60 31 0.46
61 13 0.19
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (58 bp):
TATTATTTTATTACTATTACTATCTAACATACTATTATACCTTATTATTATTATATTT
Found at i:104451777 original size:29 final size:27
Alignment explanation
Indices: 104451734--104451803 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 27
104451724 TATTATACCT
* *
104451734 TATTATTATTATATTTTCTTTTTTATTAC
1 TATTATTATTAT-TTTT-ATTTTTACTAC
104451763 TATTACTATATTATTTTTATTTTTACTAC
1 TATTA-T-TATTATTTTTATTTTTACTAC
104451792 TATTATTATTAT
1 TATTATTATTAT
104451804 CAATATTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 6 0.16
28 1 0.03
29 19 0.51
30 5 0.14
31 6 0.16
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTATTATTATTTTTATTTTTACTAC
Found at i:104451797 original size:21 final size:20
Alignment explanation
Indices: 104451676--104451803 Score: 90
Period size: 20 Copynumber: 6.5 Consensus size: 20
104451666 TTATCATTTT
* *
104451676 TTATTATTATTTTTATTATT
1 TTATTATTATTTTTACTATA
*
104451696 TTATT-TTATTTTTTACTATC
1 TTATTATTA-TTTTTACTATA
* *
104451716 TAATATATTA-TTATACCT-TA
1 TTAT-TATTATTTTTA-CTATA
104451736 TTATTATTATATTTT-CT-T-
1 TTATTATTAT-TTTTACTATA
* *
104451754 TT-TTATTACTATTACTATA
1 TTATTATTATTTTTACTATA
*
104451773 TTATTTTTATTTTTACTACTA
1 TTATTATTATTTTTACTA-TA
104451794 TTATTATTAT
1 TTATTATTAT
104451804 CAATATTATC
Statistics
Matches: 84, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
16 3 0.04
17 8 0.10
18 3 0.04
19 13 0.15
20 37 0.44
21 17 0.20
22 3 0.04
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTATTATTTTTACTATA
Found at i:104451872 original size:2 final size:2
Alignment explanation
Indices: 104451865--104451900 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
104451855 TGTCATGTTT
104451865 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104451901 CTTATGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104451998 original size:18 final size:18
Alignment explanation
Indices: 104451975--104452009 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104451965 TGCTTTTTTT
*
104451975 TCATATTTTTATTATTGC
1 TCATATTATTATTATTGC
*
104451993 TCATATTATTGTTATTG
1 TCATATTATTATTATTG
104452010 ATATTGTCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (18 bp):
TCATATTATTATTATTGC
Found at i:104456070 original size:17 final size:16
Alignment explanation
Indices: 104456029--104456079 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
104456019 AATATTTATT
104456029 TAAAATTAATTATAAA
1 TAAAATTAATTATAAA
104456045 -AATATATTAATTATAAA
1 TAA-A-ATTAATTATAAA
104456062 CTAAAATTATATTA-AAA
1 -TAAAATTA-ATTATAAA
104456079 T
1 T
104456080 TAAGTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 19 0.63
18 5 0.17
19 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATTAATTATAAA
Found at i:104456088 original size:22 final size:22
Alignment explanation
Indices: 104456024--104456088 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
104456014 AGTAAAATAT
*
104456024 TTAT-TTAAAATTAATTATAAAA
1 TTATATTAAAATTAAAT-TAAAA
* * *
104456046 ATATATT-AATTATAAACTAAAA
1 TTATATTAAAAT-TAAATTAAAA
*
104456068 TTATATTAAAATTAAGTTAAA
1 TTATATTAAAATTAAATTAAA
104456089 TCAGGTCGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TTATATTAAAATTAAATTAAAA
Found at i:104456487 original size:22 final size:22
Alignment explanation
Indices: 104456462--104456505 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
104456452 TAGTCTTATA
104456462 ATAATTTATTAATATAATAAAT
1 ATAATTTATTAATATAATAAAT
* *
104456484 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTAATATAATAAAT
104456506 TCTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTAATATAATAAAT
Found at i:104456557 original size:15 final size:16
Alignment explanation
Indices: 104456530--104456560 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
104456520 ATTTTATTTT
104456530 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
104456546 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
104456561 GAACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:104456619 original size:15 final size:15
Alignment explanation
Indices: 104456599--104456655 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
104456589 ATTCAATATT
104456599 AATATTTTAATAATA
1 AATATTTTAATAATA
*
104456614 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
104456633 AATATATTAATAATA
1 AATATTTTAATAATA
*
104456648 AATGTTTT
1 AATATTTT
104456656 GTAGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:104457133 original size:14 final size:14
Alignment explanation
Indices: 104457114--104457151 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
104457104 CCAGAAAAGT
104457114 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
104457128 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
104457142 AAGTCATTTT
1 AAATCATTTT
104457152 TAGTGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:104459899 original size:23 final size:24
Alignment explanation
Indices: 104459861--104459905 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
104459851 TTCTACTGCT
*
104459861 AGTCACCACTGTCCAACATACACC
1 AGTCACCACCGTCCAACATACACC
*
104459885 AGTCA-CACCGTCCAACGTACA
1 AGTCACCACCGTCCAACATACA
104459906 TCAGGCCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.33, C:0.40, G:0.11, T:0.16
Consensus pattern (24 bp):
AGTCACCACCGTCCAACATACACC
Found at i:104460888 original size:21 final size:20
Alignment explanation
Indices: 104460783--104460882 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 20
104460773 ATTTTTAAGA
*
104460783 ATAATAAGTATTAAT-TTTT
1 ATAATAATTATTAATATTTT
*
104460802 -TAATAATT-TT-ATAATTT
1 ATAATAATTATTAATATTTT
* *
104460819 ATACTAATTATTAA-ATTTG
1 ATAATAATTATTAATATTTT
* *** *
104460838 GTAGCCA-TGTTAATATTTT
1 ATAATAATTATTAATATTTT
*
104460857 GTAATAATTATTAATATATTT
1 ATAATAATTATTAATAT-TTT
104460878 ATAAT
1 ATAAT
104460883 TTTTATAGTT
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
16 2 0.03
17 5 0.09
18 19 0.33
19 16 0.28
20 9 0.16
21 7 0.12
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (20 bp):
ATAATAATTATTAATATTTT
Found at i:104461006 original size:19 final size:20
Alignment explanation
Indices: 104460982--104461023 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
104460972 TCGATGTTCA
* *
104460982 TTTTATTAATTATT-ATATT
1 TTTTATAAAGTATTCATATT
104461001 TTTTATAAAGTATTCATATT
1 TTTTATAAAGTATTCATATT
104461021 TTT
1 TTT
104461024 ATTTTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATAAAGTATTCATATT
Found at i:104461998 original size:26 final size:28
Alignment explanation
Indices: 104461969--104462027 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
104461959 ATATTCAAAC
104461969 AAATAAAACTTC-AAAATT-AAAAAAAA
1 AAATAAAACTTCAAAAATTCAAAAAAAA
* *
104461995 AAATAAGATTTCATAAAAATTCAAAAAAAA
1 AAATAAAACTTC--AAAAATTCAAAAAAAA
104462025 AAA
1 AAA
104462028 GAGTATGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.37
29 6 0.22
30 11 0.41
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (28 bp):
AAATAAAACTTCAAAAATTCAAAAAAAA
Found at i:104465712 original size:8 final size:7
Alignment explanation
Indices: 104465697--104465760 Score: 65
Period size: 7 Copynumber: 8.7 Consensus size: 7
104465687 GTTAAATCTG
104465697 AATTTAA
1 AATTTAA
104465704 AATTTTAA
1 AA-TTTAA
* *
104465712 AAATAAA
1 AATTTAA
*
104465719 AATTCTTA
1 AATT-TAA
*
104465727 AATATAAA
1 AAT-TTAA
104465735 AATTTAA
1 AATTTAA
104465742 AATTTAA
1 AATTTAA
104465749 AATTTAA
1 AATTTAA
104465756 AATTT
1 AATTT
104465761 TTGAAGAGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 30 0.65
8 15 0.33
9 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (7 bp):
AATTTAA
Found at i:104465774 original size:38 final size:38
Alignment explanation
Indices: 104465697--104465773 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 38
104465687 GTTAAATCTG
*
104465697 AATTTAAAATTTTAAAAATAAAAATTCTTAAATATAAA
1 AATTTAAAATTTTAAAAATAAAAATTCTTAAAGATAAA
* * * * *
104465735 AATTTAAAA-TTTAAAATTTAAAATTTTTGAAGAGAAA
1 AATTTAAAATTTTAAAAATAAAAATTCTTAAAGATAAA
104465772 AA
1 AA
104465774 AACTTATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (38 bp):
AATTTAAAATTTTAAAAATAAAAATTCTTAAAGATAAA
Found at i:104467298 original size:13 final size:13
Alignment explanation
Indices: 104467278--104467321 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
104467268 GTTTTAATAA
104467278 AAATATATTTAAT
1 AAATATATTTAAT
* * *
104467291 ATATATATATATT
1 AAATATATTTAAT
104467304 AAATATATTT-AT
1 AAATATATTTAAT
104467316 AAATAT
1 AAATAT
104467322 CAAATGATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATATTTAAT
Found at i:104467302 original size:17 final size:17
Alignment explanation
Indices: 104467280--104467316 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
104467270 TTTAATAAAA
*
104467280 ATATATTTAATATATAT
1 ATATATTAAATATATAT
*
104467297 ATATATTAAATATATTT
1 ATATATTAAATATATAT
104467314 ATA
1 ATA
104467317 AATATCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATATTAAATATATAT
Found at i:104467485 original size:2 final size:2
Alignment explanation
Indices: 104467478--104467512 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
104467468 TAATTAGCAA
104467478 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104467513 AAATAAATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104469477 original size:31 final size:31
Alignment explanation
Indices: 104469454--104469516 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
104469444 TTTTTGCAAT
*
104469454 TATACATATTAAATTTTGATTTTTATTCAAATG
1 TATACATA--AAATTTTAATTTTTATTCAAATG
* *
104469487 TATACATAAAATTTTAATTTTGATTTAAAT
1 TATACATAAAATTTTAATTTTTATTCAAAT
104469517 ATATGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 19 0.70
33 8 0.30
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (31 bp):
TATACATAAAATTTTAATTTTTATTCAAATG
Found at i:104469972 original size:20 final size:20
Alignment explanation
Indices: 104469936--104469985 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
104469926 TTTTAATTAT
*
104469936 TATATTTTA-ATACTTAAAA
1 TATAATTTATATACTTAAAA
* *
104469955 TATAATTTATATATTTAAAT
1 TATAATTTATATACTTAAAA
*
104469975 TAAAATTTATA
1 TATAATTTATA
104469986 AATAGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTTATATACTTAAAA
Found at i:104480391 original size:22 final size:21
Alignment explanation
Indices: 104480366--104480517 Score: 56
Period size: 22 Copynumber: 7.0 Consensus size: 21
104480356 TTCTTATTCC
104480366 TAATTTAAAACACATTAAATT
1 TAATTTAAAACACATTAAATT
** *** * *
104480387 ATAATACAATTTACATGCATATT
1 -TAATTTAAAACACAT-TAAATT
* *
104480410 TAATTTAGAGCACATTAAATT
1 TAATTTAAAACACATTAAATT
** * *
104480431 ATAATACAATATACA-TACATATT
1 -TAATTTAAAACACATTA-A-ATT
*
104480454 TATTTTAAAACACATTAAATT
1 TAATTTAAAACACATTAAATT
** * *
104480475 ATAATACAACATACA-TACATATT
1 -TAATTTAAAACACATTA-A-ATT
104480498 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
104480518 GAAACAAATT
Statistics
Matches: 86, Mismatches: 35, Indels: 19
0.61 0.25 0.14
Matches are distributed among these distances:
21 13 0.15
22 59 0.69
23 14 0.16
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTTAAAACACATTAAATT
Found at i:104480416 original size:44 final size:44
Alignment explanation
Indices: 104480366--104480517 Score: 250
Period size: 44 Copynumber: 3.5 Consensus size: 44
104480356 TTCTTATTCC
* *
104480366 TAATTTAAAACACATTAAATTATAATACAATTTACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
104480410 TAATTTAGAGCACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
104480454 TATTTTAAAACACATTAAATTATAATACAACATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
104480498 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
104480518 GAAACAAATT
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 99 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:104480629 original size:20 final size:19
Alignment explanation
Indices: 104480603--104480641 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
104480593 TGAAATGAGA
104480603 AAAAAAATTAAATTTAAATGG
1 AAAAAAA-T-AATTTAAATGG
104480624 AAAAAAATAATTTAAATG
1 AAAAAAATAATTTAAATG
104480642 AAATGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
AAAAAAATAATTTAAATGG
Found at i:104480635 original size:19 final size:21
Alignment explanation
Indices: 104480603--104480690 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 21
104480593 TGAAATGAGA
104480603 AAAAAAATTAAATTTAAATGG
1 AAAAAAATTAAATTTAAATGG
*
104480624 AAAAAAATAATTTAAA-TGAAATGAG
1 --AAAAA-AA-TTAAATTTAAATG-G
*
104480649 AAAAAAAATTAAATTTAAAAGG
1 -AAAAAAATTAAATTTAAATGG
*
104480671 AAAAAAA-GATAATTTAAATG
1 AAAAAAATTA-AATTTAAATG
104480691 AAATGAGAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.02
21 16 0.29
22 6 0.11
23 12 0.22
24 14 0.25
25 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAAAATTAAATTTAAATGG
Found at i:104480679 original size:96 final size:98
Alignment explanation
Indices: 104480548--104480796 Score: 363
Period size: 97 Copynumber: 2.6 Consensus size: 98
104480538 AAAAATTAAT
*
104480548 ATGA-AAAAAAAACGTAAA-TTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAA-AAAAA
1 ATGAGAAAAAAAA--TAAATTTAAAA-GGAAAAAAAGATAATTTAAATGAAATGAGAAACAAAAA
104480610 TTAAATTTAAATGGAAA-AAA-ATAATTTAAATGAA
63 TTAAATTTAAATGGAAAGAAAGATAATTTAAATGAA
104480644 ATGAGAAAAAAAATTAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGAGAAACAAAAATT
1 ATGAGAAAAAAAA-TAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGAGAAACAAAAATT
104480709 AAATTTAAATGGAAAGAAAGATAATTTAAATGAA
65 AAATTTAAATGGAAAGAAAGATAATTTAAATGAA
*
104480743 ATGAG--AAAAAA-AAATTTAAATGGAAAAAAAAAGATAATTTAAATGAAATG-GAAA
1 ATGAGAAAAAAAATAAATTTAAAAGG--AAAAAAAGATAATTTAAATGAAATGAGAAA
104480797 TGAAAATGAA
Statistics
Matches: 143, Mismatches: 3, Indels: 14
0.89 0.02 0.09
Matches are distributed among these distances:
95 11 0.08
96 43 0.30
97 67 0.47
98 3 0.02
99 19 0.13
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.22
Consensus pattern (98 bp):
ATGAGAAAAAAAATAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGAGAAACAAAAATTA
AATTTAAATGGAAAGAAAGATAATTTAAATGAA
Found at i:104480798 original size:6 final size:6
Alignment explanation
Indices: 104480783--104480833 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
104480773 AAGATAATTT
* * *
104480783 AAAT-G AAATGG AAATGA AAATGA AAATGG AAAT-G AAATGG AAATAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
104480829 AAATG
1 AAATG
104480834 AAAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
5 9 0.22
6 31 0.77
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:104480805 original size:17 final size:17
Alignment explanation
Indices: 104480783--104480837 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
104480773 AAGATAATTT
104480783 AAATGAAATGGAAATGA
1 AAATGAAATGGAAATGA
104480800 AAATGAAAATGGAAATG-
1 AAATG-AAATGGAAATGA
*
104480817 AAATGGAAATAGAAATGA
1 AAAT-GAAATGGAAATGA
104480835 AAA
1 AAA
104480838 AAAAATGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (17 bp):
AAATGAAATGGAAATGA
Found at i:104480836 original size:11 final size:11
Alignment explanation
Indices: 104480783--104480846 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
104480773 AAGATAATTT
*
104480783 AAATGAAATGG
1 AAATGAAATAG
104480794 AAATGAAA-ATG
1 AAATGAAATA-G
104480805 AAAATGGAAAT-G
1 -AAAT-GAAATAG
104480817 AAATGGAAATAG
1 AAAT-GAAATAG
* *
104480829 AAATGAAAAAA
1 AAATGAAATAG
104480840 AAATGAA
1 AAATGAA
104480847 TGGACAGGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
11 31 0.69
12 10 0.22
13 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (11 bp):
AAATGAAATAG
Found at i:104480843 original size:17 final size:17
Alignment explanation
Indices: 104480747--104480843 Score: 52
Period size: 17 Copynumber: 5.6 Consensus size: 17
104480737 AATGAAATGA
**
104480747 GAAAAAAAAATTTAAAT
1 GAAAAAAAAATAGAAAT
*
104480764 GGAAAAAAAA-AGATAAT
1 GAAAAAAAAATAGA-AAT
** ** *
104480781 TTAAATGAAATGGAAAT
1 GAAAAAAAAATAGAAAT
* *
104480798 GAAAATGAAAATGGAAAT
1 GAAAA-AAAAATAGAAAT
***
104480816 GAAATGGAAATAGAAAT
1 GAAAAAAAAATAGAAAT
104480833 GAAAAAAAAAT
1 GAAAAAAAAAT
104480844 GAATGGACAG
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
16 1 0.02
17 42 0.71
18 16 0.27
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (17 bp):
GAAAAAAAAATAGAAAT
Found at i:104481028 original size:24 final size:25
Alignment explanation
Indices: 104480980--104481044 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
104480970 TGAAATGAGA
104480980 AAAATTTTGAATTTAAATGAAATTT
1 AAAATTTTGAATTTAAATGAAATTT
* *
104481005 AAAATTTTGAA-TTGAATGATATTT
1 AAAATTTTGAATTTAAATGAAATTT
*
104481029 -AAA-TTTCAATTTAAAT
1 AAAATTTTGAATTTAAAT
104481045 AAGATATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.14
23 8 0.23
24 11 0.31
25 11 0.31
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (25 bp):
AAAATTTTGAATTTAAATGAAATTT
Found at i:104481133 original size:21 final size:19
Alignment explanation
Indices: 104481100--104481157 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
104481090 AATTAATATG
104481100 AAAAAAATATGAAATGAATTGA
1 AAAAAAAT-TGAAATGAA-T-A
*
104481122 AAAAAAATTGAATTGAATA
1 AAAAAAATTGAAATGAATA
*
104481141 AAGATAAATTGAAATGA
1 AA-AAAAATTGAAATGA
104481158 GATTACTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 8 0.25
22 8 0.25
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
AAAAAAATTGAAATGAATA
Found at i:104481234 original size:5 final size:5
Alignment explanation
Indices: 104481224--104481286 Score: 54
Period size: 5 Copynumber: 11.4 Consensus size: 5
104481214 AAAAATAATT
*
104481224 AATGA AATGA AATGA AATGTTA AATGA ATATGA AATGA ATGATGA TTATGA
1 AATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA A--ATGA -AATGA
*
104481275 AATGG AATGA AA
1 AATGA AATGA AA
104481287 GTTTAAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 30 0.62
6 9 0.19
7 9 0.19
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (5 bp):
AATGA
Found at i:104481268 original size:18 final size:19
Alignment explanation
Indices: 104481247--104481284 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
104481237 GAAATGTTAA
104481247 ATGAATATGAAAT-GAATG
1 ATGAATATGAAATGGAATG
*
104481265 ATGATTATGAAATGGAATG
1 ATGAATATGAAATGGAATG
104481284 A
1 A
104481285 AAGTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
ATGAATATGAAATGGAATG
Found at i:104481333 original size:18 final size:17
Alignment explanation
Indices: 104481312--104481377 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
104481302 AATTATAAAT
*
104481312 TGAAATGGAAACAAAAAC
1 TGAAATGGAAA-AAAAAA
*
104481330 TGAAATGG-AAAAAAAT
1 TGAAATGGAAAAAAAAA
*
104481346 TGAAATGAAAAAAAAAA
1 TGAAATGGAAAAAAAAA
*
104481363 TTAAATGGAAAAAAA
1 TGAAATGGAAAAAAA
104481378 TAATTTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
16 12 0.29
17 22 0.52
18 8 0.19
ACGTcount: A:0.67, C:0.03, G:0.15, T:0.15
Consensus pattern (17 bp):
TGAAATGGAAAAAAAAA
Found at i:104481362 original size:19 final size:17
Alignment explanation
Indices: 104481338--104481391 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 17
104481328 ACTGAAATGG
104481338 AAAAAAATTGAAATGAAA
1 AAAAAAATT-AAATGAAA
104481356 AAAAAAATTAAATGGAAA
1 AAAAAAATTAAAT-GAAA
*
104481374 AAAATAATTTAAATGAAA
1 AAAA-AAATTAAATGAAA
104481392 TGGAAATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 4 0.12
18 21 0.64
19 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AAAAAAATTAAATGAAA
Found at i:104481369 original size:33 final size:34
Alignment explanation
Indices: 104481308--104481378 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
104481298 AATAAATTAT
* *
104481308 AAATTGAAATGGAAACAAAAACTGAAATGGAAAA
1 AAATTGAAATGGAAAAAAAAAATGAAATGGAAAA
*
104481342 AAATTGAAAT-GAAAAAAAAAATTAAATGGAAAA
1 AAATTGAAATGGAAAAAAAAAATGAAATGGAAAA
104481375 AAAT
1 AAAT
104481379 AATTTAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (34 bp):
AAATTGAAATGGAAAAAAAAAATGAAATGGAAAA
Found at i:104481382 original size:18 final size:18
Alignment explanation
Indices: 104481309--104481388 Score: 69
Period size: 18 Copynumber: 4.5 Consensus size: 18
104481299 ATAAATTATA
104481309 AATTGAAATGGAAACAAAA-
1 AATT-AAATGGAAA-AAAAT
* *
104481328 ACTGAAATGGAAAAAAAT
1 AATTAAATGGAAAAAAAT
* *
104481346 --TGAAAT-GAAAAAAAA
1 AATTAAATGGAAAAAAAT
104481361 AATTAAATGGAAAAAAAT
1 AATTAAATGGAAAAAAAT
104481379 AATTTAAATG
1 AA-TTAAATG
104481389 AAATGGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.16
16 6 0.12
17 9 0.18
18 19 0.37
19 9 0.18
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.20
Consensus pattern (18 bp):
AATTAAATGGAAAAAAAT
Found at i:104481391 original size:18 final size:17
Alignment explanation
Indices: 104481338--104481391 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
104481328 ACTGAAATGG
*
104481338 AAAAAAATTGAAATGAA
1 AAAAAAATTTAAATGAA
*
104481355 AAAAAAAATTAAATGGAA
1 AAAAAAATTTAAAT-GAA
104481373 AAAAATAATTTAAATGAA
1 AAAAA-AATTTAAATGAA
104481391 A
1 A
104481392 TGGAAATGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 8 0.25
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AAAAAAATTTAAATGAA
Found at i:104481419 original size:5 final size:6
Alignment explanation
Indices: 104481384--104481416 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
104481374 AAAATAATTT
104481384 AAAT-G AAATGG AAATGG AAATGG AAAT-G AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
104481417 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:104484310 original size:90 final size:90
Alignment explanation
Indices: 104483984--104484311 Score: 408
Period size: 91 Copynumber: 3.6 Consensus size: 90
104483974 AGTCTAGAAT
* * * * * *
104483984 ATTAATACACAAAAATATAAAATTCAAAC-AAAAATAATACACACTAAATTAAA-TTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
*
104484047 AACAAACTATAAACAGATAGGTAAA
66 AACAAACTACAAACAGATAGGTAAA
*
104484072 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
* *
104484137 AAACAAACTACAAACAGATAGATGAA
66 -AACAAACTACAAACAGATAGGTAAA
* * * * * * * * * *
104484163 ATTAGTGCACCAAATTTTTAAAATTTAAACTATATATAACATAGACTAAATTGAATTTAAGCACC
1 ATTAATACACGAAAATTTT-AAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACC
* *
104484228 CAACAAACTACAAACAAATGGGTAAA
65 CAACAAACTACAAACAGATAGGTAAA
* *
104484254 ATTAATACATGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTA
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTA
104484312 CAAATACAAA
Statistics
Matches: 200, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
88 26 0.13
89 20 0.10
90 43 0.22
91 72 0.36
92 39 0.19
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (90 bp):
ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
AACAAACTACAAACAGATAGGTAAA
Found at i:104484657 original size:112 final size:110
Alignment explanation
Indices: 104484460--104484661 Score: 264
Period size: 112 Copynumber: 1.8 Consensus size: 110
104484450 TTGAAAAAGG
* * * * *
104484460 TGGTATCAGCCATCAGTGTTCCAAAGTAAAAAAAAAATTGCATTGAGAGTCAAAAATGTACTTGG
1 TGGTATCAGCCATCAGTGTCCCAAAATAAAAAAAAAAGTGCATTGAGAGTCAAAAATGTACCTGA
*
104484525 TGCCGGCCATCTACTTGCCAGCACCAATTTTTTTTTAAATGACAT
66 TGCCGACCATCTACTTGCCAGCACCAATTTTTTTTTAAATGACAT
* * * *
104484570 TGGTATCGGCCATCAGTGTCCCAAAATAATAAAAAAAAGTG-ACTTGGGAGTTGAAATATGTACC
1 TGGTATCAGCCATCAGTGTCCCAAAATAA-AAAAAAAAGTGCA-TTGAGAG-TCAAAAATGTACC
104484634 TGATGCCGACCATCTA-TTAGCCAGCACC
63 TGATGCCGACCATCTACTT-GCCAGCACC
104484662 CAAAAAATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
110 27 0.35
111 18 0.23
112 33 0.42
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (110 bp):
TGGTATCAGCCATCAGTGTCCCAAAATAAAAAAAAAAGTGCATTGAGAGTCAAAAATGTACCTGA
TGCCGACCATCTACTTGCCAGCACCAATTTTTTTTTAAATGACAT
Found at i:104492067 original size:15 final size:15
Alignment explanation
Indices: 104492047--104492110 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 15
104492037 ATATTTTTTC
104492047 AAAGAACAGAACAAA
1 AAAGAACAGAACAAA
*
104492062 AAAGAA-TG-A-AAA
1 AAAGAACAGAACAAA
*
104492074 AAAGAACAAAGAAAAAA
1 AAAGAAC--AGAACAAA
*
104492091 AATAGAACAGAACTAA
1 AA-AGAACAGAACAAA
104492107 AAAG
1 AAAG
104492111 GCTTGTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
12 9 0.23
13 1 0.03
14 1 0.03
15 9 0.23
16 9 0.23
17 5 0.13
18 5 0.13
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAGAACAGAACAAA
Found at i:104495565 original size:2 final size:2
Alignment explanation
Indices: 104495558--104495583 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104495548 GATAGTTTAG
104495558 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
104495584 TAAATTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104496505 original size:24 final size:24
Alignment explanation
Indices: 104496473--104496521 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
104496463 CTTTCAAAGT
104496473 AATAGAATACTTTTGAGAGCATTA
1 AATAGAATACTTTTGAGAGCATTA
*
104496497 AATAGAATACTTTTGAGAGTATTA
1 AATAGAATACTTTTGAGAGCATTA
104496521 A
1 A
104496522 TTTAATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (24 bp):
AATAGAATACTTTTGAGAGCATTA
Found at i:104498292 original size:37 final size:37
Alignment explanation
Indices: 104498238--104498308 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
104498228 AACATTACAG
*
104498238 GTCAAAGAAAGAATGCTCTTGTTGATATGAGGGCATC
1 GTCAAAGAAAGAATGCTCTTGTTGATACGAGGGCATC
*
104498275 GTCAAAGAAAGAGTGCTCTTGTTGATACGAGGGC
1 GTCAAAGAAAGAATGCTCTTGTTGATACGAGGGC
104498309 GTCAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (37 bp):
GTCAAAGAAAGAATGCTCTTGTTGATACGAGGGCATC
Found at i:104499270 original size:21 final size:22
Alignment explanation
Indices: 104499224--104499272 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
104499214 TATTGATAAG
**
104499224 AATTATATTAAATTTAATATTA
1 AATTATATTAAATTTAATAGAA
104499246 AATT-TATTAAA-TTAATAGAA
1 AATTATATTAAATTTAATAGAA
104499266 TAATTAT
1 -AATTAT
104499273 CTACAAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTATATTAAATTTAATAGAA
Found at i:104499921 original size:13 final size:13
Alignment explanation
Indices: 104499905--104499929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104499895 TTTTTCAAGA
104499905 AAATTCTTTAATC
1 AAATTCTTTAATC
104499918 AAATTCTTTAAT
1 AAATTCTTTAAT
104499930 TGGACAATTC
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:104502329 original size:2 final size:2
Alignment explanation
Indices: 104502290--104502315 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104502280 TAAAAAATTG
104502290 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
104502316 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104511570 original size:3 final size:3
Alignment explanation
Indices: 104511564--104511596 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
104511554 TTCATCATTG
*
104511564 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
104511597 CCTTCATTCT
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:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:104511601 original size:9 final size:9
Alignment explanation
Indices: 104511553--104511613 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
104511543 TCATCTTCAC
104511553 CTTCATCAT
1 CTTCATCAT
104511562 -TGTCATCAT
1 CT-TCATCAT
*
104511571 CATCATCAT
1 CTTCATCAT
*
104511580 CATCATCAT
1 CTTCATCAT
*
104511589 CTTCATCAC
1 CTTCATCAT
104511598 CTTCATTC-T
1 CTTCA-TCAT
104511607 CTTCATC
1 CTTCATC
104511614 TGTACTCTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
8 3 0.07
9 40 0.89
10 2 0.04
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.41
Consensus pattern (9 bp):
CTTCATCAT
Found at i:104516788 original size:17 final size:17
Alignment explanation
Indices: 104516766--104516820 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
104516756 CTACAATATA
104516766 AATATTTAATTTAATTT
1 AATATTTAATTTAATTT
104516783 AATATTT-ATCTTAA--T
1 AATATTTAAT-TTAATTT
*
104516798 AATATTAAATTTAATTT
1 AATATTTAATTTAATTT
104516815 AATATT
1 AATATT
104516821 AAAATATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 11 0.33
16 4 0.12
17 18 0.55
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATTTAATTTAATTT
Found at i:104516836 original size:19 final size:18
Alignment explanation
Indices: 104516795--104516840 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
104516785 TATTTATCTT
104516795 AATAATATT-AAATTTAA
1 AATAATATTAAAATTTAA
**
104516812 TTTAATATTAAAATATTAA
1 AATAATATTAAAAT-TTAA
104516831 AATAATATTA
1 AATAATATTA
104516841 TTTTTGGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATATTAAAATTTAA
Found at i:104519041 original size:22 final size:23
Alignment explanation
Indices: 104518994--104519052 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
104518984 AAAGCCAAGC
*
104518994 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
104519019 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
104519041 TATTTAC-ATAAA
1 TATATACAATAAA
104519053 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:104523026 original size:67 final size:67
Alignment explanation
Indices: 104522947--104523088 Score: 275
Period size: 67 Copynumber: 2.1 Consensus size: 67
104522937 GTTGAATGAA
*
104522947 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAGCAGCTAAATA
1 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAGCTAAATA
104523012 TG
66 TG
104523014 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAGCTAAATA
1 TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAGCTAAATA
104523079 TG
66 TG
104523081 TTGAATCA
1 TTGAATCA
104523089 ATTTAATTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (67 bp):
TTGAATCAGAACATACTTGAAATTGATAGAAATTGAAAACTAGGATAAAAATCAACAGCTAAATA
TG
Found at i:104524253 original size:26 final size:26
Alignment explanation
Indices: 104524230--104524279 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
104524220 AATATTTATT
*
104524230 TATATAATATCATTAGTTATTTTAAA
1 TATATAATATCATTAATTATTTTAAA
* *
104524256 TATGTAATATCGTTAATTATTTTA
1 TATATAATATCATTAATTATTTTA
104524280 GTTAAAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (26 bp):
TATATAATATCATTAATTATTTTAAA
Found at i:104526121 original size:14 final size:15
Alignment explanation
Indices: 104526097--104526143 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
104526087 AAAAATTTAT
104526097 ATTATAATTAATTAA
1 ATTATAATTAATTAA
104526112 ATTA-AATTAATTAA
1 ATTATAATTAATTAA
* *
104526126 GTGATAA-TAA-TAA
1 ATTATAATTAATTAA
104526139 ATTAT
1 ATTAT
104526144 TATTTTCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (15 bp):
ATTATAATTAATTAA
Found at i:104528415 original size:46 final size:44
Alignment explanation
Indices: 104528309--104528418 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
104528299 CATGTCTTCG
** * * *
104528309 ATATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATA
1 ATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATA
*
104528353 ATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTA
1 ATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATA
104528399 ATATGGACTTACATGGCTCA
1 ATATGGACTTACATGGCTCA
104528419 TTTCTGTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 35 0.60
46 23 0.40
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (44 bp):
ATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATA
Found at i:104532897 original size:44 final size:45
Alignment explanation
Indices: 104532807--104532935 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
104532797 GACAGAACGA
*
104532807 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
104532853 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
104532897 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104532936 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:104540282 original size:44 final size:45
Alignment explanation
Indices: 104540192--104540320 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
104540182 GACAGAACGA
*
104540192 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
104540238 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
104540282 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104540321 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:104544256 original size:44 final size:45
Alignment explanation
Indices: 104544203--104544305 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 45
104544193 TGTCTTTGAC
* * *
104544203 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
* *
104544247 ATGGACTTACATGACTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
104544293 ATGGACTTACATG
1 ATGGACTTACATG
104544306 GCTCATTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 34 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:104545835 original size:22 final size:22
Alignment explanation
Indices: 104545807--104545850 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
104545797 TAATTTTTTA
104545807 TTTAAATGTCAAGAAGGTCTTC
1 TTTAAATGTCAAGAAGGTCTTC
104545829 TTTAAATGTCAAGAAGGTCTTC
1 TTTAAATGTCAAGAAGGTCTTC
104545851 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (22 bp):
TTTAAATGTCAAGAAGGTCTTC
Found at i:104545857 original size:22 final size:22
Alignment explanation
Indices: 104545810--104545857 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
104545800 TTTTTTATTT
* *
104545810 AAATGTCAAGAAGGTCTTCTTT
1 AAATGTCAAGAAGGTCTTCATA
104545832 AAATGTCAAGAAGGTCTTCATA
1 AAATGTCAAGAAGGTCTTCATA
104545854 AAAT
1 AAAT
104545858 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (22 bp):
AAATGTCAAGAAGGTCTTCATA
Found at i:104547361 original size:19 final size:20
Alignment explanation
Indices: 104547337--104547380 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
104547327 CCTAATTGAT
104547337 TATTTAA-TTATTTTATAAA
1 TATTTAATTTATTTTATAAA
* *
104547356 TATTTAATTTATTTTTTAAT
1 TATTTAATTTATTTTATAAA
104547376 TATTT
1 TATTT
104547381 TATAAGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTAATTTATTTTATAAA
Found at i:104547486 original size:25 final size:25
Alignment explanation
Indices: 104547419--104547505 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 25
104547409 AAAAAATTCT
* *
104547419 TTTAAAAAATTTTAAAATTCTAATT
1 TTTAAAAAATATTAAAATTCTAATA
* *
104547444 TTTAAAAAATATGAAAATTTTAATA
1 TTTAAAAAATATTAAAATTCTAATA
104547469 TTT-AAAAATATTATAAATTAGCCTAATA
1 TTTAAAAAATATTA-AAATT---CTAATA
104547497 TTATAAAAA
1 TT-TAAAAA
104547506 TTACTAGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 9 0.18
25 29 0.58
28 7 0.14
29 1 0.02
30 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTAAAAAATATTAAAATTCTAATA
Found at i:104547554 original size:31 final size:31
Alignment explanation
Indices: 104547493--104547554 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
104547483 AAATTAGCCT
* * **
104547493 AATATTATAAAAATTACTAGAAATTATATAA
1 AATATTATAAAAATTACAAAAAAAAATATAA
104547524 AATATTA-AAAAATTACAAAAAAAAATTATAA
1 AATATTATAAAAATTACAAAAAAAAA-TATAA
104547555 GAATTTGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (31 bp):
AATATTATAAAAATTACAAAAAAAAATATAA
Found at i:104552915 original size:21 final size:23
Alignment explanation
Indices: 104552877--104552919 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
104552867 TTACATATTA
104552877 TTAATATTATTACTATTATTTTTC
1 TTAATATTATTAC-ATTATTTTTC
104552901 TTAATA-TATTA-ATTATTTT
1 TTAATATTATTACATTATTTT
104552920 CAAAGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (23 bp):
TTAATATTATTACATTATTTTTC
Found at i:104552997 original size:13 final size:14
Alignment explanation
Indices: 104552973--104553003 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
104552963 ATCATTATTA
104552973 ATATTAATATATGT
1 ATATTAATATATGT
104552987 ATATT-ATATATGT
1 ATATTAATATATGT
104553000 ATAT
1 ATAT
104553004 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:104553225 original size:12 final size:12
Alignment explanation
Indices: 104553204--104553338 Score: 67
Period size: 12 Copynumber: 11.4 Consensus size: 12
104553194 TTCTTAATAT
104553204 TATATT-TTATA
1 TATATTATTATA
104553215 TATATTATTATA
1 TATATTATTATA
104553227 TATATT-TTA-A
1 TATATTATTATA
104553237 TATCATTAGTTATA
1 TAT-ATTA-TTATA
* *
104553251 T-TTTTCTT-T-
1 TATATTATTATA
*
104553260 TATACTATTATA
1 TATATTATTATA
104553272 TATA-TATATATA
1 TATATTAT-TATA
* *
104553284 TCTAATATTATAA
1 TATATTATTAT-A
104553297 GGTATATT-TCTA-A
1 --TATATTAT-TATA
104553310 TACTATTATT-TA
1 TA-TATTATTATA
104553322 TATATATATT-TA
1 TATAT-TATTATA
104553334 TATAT
1 TATAT
104553339 GTGTGTACGT
Statistics
Matches: 98, Mismatches: 8, Indels: 35
0.70 0.06 0.25
Matches are distributed among these distances:
9 1 0.01
10 9 0.09
11 23 0.23
12 46 0.47
13 10 0.10
14 3 0.03
15 6 0.06
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATTATTATA
Found at i:104553295 original size:45 final size:43
Alignment explanation
Indices: 104553198--104553295 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 43
104553188 TATAAGTTCT
* *
104553198 TAATATTATATTTTATATATATTATTATATATATTTTAATATC
1 TAATATTATATTTTATATATACTATTATATATATTATAATATC
* * *
104553241 -ATTAGTTATATTTTTCTTTTATACTATTATATATA-TATATATATC
1 TAATA-TTATA-TTTT-ATATATACTATTATATATATTATA-ATATC
104553286 TAATATTATA
1 TAATATTATA
104553296 AGGTATATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.07
43 5 0.11
44 7 0.16
45 26 0.59
46 3 0.07
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (43 bp):
TAATATTATATTTTATATATACTATTATATATATTATAATATC
Found at i:104559663 original size:44 final size:45
Alignment explanation
Indices: 104559610--104559712 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
104559600 TGTCTTTGAC
* * * * *
104559610 ATGGACTTACCTGAATTATTCGTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
104559654 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
104559700 ATGGACTTACATG
1 ATGGACTTACATG
104559713 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:104559711 original size:46 final size:44
Alignment explanation
Indices: 104559632--104559717 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
104559622 GAATTATTCG
*
104559632 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
104559676 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
104559718 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:104568075 original size:71 final size:71
Alignment explanation
Indices: 104567954--104568087 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
104567944 GTTTTCCAAG
* * *
104567954 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
104568019 GTTTCA
66 GTTTCA
* * ** *
104568025 AAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
104568088 TTGCTTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:104568127 original size:160 final size:160
Alignment explanation
Indices: 104567864--104568775 Score: 1274
Period size: 160 Copynumber: 5.8 Consensus size: 160
104567854 TTGTTTTTTC
*
104567864 CAAAAATCAACTCATATTGC-AGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
104567928 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
104567993 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* *
104568023 CAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
104568088 TTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
104568153 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* *
104568183 CAAAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
104568248 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
104568313 GACACGTTGAGGTAATTTCAATTTATATTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
104568343 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
104568408 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* * *
104568473 GTCACACGCTGAGGTATTTTTAATTTATGTTT
131 G--ACACGTTGAGGTAATTTCAATTTATGTTT
** ** *
104568505 CAAAAATTGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGG-----T--A-
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG--GCACGCTGAGGTATTTTCAAT
* ** * **
104568562 ------TTTTTAATTTATG-TTT-CAA-AATTTGA-CTCATATTGCGAGAGGTGAGTCAAGCCTC
64 TTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * * *
104568617 AGGTCACGCTGAGGT-ATTTTAATTCCTGTTGTTT
129 AAGACACGTTGAGGTAATTTCAATT--T-ATGTTT
* * * *
104568651 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAGTTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* ** * * *
104568716 CTACTTTCCAATTCCTGTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
104568776 GTTAATTTCT
Statistics
Matches: 683, Mismatches: 45, Indels: 49
0.88 0.06 0.06
Matches are distributed among these distances:
143 8 0.01
144 20 0.03
145 1 0.00
146 71 0.10
147 4 0.01
148 3 0.00
149 4 0.01
150 12 0.02
157 1 0.00
158 9 0.01
159 28 0.04
160 449 0.66
162 63 0.09
164 10 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:104568235 original size:71 final size:71
Alignment explanation
Indices: 104568114--104568247 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
104568104 GTTTTCCAAG
* * *
104568114 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
104568179 GTTTCA
66 GTTTCA
* * ** *
104568185 AAAATCAACTCGTATTGCGAGAAGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
104568248 CTGCTTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:104568395 original size:71 final size:71
Alignment explanation
Indices: 104568274--104568407 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
104568264 GTTTTCCAAG
* * *
104568274 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
104568339 ATTTCA
66 ATTTCA
* * *
104568345 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
104568408 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
ATTTCA
Found at i:104568535 original size:73 final size:73
Alignment explanation
Indices: 104568442--104568681 Score: 369
Period size: 73 Copynumber: 3.3 Consensus size: 73
104568432 AGAAAATCAG
**
104568442 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAATTTATGTTTCA
1 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAATTTATGTTTCA
104568507 AAAATTGA
66 AAAATTGA
*
104568515 CTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAATTTATGTTTCA
1 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAATTTATGTTTCA
*
104568580 AAATTTGA
66 AAAATTGA
*
104568588 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGT--CACGCTGAGGTA-TTTTAATTCCTGTTGTT
1 CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAATT--T-ATGTT
**
104568650 TCAAAAATCAA
63 TCAAAAATTGA
104568661 CTCATATTGCGAGAGGTGAGT
1 CTCATATTGCGAGAGGTGAGT
104568682 TGAGCCTCGG
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
70 8 0.05
71 12 0.08
72 1 0.01
73 134 0.86
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (73 bp):
CTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAATTTATGTTTCA
AAAATTGA
Found at i:104568688 original size:73 final size:72
Alignment explanation
Indices: 104568434--104568709 Score: 351
Period size: 73 Copynumber: 3.8 Consensus size: 72
104568424 GTTTTCCAAG
* **
104568434 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGT-ACACGCTGAGGTATTTTTAATTT
104568499 ATGTTTCA
65 ATGTTTCA
** *
104568507 AAAATTGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGT-ACACGCTGAGGTATTTTTAATTT
104568572 ATGTTTCA
65 ATGTTTCA
* **
104568580 AAATTTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGT-CACGCTGAGGTA-TTTTAATTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTACACGCTGAGGTATTTTTAATT--
*
104568643 TGTTGTTTCA
64 T-ATGTTTCA
** ** *
104568653 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGGCATGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTACACGCTGAGGTATTTT
104568710 CAGTTTCTAC
Statistics
Matches: 182, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
70 8 0.04
71 12 0.07
72 3 0.02
73 156 0.86
74 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTACACGCTGAGGTATTTTTAATTTA
TGTTTCA
Found at i:104568870 original size:50 final size:50
Alignment explanation
Indices: 104568731--104568877 Score: 183
Period size: 53 Copynumber: 2.9 Consensus size: 50
104568721 TTCCAATTCC
104568731 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGTTAATT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-GTT-ATT
* *
104568783 TCTGTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-TT-TT
1 TGT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCGTTATT
* *
104568832 TGTTTTTCAAAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCC
1 TGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
104568878 TCGGGTCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
48 5 0.06
49 5 0.06
50 31 0.37
51 2 0.02
52 2 0.02
53 38 0.45
54 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (50 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGTTATT
Found at i:104569114 original size:70 final size:73
Alignment explanation
Indices: 104568932--104569118 Score: 218
Period size: 74 Copynumber: 2.6 Consensus size: 73
104568922 AAATTTTTAC
** * * * *
104568932 TTTCCTAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTA
1 TTTCC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
*
104568997 ATTCCTGTTG
65 ATT-CTGATG
* * * *
104569007 TTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAG
1 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
104569072 TT-T-ATG
66 TTCTGATG
* *
104569078 -TTCCAAAATCAACTCATATGGCGAGATGTGAGTTGAGCCTC
1 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
104569119 GGAGGTATTT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
70 37 0.38
71 2 0.02
72 1 0.01
74 53 0.55
75 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (73 bp):
TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTCTGATG
Found at i:104570560 original size:7 final size:7
Alignment explanation
Indices: 104570548--104570572 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
104570538 TTTCCCCCCT
104570548 CTCCTTC
1 CTCCTTC
104570555 CTCCTTC
1 CTCCTTC
104570562 CTCCTTC
1 CTCCTTC
104570569 CTCC
1 CTCC
104570573 CTTCTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (7 bp):
CTCCTTC
Found at i:104571090 original size:21 final size:23
Alignment explanation
Indices: 104571052--104571094 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
104571042 TTACATATTA
104571052 TTAATATTATTACTATTATTTTTC
1 TTAATATTATTAC-ATTATTTTTC
104571076 TTAATA-TATTA-ATTATTTT
1 TTAATATTATTACATTATTTT
104571095 CAAAGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (23 bp):
TTAATATTATTACATTATTTTTC
Done.