Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 32 of 126
Found at i:9181047 original size:71 final size:72
Alignment explanation
Indices: 9180914--9181065 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
9180904 TCATTGGTGG
* *
9180914 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
9180979 GAGGGGT
66 AAGGGGT
***
9180986 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
9181050 AAGGGGT
66 AAGGGGT
9181057 TGCTAAGTG
1 TGCTAAGTG
9181066 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
AAGGGGT
Found at i:9183293 original size:40 final size:40
Alignment explanation
Indices: 9183235--9183314 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
9183225 CCAGCCACCG
9183235 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
1 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
* *
9183275 GACCCAAGCTATAGGATGTTATAACAATAAATCGGAACAT
1 GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
9183315 TCACAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (40 bp):
GACCCAAGCTATAAGATGTTATAACAATAAATCGAAACAT
Found at i:9185866 original size:13 final size:13
Alignment explanation
Indices: 9185848--9185872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9185838 ATAGTAACTC
9185848 TAAAAATATTTAA
1 TAAAAATATTTAA
9185861 TAAAAATATTTA
1 TAAAAATATTTA
9185873 CTGGCTTGGT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:9187737 original size:31 final size:31
Alignment explanation
Indices: 9187702--9187776 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
9187692 CATTTAATCT
* * **
9187702 CCTTTTAAAAAGAA-TCTAATTTGATTATCAA
1 CCTTTTAAAAA-AAGTCAAATTCGACCATCAA
9187733 CCTTTTTAAAAAAAGTCAAATTCGACCATCAA
1 CC-TTTTAAAAAAAGTCAAATTCGACCATCAA
*
9187765 TCTTTTAAAAAA
1 CCTTTTAAAAAA
9187777 GAGTTGAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 14 0.38
32 23 0.62
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (31 bp):
CCTTTTAAAAAAAGTCAAATTCGACCATCAA
Found at i:9187935 original size:21 final size:19
Alignment explanation
Indices: 9187911--9187949 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
9187901 ATATATTGAA
9187911 TTTTGAATTATTTTATTATAT
1 TTTTGAA-TATTTT-TTATAT
*
9187932 TTTTTAATATTTTTTATA
1 TTTTGAATATTTTTTATA
9187950 ATTATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTGAATATTTTTTATAT
Found at i:9188674 original size:7 final size:7
Alignment explanation
Indices: 9188662--9188686 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9188652 CCAAACTAAA
9188662 AAATTTT
1 AAATTTT
9188669 AAATTTT
1 AAATTTT
9188676 AAATTTT
1 AAATTTT
9188683 AAAT
1 AAAT
9188687 AATTAATACA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:9196425 original size:12 final size:11
Alignment explanation
Indices: 9196393--9196423 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
9196383 ATTAAGTAAA
9196393 TAAATAAATAT
1 TAAATAAATAT
9196404 TAAATGAAATAT
1 TAAAT-AAATAT
9196416 TAAATAAA
1 TAAATAAA
9196424 ATTTTTTTAT
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:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:9201617 original size:22 final size:22
Alignment explanation
Indices: 9201592--9201633 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9201582 ATTAAAAATT
*
9201592 AAATTGAATAAAATTATATTTA
1 AAATTGAATAAAATAATATTTA
* *
9201614 AAATTTAATAACATAATATT
1 AAATTGAATAAAATAATATT
9201634 GTCTTATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTGAATAAAATAATATTTA
Found at i:9216077 original size:18 final size:18
Alignment explanation
Indices: 9216054--9216089 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9216044 AGATAAAACG
9216054 CATCTTGATGGTTCAACC
1 CATCTTGATGGTTCAACC
9216072 CATCTTGATGGTTCAACC
1 CATCTTGATGGTTCAACC
9216090 AATGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
CATCTTGATGGTTCAACC
Found at i:9217340 original size:42 final size:42
Alignment explanation
Indices: 9217281--9217363 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
9217271 CTGAACTTTA
9217281 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
1 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
* * *
9217323 CCGAGAGATACCAGTTGCTGGATTTTGTGGCTACATTCAAC
1 CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAAC
9217364 AATGACAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
CCGAGAGATAACAGTTGCTGGATTTTGTGACCACATTCAACG
Found at i:9222313 original size:57 final size:57
Alignment explanation
Indices: 9222244--9222356 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
9222234 ATACTTGATT
9222244 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTCC
1 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTCC
9222301 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTC
1 TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTC
9222357 GTGAGGAAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (57 bp):
TATTTCAATCACAACAAGAACCTGACAATAGTGTGAATACTTATATCTCAAGATTCC
Found at i:9236984 original size:44 final size:42
Alignment explanation
Indices: 9236921--9237060 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
9236911 AGTGATTCGG
9236921 GGAATCAGCACTTAGCAACCCCTTTTTACATTCAAGGATATGGT
1 GGAATCAGCACTTAGCAACCCC--TTTACATTCAAGGATATGGT
9236965 GGAATCAGCACTTAGCAA--CC---AC---C-AGTGAT-TCGG-
1 GGAATCAGCACTTAGCAACCCCTTTACATTCAAG-GATAT-GGT
* *
9236998 GGAATCAACACTTAACAACCCCTTTCACATTCAAGGATATGGT
1 GGAATCAGCACTTAGCAACCCCTTT-ACATTCAAGGATATGGT
9237041 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
9237061 ACCAAAGAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 29
0.70 0.04 0.26
Matches are distributed among these distances:
33 19 0.24
34 6 0.08
35 2 0.03
37 2 0.03
39 2 0.03
42 8 0.10
43 21 0.27
44 18 0.23
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTACATTCAAGGATATGGT
Found at i:9237017 original size:77 final size:77
Alignment explanation
Indices: 9236885--9237097 Score: 356
Period size: 76 Copynumber: 2.8 Consensus size: 77
9236875 AACCGTTATC
* *
9236885 GGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTTAC
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
9236950 ATTCAAGGATAT
66 ATTCAAGGATAT
* *
9236962 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAACACTTAACAACCCC-TTTCAC
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
9237026 ATTCAAGGATAT
66 ATTCAAGGATAT
** *
9237038 GGTGGAATCAGCACTTAGCAACCACCAAAGAGTCGGGGAATCAGCACTTAGCAACCCCTT
1 GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
9237098 GGGGGAATCA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
76 70 0.56
77 56 0.44
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (77 bp):
GGTGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCAC
ATTCAAGGATAT
Found at i:9237798 original size:40 final size:40
Alignment explanation
Indices: 9237753--9237832 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
9237743 CGAAAATTTT
*
9237753 CCGTGAAATTGTAGATCATAAAAATATAATAATAACCATA
1 CCGTGAAATTGTAGACCATAAAAATATAATAATAACCATA
* *
9237793 CCGTGAAATTGTAGACCATGAAAATATAATAATAATCATA
1 CCGTGAAATTGTAGACCATAAAAATATAATAATAACCATA
9237833 TTTTCCCTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (40 bp):
CCGTGAAATTGTAGACCATAAAAATATAATAATAACCATA
Found at i:9238736 original size:46 final size:46
Alignment explanation
Indices: 9238658--9238796 Score: 242
Period size: 46 Copynumber: 3.0 Consensus size: 46
9238648 ACAATGCTAT
* * *
9238658 AACTTAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
9238704 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
9238750 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
9238796 A
1 A
9238797 TTTTGCCATG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:9242347 original size:25 final size:25
Alignment explanation
Indices: 9242313--9242384 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
9242303 AGTCCTCTCT
* *
9242313 CGAGCCATATAATGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
9242338 CGAGCTATATAACGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
9242363 C-AGGCTATATAACGGGAAGCTT
1 CGA-GCTATATAACGGGAAGCTT
9242385 GAGAGAGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 43 0.98
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTTATC
Found at i:9242748 original size:21 final size:21
Alignment explanation
Indices: 9242722--9242763 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9242712 CAAACTTAAC
9242722 TCAATTTAATAAAATTCACAT
1 TCAATTTAATAAAATTCACAT
* **
9242743 TCAATTTCATCCAATTCACAT
1 TCAATTTAATAAAATTCACAT
9242764 ATTATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTTAATAAAATTCACAT
Found at i:9243231 original size:68 final size:66
Alignment explanation
Indices: 9243131--9243264 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 66
9243121 TTACGATATG
*
9243131 AGAAATATAAAAATTACTAAAAACTACGATCTGGGATAAGAGAATACTTACCAAATTAAGCTAAA
1 AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAA-A-AATACTTACCAAATTAAGCTAAA
9243196 TAA
64 TAA
*
9243199 AGAAATATAAAAATTACTAAAAATTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
1 AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
9243264 A
66 A
9243265 TCTTGCTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 26 0.41
67 1 0.02
68 37 0.58
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (66 bp):
AGAAATATAAAAATTACTAAAAACTACAATCTGGGATAAAAATACTTACCAAATTAAGCTAAATA
A
Found at i:9252895 original size:88 final size:88
Alignment explanation
Indices: 9252788--9253071 Score: 311
Period size: 88 Copynumber: 3.2 Consensus size: 88
9252778 TTGTATATTC
* *
9252788 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTTGCTACCAATAT
1 GATCTACTTCA-CGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
* *
9252853 AAGAAGACAGGACCCACTATCTTT
65 AGGAAGACAGGACTCACTATCTTT
* *** * ** * * * * * * *
9252877 GATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTCTTCGA-CCTACTCCACCACCAGTA
1 GATCTACTTCACGCCAGTATGGGAAGATAAAATATG-TATATTCGATCC-ACTTCGCTACCAATA
* * ** *
9252941 TAGGGAGACAAGA-TCTGTTTCTTT
64 TAGGAAGACAGGACTCACTATCTTT
9252965 GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
1 GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
*
9253030 GGAAGACAGGACTTACTATCTTT
66 GGAAGACAGGACTCACTATCTTT
9253053 GATCTACTTCACGCCAGTA
1 GATCTACTTCACGCCAGTA
9253072 CATGAAGACA
Statistics
Matches: 148, Mismatches: 43, Indels: 9
0.74 0.22 0.05
Matches are distributed among these distances:
87 29 0.20
88 81 0.55
89 38 0.26
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (88 bp):
GATCTACTTCACGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATATA
GGAAGACAGGACTCACTATCTTT
Found at i:9253060 original size:176 final size:177
Alignment explanation
Indices: 9252788--9253164 Score: 657
Period size: 176 Copynumber: 2.1 Consensus size: 177
9252778 TTGTATATTC
*
9252788 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTTGCTACCAATAT
1 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
*
9252853 AAGAAGACAGGACCCACTATCTTTGATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTC
66 AAGAAGACAGGACCCACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
9252918 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
131 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
*
9252965 GATCTACTTCA-CGCCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
1 GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
* **
9253029 AGGAAGACAGGACTTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
66 AAGAAGACAGGACCCACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
*
9253094 TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTT
131 TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
* * *
9253141 GATCTGCTTCGCCACCAGCATGGG
1 GATCTACTTCACCACCAGTATGGG
9253165 GAGGCAAGAT
Statistics
Matches: 188, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 167 0.89
177 21 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (177 bp):
GATCTACTTCACCACCAGTATGGGAAGATAAAATATGTATATTCGATCCACTTCGCTACCAATAT
AAGAAGACAGGACCCACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC
TTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTTTCTTT
Found at i:9253140 original size:88 final size:88
Alignment explanation
Indices: 9252872--9253150 Score: 332
Period size: 88 Copynumber: 3.2 Consensus size: 88
9252862 GGACCCACTA
*
9252872 TCTTTGATCTACTTCATGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
9252937 AGTATAGGGAGACAAGATCTGTT
66 AGTATAGGGAGACAAGATCTGTT
*** * ** * * * * * *
9252960 TCTTTGATCTACTTCACGCCAGTATGGGAAGATAAAATATG-TATATTCGATCC-ACTTCGCTAC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGA-CCTACTCCACCAC
* * *
9253023 CAATATAGGAAGACAGGA-CT-TACT
65 CAGTATAGGGAGACAAGATCTGT--T
9253047 ATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCAC
1 -TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCAC
*
9253112 CAGTATGGGGAGACAAGATCTGTT
65 CAGTATAGGGAGACAAGATCTGTT
*
9253136 TCTTTGATCTGCTTC
1 TCTTTGATCTACTTC
9253151 GCCACCAGCA
Statistics
Matches: 150, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
85 1 0.01
86 2 0.01
87 30 0.20
88 85 0.57
89 29 0.19
90 2 0.01
91 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (88 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
AGTATAGGGAGACAAGATCTGTT
Found at i:9253157 original size:44 final size:43
Alignment explanation
Indices: 9252872--9253177 Score: 175
Period size: 44 Copynumber: 7.0 Consensus size: 43
9252862 GGACCCACTA
*** * * *
9252872 TCTTTGATCTACTTCATGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTG-TT
* * * *
9252916 TCTTCGACCTACTCCACCACCAGTATAGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTGTT
* * * * * * *
9252960 TCTTTGATCTACTTCACGCCAGTATGGGAAGATAAAATATGTA
1 TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTGTT
* * * * * *
9253003 TATTCGATCCACTTCGCTACCAATATAGGAAGACAGGA-CT-TACT
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTGT--T
* * * * *
9253047 ATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 -TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTG-TT
* * * * *
9253092 TCTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTGTT
* * * * *
9253136 TCTTTGATCTGCTTCGCCACCAGCATGGGGAGGCAAGATCTG
1 TCTTTGATCTACTTC-CCACCAGTATAGGAAGACAAGATCTG
9253178 ATATCTTCCA
Statistics
Matches: 192, Mismatches: 61, Indels: 18
0.71 0.23 0.07
Matches are distributed among these distances:
42 1 0.01
43 33 0.17
44 104 0.54
45 53 0.28
47 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTTTGATCTACTTCCCACCAGTATAGGAAGACAAGATCTGTT
Found at i:9267506 original size:75 final size:74
Alignment explanation
Indices: 9267377--9267521 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 74
9267367 ATCGGATTTG
* *
9267377 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATATTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAAC
9267442 TTGAGAAAA
66 TTGAGAAAA
* ** * *
9267451 AAAAAGGGGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGAGATCGTTTAAAA
1 AAAAA-GGGATCATGCCCAGTAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAA
9267516 CTTGAG
65 CTTGAG
9267522 TTTGAAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 5 0.08
75 58 0.92
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (74 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATATCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAGAAAA
Found at i:9267815 original size:13 final size:13
Alignment explanation
Indices: 9267797--9267833 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
9267787 GTAAATAAAT
9267797 AAATGAATAAAGA
1 AAATGAATAAAGA
9267810 AAATGAATAAAGA
1 AAATGAATAAAGA
9267823 AAATGAATAAA
1 AAATGAATAAA
9267834 AATATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (13 bp):
AAATGAATAAAGA
Found at i:9267864 original size:14 final size:14
Alignment explanation
Indices: 9267845--9267877 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9267835 ATATAAAAAG
9267845 ATATATAAGTATGT
1 ATATATAAGTATGT
*
9267859 ATATATATGTATGT
1 ATATATAAGTATGT
9267873 ATATA
1 ATATA
9267878 AATAAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (14 bp):
ATATATAAGTATGT
Found at i:9268271 original size:3 final size:3
Alignment explanation
Indices: 9268265--9268353 Score: 101
Period size: 3 Copynumber: 29.3 Consensus size: 3
9268255 TAATATTATC
* * *
9268265 AAT AAT AAT AGT AAT AAT AAA AAT ACT AAT AAT AAT GGAAGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --AA-T AAT AAT
*
9268313 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA- AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9268354 TTTATTAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.05
3 65 0.88
4 2 0.03
5 2 0.03
6 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:9269716 original size:19 final size:19
Alignment explanation
Indices: 9269692--9269728 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9269682 CTCTGTCGCC
9269692 GGATTAGGATTACGGAGTA
1 GGATTAGGATTACGGAGTA
9269711 GGATTAGGATTACGGAGT
1 GGATTAGGATTACGGAGT
9269729 GTTACAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.27
Consensus pattern (19 bp):
GGATTAGGATTACGGAGTA
Found at i:9283307 original size:30 final size:29
Alignment explanation
Indices: 9283273--9283337 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
9283263 TAATCCACCA
9283273 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
9283303 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
9283333 CCCAA
1 CCCAA
9283338 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:9283311 original size:31 final size:30
Alignment explanation
Indices: 9283280--9283337 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9283270 CCACCCAACT
9283280 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
9283310 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
9283338 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:9284452 original size:32 final size:32
Alignment explanation
Indices: 9284394--9284454 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
9284384 TTAGATATTG
**
9284394 ATTATGTTTTAAGCTTGCTATCTATTGAATTT
1 ATTATGTTTTAAGCTTGCTAGATATTGAATTT
* *
9284426 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGCTAGATATTGAA
9284455 ATGATTGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGCTAGATATTGAATTT
Found at i:9285652 original size:18 final size:18
Alignment explanation
Indices: 9285631--9285675 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
9285621 ACAATTTAAA
9285631 ATATAAATTTAATAATAT
1 ATATAAATTTAATAATAT
*
9285649 ATATGTAAATTTATTAATAT
1 ATA--TAAATTTAATAATAT
*
9285669 ATGTAAA
1 ATATAAA
9285676 AACAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
ATATAAATTTAATAATAT
Found at i:9285779 original size:19 final size:20
Alignment explanation
Indices: 9285755--9285796 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
9285745 TAAACACCAA
*
9285755 AAAAGTAAATTA-TTTCCAG
1 AAAAGTAAATCATTTTCCAG
9285774 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCATTTTCCAG
9285794 AAA
1 AAA
9285797 TCATTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCCAG
Found at i:9285799 original size:14 final size:14
Alignment explanation
Indices: 9285780--9285817 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
9285770 CCAGAAAAGT
9285780 AAATCATTTTCCAG
1 AAATCATTTTCCAG
9285794 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
9285808 AAAACATTTT
1 AAATCATTTT
9285818 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:9292539 original size:16 final size:16
Alignment explanation
Indices: 9292518--9292548 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9292508 TGAAAATGCT
*
9292518 GTATTTGGCTTTCAAA
1 GTATTTGCCTTTCAAA
9292534 GTATTTGCCTTTCAA
1 GTATTTGCCTTTCAA
9292549 CAGCTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (16 bp):
GTATTTGCCTTTCAAA
Found at i:9299110 original size:17 final size:17
Alignment explanation
Indices: 9299088--9299123 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9299078 CGATTGCATG
9299088 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
9299105 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
9299122 TT
1 TT
9299124 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:9299514 original size:32 final size:34
Alignment explanation
Indices: 9299451--9299514 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
9299441 TCTAATAATT
* *
9299451 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
9299485 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
9299515 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:9300407 original size:22 final size:21
Alignment explanation
Indices: 9300382--9300427 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
9300372 AAATTGTTGC
* *
9300382 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
9300404 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
9300425 ATT
1 ATT
9300428 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:9300441 original size:23 final size:23
Alignment explanation
Indices: 9300413--9300496 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
9300403 GATTTGTTCT
9300413 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
9300436 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
9300459 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
9300482 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
9300497 TGTTTATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:9304430 original size:17 final size:17
Alignment explanation
Indices: 9304405--9304438 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9304395 ATTATTTTAA
*
9304405 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
9304422 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
9304439 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:9304440 original size:15 final size:16
Alignment explanation
Indices: 9304405--9304443 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
9304395 ATTATTTTAA
*
9304405 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
9304422 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
9304437 ATTTAAT
1 ATTTAAT
9304444 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:9304447 original size:17 final size:18
Alignment explanation
Indices: 9304409--9304448 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
9304399 TTTTAAATTT
*
9304409 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
9304427 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
9304443 TATTAA
1 TATTAA
9304449 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:9304558 original size:16 final size:16
Alignment explanation
Indices: 9304537--9304578 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9304527 TTATTAAATT
*
9304537 ATATATTTTAATTATA
1 ATATATTTTAATAATA
9304553 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
9304568 AT-TATGTTTAA
1 ATATAT-TTTAA
9304579 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:9304563 original size:15 final size:15
Alignment explanation
Indices: 9304528--9304569 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9304518 TTAAGAATTT
*
9304528 TATTAAATTAT-ATA
1 TATTTAATTATAATA
9304542 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
9304556 TATTTAATAATAAT
1 TATTTAATTATAAT
9304570 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:9304685 original size:157 final size:157
Alignment explanation
Indices: 9304511--9304821 Score: 586
Period size: 157 Copynumber: 2.0 Consensus size: 157
9304501 TATAAGAATA
*
9304511 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
*
9304576 TAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACA
66 TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
9304641 ATAATAATCTACCAAAACAAATTTCTG
131 ATAATAATCTACCAAAACAAATTTCTG
9304668 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
9304733 TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
66 TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
9304798 ATAATCATTTACCAAAACAAATTT
131 ATAATAATCTACCAAAACAAATTT
9304822 ATGCTAAGGG
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
ATAATAATCTACCAAAACAAATTTCTG
Found at i:9304709 original size:18 final size:17
Alignment explanation
Indices: 9304681--9304715 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9304671 ATTATTAAGA
*
9304681 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9304698 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9304716 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9304998 original size:16 final size:16
Alignment explanation
Indices: 9304951--9305001 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
9304941 GATTTGCTAT
* *
9304951 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
9304967 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9304983 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9304999 TAC
1 TAC
9305002 TGCGAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9308063 original size:94 final size:94
Alignment explanation
Indices: 9307929--9308159 Score: 282
Period size: 94 Copynumber: 2.5 Consensus size: 94
9307919 TTAGTGTCAC
* * * **
9307929 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGTAGTTTCCTTCCGACC
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
* * * *
9307994 CACTACAACTTTAGGGGTATATGATTTGT
66 CACTACAACTTAAGAGGTATAGGATTTAT
* * *
9308023 AGTTTCATCTTACTCTATTGCAACTTCAAGGAGATAAGATTTACTATGGTAGTTTCAATCCGACC
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
* * *
9308088 CACTGCAAGTTAAGAGGTATAGGGTTTAT
66 CACTACAACTTAAGAGGTATAGGATTTAT
* * * * *
9308117 AGCTTCATCTTGCTCCAATGCATCTTTAGGGAGATAAGATTTG
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTG
9308160 ATATTATAAC
Statistics
Matches: 114, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (94 bp):
AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGTTTCAATCCGACC
CACTACAACTTAAGAGGTATAGGATTTAT
Found at i:9308198 original size:50 final size:51
Alignment explanation
Indices: 9308129--9308299 Score: 132
Period size: 44 Copynumber: 3.6 Consensus size: 51
9308119 CTTCATCTTG
* * *
9308129 CTCCAATGCATCTTTAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
* * * *
9308180 -TCCATTGCAACTTCAGGGATAT-AG----GAT-TTATAGC-TTCATCTT-A
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGAT-TTGA
* * * *
9308223 CTCCACTACATCTTCAGAGAGATAAGATTTGATATTATAATTTTGA---GA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
* *
9308271 TTCCACTGCAACTTCAGGGACATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
9308300 CGCCATTCTA
Statistics
Matches: 91, Mismatches: 19, Indels: 23
0.68 0.14 0.17
Matches are distributed among these distances:
43 5 0.05
44 25 0.27
45 5 0.05
48 25 0.27
49 5 0.05
50 23 0.25
51 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (51 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATTTGA
Found at i:9308210 original size:94 final size:92
Alignment explanation
Indices: 9308087--9308299 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 92
9308077 TCAATCCGAC
* * * * * * *
9308087 CCACTGCAAGTTAAGAGG-TATAGGGTTTATAGCTTCATCTTGCTCCAATGCATCTTTAGGGAGA
1 CCACTGCAACTTCAG-GGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGA
9308151 TAAGATTTGATATTATAACTTTGATTTGA-T
65 TAAGATTTGATATTATAACTTTGA---GATT
* *
9308181 CCATTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCACTACATCTTCAGAGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGAT
*
9308246 AAGATTTGATATTATAATTTTGAGATT
66 AAGATTTGATATTATAACTTTGAGATT
* *
9308273 CCACTGCAACTTCAGGGACATAAGATT
1 CCACTGCAACTTCAGGGATATAGGATT
9308300 CGCCATTCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 25 0.24
93 2 0.02
94 75 0.72
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (92 bp):
CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCAATACATCTTCAGAGAGAT
AAGATTTGATATTATAACTTTGAGATT
Found at i:9308555 original size:44 final size:44
Alignment explanation
Indices: 9308483--9308918 Score: 206
Period size: 44 Copynumber: 9.4 Consensus size: 44
9308473 AGATTCGCCA
* *
9308483 TTGTAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGAT
1 TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* *
9308527 TTGTAGCTTCAATCTG-CTCCATTGCAACTTCAGGGAG-ATAAGAT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG-GTATAGGAT
* *
9308571 TCGCAATGGTAACTTCAATTTGACCCACTGCAACTTCAGGGGTATAGGAT
1 T-----T-GTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
* * * *
9308621 TTGTAGCTTCAATCT-ACTCTACTGCAACTTCAGGGAAATAATATTTGCT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG--GT-ATA--GGAT
* * * * * *
9308670 ATGGTAGATTTAAT-TTATCCCACTGTAACTTCAAGGGTATAGGAT
1 -TTGTAGCTTCAATCTGA-CCCACTGCAACTTCAGGGGTATAGGAT
* * * *
9308715 TTATGGCTTCAATCTG-CTCCACTGCAACTTTAGGGAGT-TAAGATT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTCAGGG-GTATAGGA-T
* * * * *
9308760 CGCTATGGTAGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATGAT
1 ---T-T-GTAGCTTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGAT
* * * *
9308809 TTTTAGCTTCAATCTG-CTCCACTACAACTTCAAGGAG-ATAAGATTCCT
1 TTGTAGCTTCAATCTGAC-CCACTGCAACTTC-AGGGGTATAGGA----T
* * * *
9308857 TATAGTAGATTCAATCCGACCTACTGCAACTTCAGGGATATAGGAT
1 T-T-GTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
*
9308903 TTGTAGCTTTAATCTG
1 TTGTAGCTTCAATCTG
9308919 CTTTACTGCA
Statistics
Matches: 292, Mismatches: 58, Indels: 84
0.67 0.13 0.19
Matches are distributed among these distances:
43 5 0.02
44 125 0.43
45 15 0.05
46 4 0.01
47 6 0.02
48 4 0.01
49 14 0.05
50 115 0.39
51 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGAT
Found at i:9308588 original size:94 final size:94
Alignment explanation
Indices: 9308422--9309085 Score: 746
Period size: 94 Copynumber: 7.1 Consensus size: 94
9308412 CCGACCCACT
* * * * * *
9308422 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATTG
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGG
*
9308486 TAGATTCAATCTGACCCACTACAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
* *
9308516 GGGTATAGGATTTGTAGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGCAATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
*
9308581 A-ACTTCAATTTGACCCACTGCAACTTCAG
66 AGA-TTCAATCTGACCCACTGCAACTTCAG
* * * * *
9308610 GGGTATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * * *
9308675 AGATTTAAT-TTATCCCACTGTAACTTCAA
66 AGATTCAATCTGA-CCCACTGCAACTTCAG
* * * *
9308704 GGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * *
9308769 AGATTTAAT-TCGACCCACTGTAACTTTAG
66 AGATTCAATCT-GACCCACTGCAACTTCAG
* * * * *
9308798 GGGTATATGATTTTTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTC-CTTATAG
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC-TATGG
* *
9308862 TAGATTCAATCCGACCTACTGCAACTTCAG
65 TAGATTCAATCTGACCCACTGCAACTTCAG
* * ** ** * * *
9308892 GGATATAGGATTTGTAGCTTTAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTCACTACGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* * * *
9308957 AGATTTAATCTGATCTACTGCAACTT-AA
66 AGATTCAATCTGACCCACTGCAACTTCAG
* * ** * * *
9308985 AGGTATAGGATTTGTAGCTTAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
* *
9309050 AGATTCAATCTGACCTACTACAACTTCAG
66 AGATTCAATCTGACCCACTGCAACTTCAG
9309079 GGGTATA
1 GGGTATA
9309086 AGAATTATGG
Statistics
Matches: 481, Mismatches: 80, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
93 78 0.16
94 397 0.83
95 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (94 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT
AGATTCAATCTGACCCACTGCAACTTCAG
Found at i:9308608 original size:50 final size:48
Alignment explanation
Indices: 9308451--9308903 Score: 158
Period size: 50 Copynumber: 9.6 Consensus size: 48
9308441 TCATCTTGCT
* *
9308451 CCACTGTAACTTCAGGAAGATAAGATTCGCCATTGTAGA-TTCAATCTGAC
1 CCACTGCAACTTCAGGGAGATAAGATTCG-CA-TGTA-ACTTCAATCTGAC
* * *
9308501 CCACTACAACTTCAGGG-GTATAGGATT----TGTAGCTTCAATCTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGCATGTAACTTCAATCTGAC
* *
9308544 TCCATTGCAACTTCAGGGAGATAAGATTCGCAATGGTAACTTCAATTTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC-AT-GTAACTTCAATCTGAC
* *
9308595 CCACTGCAACTTCAGGG-GTATAGGATT----TGTAGCTTCAATCT-AC
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGCATGTAACTTCAATCTGAC
* * * * * *
9308638 TCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGA-TTTAAT-TTATC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC-AT-GTA-ACTTCAATCTGA-C
* * * * *
9308689 CCACTGTAACTTCAAGGG-TATAGGATT--TATG--GCTTCAATCTG-C
1 CCACTGCAACTTC-AGGGAGATAAGATTCGCATGTAACTTCAATCTGAC
* * *
9308732 TCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGTAGA-TTTAAT-TCGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC-AT-GTA-ACTTCAATCT-GAC
* * * * *
9308783 CCACTGTAACTTTAGGG-GTATATGATT----TTTAGCTTCAATCTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTCGCATGTAACTTCAATCTGAC
* * *
9308826 TCCACTACAACTTCAAGGAGATAAGATTC-CTTATAGTAGA-TTCAATCCGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTCGC--AT-GTA-ACTTCAATCTGAC
* * *
9308877 CTACTGCAACTTCAGGGATATAGGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
9308904 TGTAGCTTTA
Statistics
Matches: 297, Mismatches: 56, Indels: 100
0.66 0.12 0.22
Matches are distributed among these distances:
43 9 0.03
44 118 0.40
45 6 0.02
46 1 0.00
47 4 0.01
48 1 0.00
49 8 0.03
50 142 0.48
51 8 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (48 bp):
CCACTGCAACTTCAGGGAGATAAGATTCGCATGTAACTTCAATCTGAC
Found at i:9308829 original size:282 final size:281
Alignment explanation
Indices: 9308422--9309085 Score: 852
Period size: 282 Copynumber: 2.4 Consensus size: 281
9308412 CCGACCCACT
* * * * *
9308422 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATTG
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGG
* *
9308486 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCATTG
65 TAGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTA
* * ** *
9308551 CAACTTCAGGGAGATAAGATTCGC-AATGGTA-ACTTCAATTTGACCCACTGCAACTTCAGGGGT
130 CAACTTCAAGGAGATAAGATTC-CTAATAGTAGA-TTCAATCCGACCCACTGCAACTTCAGGGAT
** * ** *
9308614 ATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGAT
193 ATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTACGGTAGAT
* *
9308679 TTAAT-TTATCCCACTGTAACTTCAA
258 TTAATCTGAT-CCACTGCAACTT-AA
* * * * *
9308704 GGGTATAGGATTTATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
* ** * * *
9308769 AGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATGATTTTTAGCTTCAATCTGCTCCACTA
66 AGATTCAATCT-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTA
* *
9308833 CAACTTCAAGGAGATAAGATTCCTTATAGTAGATTCAATCCGACCTACTGCAACTTCAGGGATAT
130 CAACTTCAAGGAGATAAGATTCCTAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATAT
* * * *
9308898 AGGATTTGTAGCTTTAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTCACTACGGTAGATTT
195 AGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTACGGTAGATTT
*
9308963 AATCTGATCTACTGCAACTTAA
260 AATCTGATCCACTGCAACTTAA
* * * *
9308985 AGGTATAGGATTTGTAGCTTAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
*
9309050 AGATTCAATCTGACCTACTACAACTTCAGGGGTATA
66 AGATTCAATCTGACCCACTACAACTTCAGGGGTATA
9309086 AGAATTATGG
Statistics
Matches: 325, Mismatches: 51, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
281 89 0.27
282 229 0.70
283 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (281 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
AGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTAC
AACTTCAAGGAGATAAGATTCCTAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATATA
GGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCACTACGGTAGATTTA
ATCTGATCCACTGCAACTTAA
Found at i:9317470 original size:18 final size:19
Alignment explanation
Indices: 9317444--9317485 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
9317434 TATCTATTTA
* * *
9317444 TCATAATTA-TGATTAATT
1 TCATTATTATTGAGTAATG
9317462 TCATTATTATTGAGTAATG
1 TCATTATTATTGAGTAATG
9317481 TCATT
1 TCATT
9317486 GTATAGCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (19 bp):
TCATTATTATTGAGTAATG
Found at i:9320979 original size:17 final size:16
Alignment explanation
Indices: 9320952--9320983 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9320942 ATTTACTTAG
9320952 TTTGTTATATATTTGT
1 TTTGTTATATATTTGT
9320968 TTTGTATATATATTTG
1 TTTGT-TATATATTTG
9320984 ATTGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTTGTTATATATTTGT
Found at i:9326261 original size:31 final size:29
Alignment explanation
Indices: 9326191--9326270 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
9326181 ATTTGTCACT
* * **
9326191 TTTTTAAAGTTTAGTGACTGAGTTGTAAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
9326220 TTTTCAAAGTTCAGTGACTGAAATGTTAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
9326249 TTTAATCAAAGTTGAGTGACTG
1 TTT--TCAAAGTTCAGTGACTG
9326271 GTAGAACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 27 0.63
31 16 0.37
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTTCAAAGTTCAGTGACTGAAATGTAAC
Found at i:9332447 original size:25 final size:26
Alignment explanation
Indices: 9332391--9332458 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
9332381 GGTCACCGAT
*
9332391 TTCAGCTCTTATGAGCTTCCCGATAC
1 TTCAGCTCATATGAGCTTCCCGATAC
*
9332417 TT-AGCTCGTATGAGCTTCCC-ATTA-
1 TTCAGCTCATATGAGCTTCCCGA-TAC
*
9332441 TTCAGCTCACATGAGCTT
1 TTCAGCTCATATGAGCTT
9332459 TCTGTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.08
25 32 0.86
26 2 0.05
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (26 bp):
TTCAGCTCATATGAGCTTCCCGATAC
Found at i:9333190 original size:25 final size:25
Alignment explanation
Indices: 9333128--9333178 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9333118 AATGAAAGAA
9333128 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
9333153 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
9333178 A
1 A
9333179 TGTGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (25 bp):
AGTAAAATGTGGTTTGAATATGCAT
Found at i:9335348 original size:26 final size:26
Alignment explanation
Indices: 9335317--9335412 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
9335307 GGTAGATTCG
*
9335317 AAGAGCCATTAATCGGGAAGGTTACA
1 AAGAGCCATTAATCGGGAAGGTCACA
* *
9335343 AAGAGCCTTTAATTGGGAAGGTCACA
1 AAGAGCCATTAATCGGGAAGGTCACA
* * * *
9335369 AAAAGCCTTTAATCGAGAAGCTCACA
1 AAGAGCCATTAATCGGGAAGGTCACA
9335395 AAGAGCCA-TATATCGGGA
1 AAGAGCCATTA-ATCGGGA
9335413 CGCTTATAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 2 0.03
26 57 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAAGGTCACA
Found at i:9339373 original size:312 final size:311
Alignment explanation
Indices: 9338778--9339376 Score: 1006
Period size: 312 Copynumber: 1.9 Consensus size: 311
9338768 TTTTTTAAGG
*
9338778 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGGT
1 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
9338843 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
66 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
* * *
9338908 CATGGATGACTGATAACACACTGAGGCATTATCTCTTGTATATTCATTATACTAGAAAGTGTTTT
131 CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
*
9338973 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGATTTGTGAGCAATTGTTCCTTG
196 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
* *
9339038 CTTTTTTAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
261 CATTTATAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
* *
9339089 CATTGAGGGATAGACGAGGTAGTGCTGTAGCTAAGACAAATGTTATTGGATTCATGTGCATATGA
1 CATTGAGGGATAGACGAGATAG-GCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGA
* * *
9339154 TTTGTTGAAGTTTTCTGTGTTAATGTAGTTGATAT-TCTGGGTAATAGCTACTTATTGGCTAGGT
65 TGTGTTGAAGTTGTCTGTGTTAATGTAGTTGAT-TGTCTGGGTAATAGCTACTTATTGGCAAGGT
*
9339218 AACATGGATTACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGGAAACT-T
129 AACATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTA-GAAACTGT
*
9339282 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTTC
193 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCC
*
9339347 TTGCATTTATGAAAAATCAG-TGTGTTCATA
258 TTGCATTTATAAAAAAT-AGTTGTGTTCATA
9339377 TTATTATACA
Statistics
Matches: 269, Mismatches: 15, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
311 21 0.08
312 240 0.89
313 8 0.03
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (311 bp):
CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
CATTTATAAAAAATAGTTGTGTTCATAATTTTCATTGTTATTATACATGCA
Found at i:9341853 original size:13 final size:13
Alignment explanation
Indices: 9341835--9341861 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9341825 GTTTTTGAAA
9341835 TATTTTCTAATTT
1 TATTTTCTAATTT
9341848 TATTTTCTAATTT
1 TATTTTCTAATTT
9341861 T
1 T
9341862 TTCAAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTCTAATTT
Found at i:9356491 original size:28 final size:28
Alignment explanation
Indices: 9356410--9356511 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 28
9356400 TTGATTTTCG
* * *
9356410 ACACTAAGTGTGCGAATTTAATTGTGAG
1 ACACTAAGTGTGCGAGTTTAATTGTAAA
*
9356438 GCACTAAGT-TGCGAGTTTAATTGTAAA
1 ACACTAAGTGTGCGAGTTTAATTGTAAA
*
9356465 ACACTAAGTGTGCGAGTTTAATGGTAAA
1 ACACTAAGTGTGCGAGTTTAATTGTAAA
* *
9356493 GCACTAAGTGTGTGAGTTT
1 ACACTAAGTGTGCGAGTTT
9356512 GATTATTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 23 0.35
28 42 0.65
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
ACACTAAGTGTGCGAGTTTAATTGTAAA
Found at i:9357291 original size:23 final size:24
Alignment explanation
Indices: 9357261--9357980 Score: 272
Period size: 23 Copynumber: 30.8 Consensus size: 24
9357251 TTTTTATGCT
9357261 TAAATGCTGCCCAATTTGTGGT-AA
1 TAAATGCTGCCCAATTT-TGGTGAA
* *
9357285 T-TATGCTGCCTAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
*
9357308 TAAATGCTGCCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
9357331 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * * *
9357354 TAAGTACTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
9357377 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
9357401 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
9357424 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * * *
9357447 TAAGTACTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
**
9357470 TGTATGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
*
9357494 TAAATGCTGTCCAATTTT-GT--A
1 TAAATGCTGCCCAATTTTGGTGAA
* *
9357515 TACACATGCTGTCAAATTTTGGTGAA
1 TA-A-ATGCTGCCCAATTTTGGTGAA
* *
9357541 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
9357564 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
9357587 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
** *
9357610 TGTACGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
9357634 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
9357657 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
9357680 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
** *
9357703 TGTACGCTGCCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
9357727 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* ** * *
9357750 TACATGCTATCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
9357773 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
*** *
9357796 TGTGTGCTACCCAATTTTGGTGAA
1 TAAATGCTGCCCAATTTTGGTGAA
* *
9357820 TAAATGCTGTCCAATTTT-G-CATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
9357843 TACATGCTGTCAAATTTT-GTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
* * *
9357866 TAAGTGCTGTCCAA-ATTGGT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
*
9357889 TATATATGCTGCCTAATTTTGGTGAA
1 TA-A-ATGCTGCCCAATTTTGGTGAA
* *
9357915 TAAATGTTGTCCAATTTT-GT-ATA
1 TAAATGCTGCCCAATTTTGGTGA-A
* * * *
9357938 TACATGCTGTCAAATTTTGGTGTA
1 TAAATGCTGCCCAATTTTGGTGAA
*
9357962 TAAATGCTGTCCAATTTTG
1 TAAATGCTGCCCAATTTTG
9357981 TATATATATA
Statistics
Matches: 516, Mismatches: 132, Indels: 96
0.69 0.18 0.13
Matches are distributed among these distances:
21 3 0.01
22 24 0.05
23 297 0.58
24 165 0.32
25 15 0.03
26 11 0.02
27 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (24 bp):
TAAATGCTGCCCAATTTTGGTGAA
Found at i:9357609 original size:93 final size:94
Alignment explanation
Indices: 9357287--9357989 Score: 797
Period size: 93 Copynumber: 7.5 Consensus size: 94
9357277 TGTGGTAATT
* * * * * * * * *
9357287 ATGCTGCCTAATTTTGGTGAATAAATGCTGCCCAATTTTGCATATACATGCTGTCAAATTTT-GT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
* * * * * * **
9357351 GTATAAGTACTGTCCAAATTGGTATATGT
66 GAATAAATGCTGTCCAATTTTGCATATAC
* * * * * * * *
9357380 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
* * * * * * **
9357444 GTATAAGTACTGTCCAAATTGGTATATGT
66 GAATAAATGCTGTCCAATTTTGCATATAC
* * * * * * * *
9357473 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATACACATGCTGTCAAATTTTGGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
9357538 GAATAAATGCTGTCCAATTTTGCATATAC
66 GAATAAATGCTGTCCAATTTTGCATATAC
* * * *
9357567 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTACGCTGCCCAATTTTGGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
9357631 GAATAAATGCTGTCCAATTTTGCATATAC
66 GAATAAATGCTGTCCAATTTTGCATATAC
* * * *
9357660 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTACGCTGCCCAATTTTGGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
9357724 GAATAAATGCTGTCCAATTTTGCATATAC
66 GAATAAATGCTGTCCAATTTTGCATATAC
* * * * * *
9357753 ATGCTATCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTGTGCTACCCAATTTTGGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
9357817 GAATAAATGCTGTCCAATTTTGCATATAC
66 GAATAAATGCTGTCCAATTTTGCATATAC
* *
9357846 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATATGCTGCCTAATTTTG
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGG--TATATATATGCTGCCAAATTTTG
* *
9357910 GTGAATAAATGTTGTCCAATTTTGTATATAC
64 GTGAATAAATGCTGTCCAATTTTGCATATAC
* *
9357941 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATAT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATAT
9357990 ATATGCTGCT
Statistics
Matches: 568, Mismatches: 38, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
93 439 0.77
94 45 0.08
95 63 0.11
96 21 0.04
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (94 bp):
ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGT
GAATAAATGCTGTCCAATTTTGCATATAC
Found at i:9357668 original size:233 final size:233
Alignment explanation
Indices: 9357287--9357984 Score: 914
Period size: 233 Copynumber: 3.0 Consensus size: 233
9357277 TGTGGTAATT
* * *
9357287 ATGCTGCCTAATTTTGGTGAATAAATGCTGCCCAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
*
9357352 TATAAGTACTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
66 TATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
*
9357417 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTACTGTCCAAATTGGTATATGTATGCTGCCC
131 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCC
9357482 AATTTTGGTGAATAAATGCTGTCCAATTTTGTATACAC
196 AATTTTGGTGAATAAATGCTGTCCAATTTTGTATACAC
9357520 ATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
*
9357585 TATAAGTGCTGTCCAAATTGGTATATGTACGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
66 TATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
*
9357650 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTACGCTGCCC
131 TTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCC
* *
9357715 AATTTTGGTGAATAAATGCTGTCCAATTTTGCATATAC
196 AATTTTGGTGAATAAATGCTGTCCAATTTTGTATACAC
* * * * * * *** ** *
9357753 ATGCTATCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTGTGCTACCCAATTTTGGT
1 ATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
* * * * * ** * * * *
9357817 GAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAA
65 GTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCC-AA
* ** * * * * * * * * **
9357881 TTGGTATATATATATGCTGCCTAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCT
129 TT-TTGCATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCT
* * *
9357946 GTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTATA
192 GCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATA
9357985 TATATATATG
Statistics
Matches: 410, Mismatches: 51, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
232 50 0.12
233 278 0.68
234 19 0.05
235 63 0.15
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (233 bp):
ATGCTGTCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
TATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
TTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCC
AATTTTGGTGAATAAATGCTGTCCAATTTTGTATACAC
Found at i:9358015 original size:27 final size:24
Alignment explanation
Indices: 9357807--9358024 Score: 93
Period size: 23 Copynumber: 9.0 Consensus size: 24
9357797 GTGTGCTACC
* *
9357807 CAATTTTGGTGAATA-AATGCTGT
1 CAATTTTGATGTATATAATGCTGT
*
9357830 CCAATTTTGCA--TATA-CATGCTGT
1 -CAATTTTG-ATGTATATAATGCTGT
*
9357853 CAAATTTTG-TGTATA-AGTGCTGT
1 C-AATTTTGATGTATATAATGCTGT
* * * *
9357876 CCAA-ATTGGTATATATATATGCTGC
1 -CAATTTTGATGTATATA-ATGCTGT
* * *
9357901 CTAATTTTGGTGAATA-AATGTTGT
1 C-AATTTTGATGTATATAATGCTGT
9357925 CCAA-TTT--TGTATATACATGCTGT
1 -CAATTTTGATGTATATA-ATGCTGT
*
9357948 CAAATTTTGGTGTATA-AATGCTGT
1 C-AATTTTGATGTATATAATGCTGT
*
9357972 CCAATTTTGTATATATATATATGCTGCT
1 -CAATTTTG-ATGTATATA-ATGCTG-T
*
9358000 CAATTTTTGATGTATA-AAAGCTGT
1 CAA-TTTTGATGTATATAATGCTGT
9358024 C
1 C
9358025 CAAACAGGGT
Statistics
Matches: 151, Mismatches: 20, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
21 5 0.03
22 6 0.04
23 45 0.30
24 37 0.25
25 21 0.14
26 16 0.11
27 15 0.10
28 6 0.04
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
CAATTTTGATGTATATAATGCTGT
Found at i:9359087 original size:20 final size:19
Alignment explanation
Indices: 9359061--9359111 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
9359051 TTGGAGCAGG
* *
9359061 AATATCGATACCTTAGGAA
1 AATATCGATACCATAAGAA
9359080 ATATATCGATACCATAAGAA
1 A-ATATCGATACCATAAGAA
9359100 AAGTATCGATAC
1 AA-TATCGATAC
9359112 TAGATTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (19 bp):
AATATCGATACCATAAGAA
Found at i:9359358 original size:22 final size:23
Alignment explanation
Indices: 9359331--9359373 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9359321 AAATTGCTCA
* *
9359331 ACTTTACTTTTTAT-TCAAAAAC
1 ACTTTAATTGTTATATCAAAAAC
9359353 ACTTTAATTGTTATATCAAAA
1 ACTTTAATTGTTATATCAAAA
9359374 CATATGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (23 bp):
ACTTTAATTGTTATATCAAAAAC
Found at i:9362175 original size:5 final size:5
Alignment explanation
Indices: 9362159--9362200 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
9362149 TCCCCTGGCC
* * *
9362159 CTATG CTCTG CTATG CTATG CTATG CTATG CCATG CCATG CT
1 CTATG CTATG CTATG CTATG CTATG CTATG CTATG CTATG CT
9362201 TTTTTGTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (5 bp):
CTATG
Found at i:9362622 original size:17 final size:18
Alignment explanation
Indices: 9362583--9362624 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9362573 TTTAATTATT
* *
9362583 TAAAAATAATAGACATTA
1 TAAAATTAATAGAAATTA
9362601 T-AAATTAATA-AAATTA
1 TAAAATTAATAGAAATTA
9362617 TAAAATTA
1 TAAAATTA
9362625 TATTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAATTAATAGAAATTA
Found at i:9362653 original size:22 final size:22
Alignment explanation
Indices: 9362614--9362656 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9362604 ATTAATAAAA
** *
9362614 TTATAAAATTATATTTTAATTC
1 TTATAAAAAAATAATTTAATTC
9362636 TTATAAAAAAATAATTTAATT
1 TTATAAAAAAATAATTTAATT
9362657 TTACAAGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAAAAAAATAATTTAATTC
Found at i:9365925 original size:29 final size:29
Alignment explanation
Indices: 9365888--9366048 Score: 115
Period size: 29 Copynumber: 5.3 Consensus size: 29
9365878 TTCAATGCTC
*
9365888 ACCACAAAGGCTTTCCTGTCCAGAGTTTT
1 ACCACAAAGGCTTTCCTGTCCAAAGTTTT
* * * * *
9365917 GCCACAAAGGCTTTTCTTTTCATATAGTACTT
1 ACCACAAAGGCTTTCCTGTCCA-A-AGT-TTT
* * *
9365949 ACCATAAAGGCTTTCTTGCCCAAAGTTTT
1 ACCACAAAGGCTTTCCTGTCCAAAGTTTT
* ** * * *
9365978 GCCACAAAATCTTTCCTTTTCATATAGTACTT
1 ACCACAAAGGCTTTCCTGTCCA-A-AGT-TTT
*
9366010 ACCACAAAGGCTTTCCTGTCCAAATTTTT
1 ACCACAAAGGCTTTCCTGTCCAAAGTTTT
*
9366039 TCCACAAAGG
1 ACCACAAAGG
9366049 GGTTCCTCTC
Statistics
Matches: 95, Mismatches: 31, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
29 45 0.47
30 6 0.06
31 8 0.08
32 36 0.38
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (29 bp):
ACCACAAAGGCTTTCCTGTCCAAAGTTTT
Found at i:9366024 original size:32 final size:32
Alignment explanation
Indices: 9365918--9366026 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 32
9365908 CAGAGTTTTG
*
9365918 CCACAAAGGCTTTTCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTTTTCATATAGTACTTA
* ** * *
9365950 CCATAAAGGCTTT-CTTGCCCA-A-AGT-TTTG
1 CCACAAAGGCTTTCCTT-TTCATATAGTACTTA
**
9365979 CCACAAAATCTTTCCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTTTTCATATAGTACTTA
9366011 CCACAAAGGCTTTCCT
1 CCACAAAGGCTTTCCT
9366027 GTCCAAATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
29 14 0.24
30 7 0.12
31 7 0.12
32 30 0.52
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.37
Consensus pattern (32 bp):
CCACAAAGGCTTTCCTTTTCATATAGTACTTA
Found at i:9366055 original size:61 final size:61
Alignment explanation
Indices: 9365796--9366048 Score: 251
Period size: 61 Copynumber: 4.2 Consensus size: 61
9365786 TAAGAGGTTC
* * * * * * * *
9365796 GCCATAAAGGCGTTCCTTTT-A-ATAGAAATTGCCACGAAGGCTTTTCTTGCCCAAAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGC-TTTCCTGTCCAAAGTTTT
* * ** * * * *
9365856 GCCACAGAGGCATTCCTTAACAT-TCAATGCTCACCACAAAGGCTTTCCTGTCCAGAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATAT-AGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
* * * *
9365917 GCCACAAAGGCTTTTCTTTTCATATAGTACTTACCATAAAGGCTTTCTTGCCCAAAGTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
** *
9365978 GCCACAAAATCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAATTTTT
1 GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
*
9366039 TCCACAAAGG
1 GCCACAAAGG
9366049 GGTTCCTCTC
Statistics
Matches: 152, Mismatches: 37, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
60 15 0.10
61 125 0.82
62 12 0.08
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (61 bp):
GCCACAAAGGCTTTCCTTTTCATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTT
Found at i:9369514 original size:25 final size:25
Alignment explanation
Indices: 9369465--9369514 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
9369455 TTTTCTATTA
*
9369465 ATTTTTATAAATTTTTATACTCTTT
1 ATTTTTATAAATTTTTATACACTTT
9369490 ATTTTTA-AATATTATTTA-ACACTTT
1 ATTTTTATAA-ATT-TTTATACACTTT
9369515 TATTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 16 0.73
26 4 0.18
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTATAAATTTTTATACACTTT
Found at i:9373410 original size:12 final size:13
Alignment explanation
Indices: 9373390--9373418 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9373380 TTAATTATTA
9373390 AATTAAAAATAAT
1 AATTAAAAATAAT
9373403 AATT-AAAATAAT
1 AATTAAAAATAAT
9373415 AATT
1 AATT
9373419 CAAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:9373865 original size:23 final size:23
Alignment explanation
Indices: 9373839--9373882 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9373829 CATTAAAGTA
9373839 TACGAGCCACACACACATAGTTC
1 TACGAGCCACACACACATAGTTC
* * *
9373862 TACGAGTCACGCATACATAGT
1 TACGAGCCACACACACATAGT
9373883 CCGTCATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (23 bp):
TACGAGCCACACACACATAGTTC
Found at i:9375272 original size:12 final size:13
Alignment explanation
Indices: 9375252--9375280 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9375242 TTAATTATTA
9375252 AATTAAAAATAAT
1 AATTAAAAATAAT
9375265 AATT-AAAATAAT
1 AATTAAAAATAAT
9375277 AATT
1 AATT
9375281 CAAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:9377302 original size:29 final size:29
Alignment explanation
Indices: 9377230--9377352 Score: 88
Period size: 31 Copynumber: 4.1 Consensus size: 29
9377220 TTCAAAAAAT
* * *
9377230 TTTGGCC-TTATTTGAGCACTTTTATAAAGA
1 TTTGGCCATTATTTGACCA-TTTT-GAAAGG
* *
9377260 TTTGACCCTTATTTGACCATTTTGAAAGG
1 TTTGGCCATTATTTGACCATTTTGAAAGG
***
9377289 TTTGG-CATTCATTTTTGCACTTTTGTAAAGG
1 TTTGGCCATT-ATTTGACCA-TTTTG-AAAGG
* * *
9377320 TTAGGCCCTTATATGACCATTTTGAAAGG
1 TTTGGCCATTATTTGACCATTTTGAAAGG
9377349 TTTG
1 TTTG
9377353 ACCCTTATGT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
28 3 0.04
29 22 0.31
30 20 0.28
31 24 0.33
32 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (29 bp):
TTTGGCCATTATTTGACCATTTTGAAAGG
Found at i:9377357 original size:29 final size:29
Alignment explanation
Indices: 9377235--9377360 Score: 101
Period size: 29 Copynumber: 4.2 Consensus size: 29
9377225 AAAATTTTGG
* * *
9377235 CCTTATTTGAGCACTTTTATAAAGATTTGAC
1 CCTTATTTGACCA-TTTT-GAAAGGTTTGAC
*
9377266 CCTTATTTGACCATTTTGAAAGGTTTG-G
1 CCTTATTTGACCATTTTGAAAGGTTTGAC
* *** * *
9377294 CATTCATTTTTGCACTTTTGTAAAGGTTAGGC
1 CCTT-ATTTGACCA-TTTTG-AAAGGTTTGAC
*
9377326 CCTTATATGACCATTTTGAAAGGTTTGAC
1 CCTTATTTGACCATTTTGAAAGGTTTGAC
9377355 CCTTAT
1 CCTTAT
9377361 GTGAGCAACC
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
28 3 0.04
29 29 0.39
30 14 0.19
31 25 0.34
32 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (29 bp):
CCTTATTTGACCATTTTGAAAGGTTTGAC
Found at i:9390798 original size:8 final size:8
Alignment explanation
Indices: 9390785--9390809 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9390775 TTATGAAAAG
9390785 AAAGAATT
1 AAAGAATT
9390793 AAAGAATT
1 AAAGAATT
9390801 AAAGAATT
1 AAAGAATT
9390809 A
1 A
9390810 CTTTGAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AAAGAATT
Found at i:9396676 original size:11 final size:12
Alignment explanation
Indices: 9396651--9396676 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9396641 CTTAGATCTA
9396651 TTTTTCTTTGTT
1 TTTTTCTTTGTT
9396663 TTTTTCTTTGTT
1 TTTTTCTTTGTT
9396675 TT
1 TT
9396677 GCCTACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTGTT
Found at i:9401491 original size:3 final size:3
Alignment explanation
Indices: 9401483--9401551 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
9401473 TGTGAGAAGT
9401483 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
9401531 GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA
9401552 TTGGTAATCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9408234 original size:20 final size:20
Alignment explanation
Indices: 9408209--9408247 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9408199 TGCAATTTGG
9408209 TATCGATAC-CAATTAAAAAT
1 TATCGATACTC-ATTAAAAAT
9408229 TATCGATACTCATTAAAAA
1 TATCGATACTCATTAAAAA
9408248 AAATATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TATCGATACTCATTAAAAAT
Found at i:9413888 original size:72 final size:72
Alignment explanation
Indices: 9413766--9413902 Score: 186
Period size: 72 Copynumber: 1.9 Consensus size: 72
9413756 GTTTGAAAAC
* *
9413766 TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATACCTTTGAGAAACTTTTTTGGAGAAAC
1 TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATAACTTTGAGAAACTTGTTTGGAGAAAC
9413831 TGGAAAT
66 TGGAAAT
**** * *
9413838 TTAAAAACTAAATTTTTGAAAACTTAAATGTCTTGAGA-AACTTTGGGAAACTTGTTTGGAGAAA
1 TTAAAAACTAAATTTTTGAAAACTTAAACAAATT-ACATAACTTTGAGAAACTTGTTTGGAGAAA
9413902 C
65 C
9413903 AACTCAAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 54 0.96
73 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (72 bp):
TTAAAAACTAAATTTTTGAAAACTTAAACAAATTACATAACTTTGAGAAACTTGTTTGGAGAAAC
TGGAAAT
Found at i:9414167 original size:32 final size:33
Alignment explanation
Indices: 9414087--9414247 Score: 184
Period size: 32 Copynumber: 4.8 Consensus size: 33
9414077 TCACTTGTCT
* *
9414087 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCAC-CATCA
*
9414121 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTTTCCTGTTCACCATCA
* *
9414154 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCAC-CATCA
* *
9414188 TTTTGTTGCAGGGAATCTCTT-CTATTC-CCATCA
1 -TTTCTTGCAGGGAATCT-TTCCTGTTCACCATCA
*
9414221 TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCA
9414248 TGTATTATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
31 1 0.01
32 44 0.41
33 10 0.09
34 7 0.07
35 44 0.41
36 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACCATCA
Found at i:9414195 original size:67 final size:67
Alignment explanation
Indices: 9414087--9414257 Score: 263
Period size: 67 Copynumber: 2.6 Consensus size: 67
9414077 TCACTTGTCT
* * * *
9414087 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCT-TTCCTGTTCACA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTT-CTATTCACA
9414151 TCA
65 TCA
*
9414154 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTTCTATTCCCAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTTCTATTCACAT
9414219 CA
66 CA
* *
9414221 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
9414258 CTTTTTGGAC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
67 94 0.98
68 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTTCTATTCACAT
CA
Found at i:9415046 original size:448 final size:448
Alignment explanation
Indices: 9414211--9415107 Score: 1767
Period size: 448 Copynumber: 2.0 Consensus size: 448
9414201 AATCTCTTCT
9414211 ATTCCCATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTTCTTTTTGGACTTGGTGAT
1 ATTCCCATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTTCTTTTTGGACTTGGTGAT
9414276 GGTTACCGAAGTGGTATCATCTGCAAGATCCACCGTTTTGATTGAGGATGCCGGAGATTCATCTT
66 GGTTACCGAAGTGGTATCATCTGCAAGATCCACCGTTTTGATTGAGGATGCCGGAGATTCATCTT
9414341 CAGATTCGGAGTCCAATGAGCTGAGCATTTCAGCCATGAGTTTTTTGTATTCTTTTTTGGTATTG
131 CAGATTCGGAGTCCAATGAGCTGAGCATTTCAGCCATGAGTTTTTTGTATTCTTTTTTGGTATTG
*
9414406 GCTTGAGCTAACATTGCACTGGCTGTTGACTTTGCTTGAAGAAATTTTGCTGTGGTTTGATCCGG
196 GCTTGAGCTAACATTGCACTGGCTGTTGACTTTGCTTGAAGAAATTTTACTGTGGTTTGATCCGG
9414471 GGCTGCGGACTTACATAATCTTGGATTCTTGTTGAAAAAATTATCCAAATATTTTGAATCATATT
261 GGCTGCGGACTTACATAATCTTGGATTCTTGTTGAAAAAATTATCCAAATATTTTGAATCATATT
9414536 TCTCATCATTAAATTTGTCCCACCATTTAGTCCTGTAATTGCGAACTAATAATGGAATTCCAGTG
326 TCTCATCATTAAATTTGTCCCACCATTTAGTCCTGTAATTGCGAACTAATAATGGAATTCCAGTG
9414601 TGCTGGTCTTGCTCATAAGAATAATTCCATGAGACAATCCAGGAAATGCATAGTTTTG
391 TGCTGGTCTTGCTCATAAGAATAATTCCATGAGACAATCCAGGAAATGCATAGTTTTG
9414659 ATTCCCATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTTCTTTTTGGACTTGGTGAT
1 ATTCCCATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTTCTTTTTGGACTTGGTGAT
9414724 GGTTACCGAAGTGGTATCATCTGCAAGATCCACCGTTTTGATTGAGGATGCCGGAGATTCATCTT
66 GGTTACCGAAGTGGTATCATCTGCAAGATCCACCGTTTTGATTGAGGATGCCGGAGATTCATCTT
*
9414789 CAGATTCGGAGTCCAATGAGCTGAGCATTTCAGCCATGAGTTTTTTGTATTCTTTTTTGGTCTTG
131 CAGATTCGGAGTCCAATGAGCTGAGCATTTCAGCCATGAGTTTTTTGTATTCTTTTTTGGTATTG
9414854 GCTTGAGCTAACATTGCACTGGCTGTTGACTTTGCTTGAAGAAATTTTACTGTGGTTTGATCCGG
196 GCTTGAGCTAACATTGCACTGGCTGTTGACTTTGCTTGAAGAAATTTTACTGTGGTTTGATCCGG
9414919 GGCTGCGGACTTACATAATCTTGGATTCTTGTTGAAAAAATTATCCAAATATTTTGAATCATATT
261 GGCTGCGGACTTACATAATCTTGGATTCTTGTTGAAAAAATTATCCAAATATTTTGAATCATATT
9414984 TCTCATCATTAAATTTGTCCCACCATTTAGTCCTGTAATTGCGAACTAATAATGGAATTCCAGTG
326 TCTCATCATTAAATTTGTCCCACCATTTAGTCCTGTAATTGCGAACTAATAATGGAATTCCAGTG
*
9415049 TGTTGGTCTTGCTCATAAGAATAATTCCATGAGACAATCCAGGAAATGCATAGTTTTG
391 TGCTGGTCTTGCTCATAAGAATAATTCCATGAGACAATCCAGGAAATGCATAGTTTTG
9415107 A
1 A
9415108 GAAAAAATGG
Statistics
Matches: 446, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
448 446 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (448 bp):
ATTCCCATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTTCTTTTTGGACTTGGTGAT
GGTTACCGAAGTGGTATCATCTGCAAGATCCACCGTTTTGATTGAGGATGCCGGAGATTCATCTT
CAGATTCGGAGTCCAATGAGCTGAGCATTTCAGCCATGAGTTTTTTGTATTCTTTTTTGGTATTG
GCTTGAGCTAACATTGCACTGGCTGTTGACTTTGCTTGAAGAAATTTTACTGTGGTTTGATCCGG
GGCTGCGGACTTACATAATCTTGGATTCTTGTTGAAAAAATTATCCAAATATTTTGAATCATATT
TCTCATCATTAAATTTGTCCCACCATTTAGTCCTGTAATTGCGAACTAATAATGGAATTCCAGTG
TGCTGGTCTTGCTCATAAGAATAATTCCATGAGACAATCCAGGAAATGCATAGTTTTG
Found at i:9417536 original size:21 final size:22
Alignment explanation
Indices: 9417506--9417550 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
9417496 GAGCAAATTG
9417506 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
9417528 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
9417549 TT
1 TT
9417551 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:9422232 original size:35 final size:34
Alignment explanation
Indices: 9422193--9422461 Score: 334
Period size: 35 Copynumber: 8.0 Consensus size: 34
9422183 TTGTCTTTTC
* *
9422193 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT-TG
* * *
9422228 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
9422260 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
*
9422295 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * *
9422330 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
*
9422362 TTGCAGGGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* *
9422397 TTGCAGGGAATCTCTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
9422429 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
9422462 CTTTTTGGAC
Statistics
Matches: 207, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
32 74 0.36
33 13 0.06
34 13 0.06
35 107 0.52
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
Found at i:9422369 original size:102 final size:102
Alignment explanation
Indices: 9422188--9422451 Score: 426
Period size: 102 Copynumber: 2.6 Consensus size: 102
9422178 TTCACTTGTC
* * * * *
9422188 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
9422253 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
9422290 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
9422355 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
9422392 TTTTGTTGCAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
9422452 TGTATTATTT
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
99 25 0.16
100 6 0.04
102 122 0.80
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:9422459 original size:67 final size:68
Alignment explanation
Indices: 9422188--9422461 Score: 342
Period size: 67 Copynumber: 4.0 Consensus size: 68
9422178 TTCACTTGTC
* * * * *
9422188 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACG
*
9422251 CATCA
64 CATTA
* * *
9422256 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC-CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
9422320 CATTA
64 CATTA
* * *
9422325 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
9422389 TTA
66 TTA
* * *
9422392 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
9422456 TTA
66 TTA
9422459 TTT
1 TTT
9422462 CTTTTTGGAC
Statistics
Matches: 189, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
67 154 0.81
68 6 0.03
69 4 0.02
70 25 0.13
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
TTA
Found at i:9425292 original size:21 final size:22
Alignment explanation
Indices: 9425262--9425306 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
9425252 GAGCAAATTG
9425262 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
9425284 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
9425305 TT
1 TT
9425307 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:9425858 original size:17 final size:17
Alignment explanation
Indices: 9425836--9425890 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
9425826 TTTGGCCAAG
9425836 TATCGATATTTTTGGAA
1 TATCGATATTTTTGGAA
*** **
9425853 TATCGATACCCTTCAAA
1 TATCGATATTTTTGGAA
*
9425870 TATTGATATTTTTGGAA
1 TATCGATATTTTTGGAA
9425887 TATC
1 TATC
9425891 AAAGAAACTG
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (17 bp):
TATCGATATTTTTGGAA
Found at i:9430649 original size:50 final size:48
Alignment explanation
Indices: 9430562--9430661 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 48
9430552 ATTTTTCAAG
* *
9430562 TCATTTTCATTTTCATTATGGAGAAAATTTCATTCATTTCCAAATGATT
1 TCATTTTCATTTTCATTATGGAGAAAACTTCAATCATTTCCAAATG-TT
* *
9430611 TCATTTTCCATTTTCATTTTGGAGAAAACCTT-AATCATTTGCAAATGTT
1 TCATTTT-CATTTTCATTATGGAGAAAA-CTTCAATCATTTCCAAATGTT
9430660 TC
1 TC
9430662 TTATTTCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
49 11 0.24
50 32 0.71
51 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (48 bp):
TCATTTTCATTTTCATTATGGAGAAAACTTCAATCATTTCCAAATGTT
Found at i:9437233 original size:50 final size:50
Alignment explanation
Indices: 9437109--9437357 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
9437099 GATAATAACA
* * ** * *
9437109 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
9437160 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
9437210 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
9437260 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
9437315 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
9437358 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:9437287 original size:100 final size:104
Alignment explanation
Indices: 9437108--9437357 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
9437098 TGATAATAAC
**
9437108 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
9437173 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
9437210 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
9437273 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
9437315 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
9437358 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:9437473 original size:13 final size:13
Alignment explanation
Indices: 9437452--9437483 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9437442 GCTTGGATCA
*
9437452 TCATCAAATAAAT
1 TCATAAAATAAAT
9437465 TCATAAAATAAAT
1 TCATAAAATAAAT
9437478 TCATAA
1 TCATAA
9437484 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9439547 original size:25 final size:25
Alignment explanation
Indices: 9439513--9439562 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
9439503 TAGATTAGAT
9439513 TACTCATTTCTGAGGCGTTGTTGTC
1 TACTCATTTCTGAGGCGTTGTTGTC
*
9439538 TACTCGTTTCTGAGGCGTTGTTGTC
1 TACTCATTTCTGAGGCGTTGTTGTC
9439563 AACACCCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.10, C:0.20, G:0.26, T:0.44
Consensus pattern (25 bp):
TACTCATTTCTGAGGCGTTGTTGTC
Found at i:9445109 original size:21 final size:21
Alignment explanation
Indices: 9445085--9445142 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
9445075 TGATGCTGGG
9445085 AGGATGTCATTTGATGCACCA
1 AGGATGTCATTTGATGCACCA
* *
9445106 AGGATGTCTTTTGATGCAGCA
1 AGGATGTCATTTGATGCACCA
* *
9445127 AGAATGTCATGTGATG
1 AGGATGTCATTTGATG
9445143 ATCCCAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (21 bp):
AGGATGTCATTTGATGCACCA
Found at i:9448398 original size:17 final size:16
Alignment explanation
Indices: 9448370--9448409 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
9448360 ACAAGAAATT
9448370 ATAAAA-AAAATAAGA
1 ATAAAATAAAATAAGA
*
9448385 ATAATAATAAAATAATA
1 ATAA-AATAAAATAAGA
9448402 ATAAAATA
1 ATAAAATA
9448410 GGACTCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAAATAAAATAAGA
Found at i:9448400 original size:11 final size:11
Alignment explanation
Indices: 9448370--9448409 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
9448360 ACAAGAAATT
9448370 ATAAAA-AA-A
1 ATAAAATAATA
9448379 ATAAGAATAATA
1 ATAA-AATAATA
9448391 ATAAAATAATA
1 ATAAAATAATA
9448402 ATAAAATA
1 ATAAAATA
9448410 GGACTCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
10 2 0.07
11 17 0.61
12 5 0.18
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:9448531 original size:10 final size:9
Alignment explanation
Indices: 9448515--9448566 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
9448505 ATAATGATTA
9448515 TTTATAATT
1 TTTATAATT
9448524 TCTTATAATT
1 T-TTATAATT
9448534 TTTAGTAATT
1 TTTA-TAATT
*
9448544 ATTAT-ATT
1 TTTATAATT
9448552 TTTAATAATT
1 TTT-ATAATT
9448562 ATTTA
1 -TTTA
9448567 AGAAATTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 5 0.14
9 7 0.19
10 21 0.58
11 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:9448554 original size:18 final size:19
Alignment explanation
Indices: 9448526--9448564 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9448516 TTATAATTTC
*
9448526 TTATAATTTTTAGTAATTA
1 TTATAATTTTTAATAATTA
9448545 TTAT-ATTTTTAATAATTA
1 TTATAATTTTTAATAATTA
9448563 TT
1 TT
9448565 TAAGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATAATTTTTAATAATTA
Found at i:9450177 original size:33 final size:34
Alignment explanation
Indices: 9450129--9450217 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 34
9450119 ATATTCGAAT
*
9450129 AATTATAATTAAAATAAAATAAATAT-AAAATATA
1 AATTAGAA-TAAAATAAAATAAATATCAAAATATA
* * *
9450163 AA-TAGATTGAAAATAAAAT-AATATCTAAATTTA
1 AATTAGAAT-AAAATAAAATAAATATCAAAATATA
*
9450196 AATTAGAATAAACTAAAATAAA
1 AATTAGAATAAAATAAAATAAA
9450218 GCTTAAAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
32 6 0.13
33 30 0.67
34 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (34 bp):
AATTAGAATAAAATAAAATAAATATCAAAATATA
Found at i:9451178 original size:61 final size:61
Alignment explanation
Indices: 9451072--9451192 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
9451062 TAACACATGT
* ** *
9451072 TTATACGATGTGGGTTCACCTTTATGATGGTGCGAACCAACATCGTGCGGTCTCATAGAAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAAA
** * ** * *
9451133 TTATACGATGTGGGTTTGCCTATATGATGGAATGAACGTATATCGTGTAGTCTCATAGAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAA
9451193 GGGTACGCGA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (61 bp):
TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAAA
Found at i:9454385 original size:21 final size:21
Alignment explanation
Indices: 9454346--9454385 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9454336 GATAACTTAT
*
9454346 AATAATTACATTGTCAATTAG
1 AATAATTAAATTGTCAATTAG
9454367 AATAATTAAATCTGT-AATT
1 AATAATTAAAT-TGTCAATT
9454386 GTTTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
AATAATTAAATTGTCAATTAG
Found at i:9459357 original size:44 final size:43
Alignment explanation
Indices: 9459244--9459365 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
9459234 TCCGATATGT
* *
9459244 GATTTTGTGTAAGACCACGTCTGGGACGTTGGTATCGATTTAA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
* * * *
9459287 GATTTCCTGTAAGACCACATCTGGGACGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
* *
9459330 GATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
9459366 AGTATATGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 42 0.63
44 25 0.37
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAA
Found at i:9466947 original size:34 final size:35
Alignment explanation
Indices: 9466886--9466953 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
9466876 GTTAAATTGA
* * *
9466886 ATGTATTTATTACGTACATAGCTGAATTGAATTTT
1 ATGTATGTATAACGTACATAGCCGAATTGAATTTT
*
9466921 ATGTATGTATAAC-TACATTGCCGAATTGAATTT
1 ATGTATGTATAACGTACATAGCCGAATTGAATTT
9466954 AGCATGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (35 bp):
ATGTATGTATAACGTACATAGCCGAATTGAATTTT
Found at i:9467131 original size:43 final size:42
Alignment explanation
Indices: 9467069--9467275 Score: 201
Period size: 43 Copynumber: 4.9 Consensus size: 42
9467059 TCCGATATGT
* *
9467069 GATTTCGTGTAAGATCACGTCTGGGATGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTT-A
* *
9467112 GATTTTGTGTAAGACCACGTTTGGGATGTTGGCATCGATTTTA
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGA-TTTA
* ** *
9467155 GATTTACGTGTAAGACCA-TTCTGGGACATTGGCATCG-TATA
1 GATTT-CGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTA
9467196 TGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCAT-GATAGTT-
1 -GATTTCGTGTAAGACCAC-GTCTGGGAT-GTTGGCATCGAT--TTA
* * *
9467239 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
1 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
9467276 TACGAGCTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 24
0.77 0.10 0.14
Matches are distributed among these distances:
41 16 0.12
42 47 0.35
43 57 0.42
44 15 0.11
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTA
Found at i:9467222 original size:85 final size:84
Alignment explanation
Indices: 9467076--9467277 Score: 207
Period size: 85 Copynumber: 2.4 Consensus size: 84
9467066 TGTGATTTCG
* ** * * * *
9467076 TGTAAGATCACGTCTGGGATGTTTGCATCG-ATTTGAGATTTTGTGTAAGACCACGTTTGGGAT-
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATAT--GATTTCGTGTAAGACCACGTCTGGGATA
* *
9467139 GTTGGCATCGAT-TTTAGATTTACG
64 G-TGGCAT-GATAGTT-GA-TTACA
*
9467163 TGTAAGACCA-TTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACC-CTGTCTGGGATAG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCAC-GTCTGGGATAG
9467226 TGGCATGATAGTTGATTACA
65 TGGCATGATAGTTGATTACA
*
9467246 TGTAAGACCACGTCTGGGACGTTGGCATCGTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA
9467278 CGAGCTTTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
83 14 0.14
84 25 0.26
85 31 0.32
86 16 0.16
87 12 0.12
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (84 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATATGATTTCGTGTAAGACCACGTCTGGGATAGT
GGCATGATAGTTGATTACA
Found at i:9469490 original size:30 final size:30
Alignment explanation
Indices: 9469454--9469535 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
9469444 AAGAGTTATC
* *
9469454 ACTCACACAAGCTGGCATTATAAAAGGGTT
1 ACTCACACAAGATGACATTATAAAAGGGTT
* *
9469484 ACTCACACAAGTTGACATTATAACAGGGTT
1 ACTCACACAAGATGACATTATAAAAGGGTT
*
9469514 GCTCACACAAGATGACATTATA
1 ACTCACACAAGATGACATTATA
9469536 TTGAGGTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (30 bp):
ACTCACACAAGATGACATTATAAAAGGGTT
Found at i:9474335 original size:40 final size:38
Alignment explanation
Indices: 9474267--9474499 Score: 171
Period size: 40 Copynumber: 5.9 Consensus size: 38
9474257 CCAAAGGGGT
* *
9474267 ACCGTAGTAGAAATAGGGGCACGA-ATGTGCACTTTGGAGC
1 ACCGAAGTACAAATAGGGGCAC-ATATGTGCA-TTTGG-GC
* *
9474307 ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGGT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
** * * *
9474347 ACTAAAGTACAAACAAGGGCACGTATGTGCATTTAGGGC
1 ACCGAAGTACAAATAGGGGCACATATGTGCATTT-GGGC
* * *
9474386 TGCCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGT
1 -ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
* * ** * * *
9474427 ACTGAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT-TGGG-C
**
9474467 ATGGAAGTACAAATAGGGGCACATATGTGCATT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT
9474500 CATACAATAA
Statistics
Matches: 153, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
39 10 0.07
40 138 0.90
41 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (38 bp):
ACCGAAGTACAAATAGGGGCACATATGTGCATTTGGGC
Found at i:9474394 original size:80 final size:80
Alignment explanation
Indices: 9474283--9474501 Score: 307
Period size: 80 Copynumber: 2.7 Consensus size: 80
9474273 GTAGAAATAG
* *
9474283 GGGCACGAATGTGCACTTT-GGAGC-ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGG
1 GGGCACGTATGTGCA-TTTAGG-GCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGG
9474346 TACTAAAGTACAAACAA
64 TACTAAAGTACAAACAA
*
9474363 GGGCACGTATGTGCATTTAGGGCTGCCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
1 GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
* *
9474428 CTGAAGTACAAACAG
66 CTAAAGTACAAACAA
* * * * **
9474443 GGGCATGTATGCGCATTCAGGGTTATGGAAGTACAAATAGGGGCACATATGTGCATTCA
1 GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCA
9474502 TACAATAATT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
79 5 0.04
80 120 0.96
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (80 bp):
GGGCACGTATGTGCATTTAGGGCTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTA
CTAAAGTACAAACAA
Found at i:9474500 original size:40 final size:39
Alignment explanation
Indices: 9474310--9474501 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 39
9474300 TTGGAGCACC
9474310 GAAGTACAAATAGGGGCACATATGTGCATTCAGGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTCA-GGGTACT
* * * * * * *
9474350 AAAGTACAAACAAGGGCACGTATGTGCATTTAGGGCTGCC
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
9474390 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTC-AGGGTACT
* ** *
9474430 GAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTTA-T
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
9474469 GGAAGTACAAATAGGGGCACATATGTGCATTCA
1 -GAAGTACAAATAGGGGCACATATGTGCATTCA
9474502 TACAATAATT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 8 0.06
40 114 0.90
41 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (39 bp):
GAAGTACAAATAGGGGCACATATGTGCATTCAGGGTACT
Found at i:9485468 original size:30 final size:31
Alignment explanation
Indices: 9485408--9485468 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
9485398 GGGTTGGGAG
*
9485408 GGGAGAGGAGCAAAAGTTTTGGGGCGAAAGT
1 GGGAGAGGAGCAAAAGTTTTGGGGCAAAAGT
*
9485439 GGGA-AGGAGTAAAAGTTTTGAGGG-AAAAGT
1 GGGAGAGGAGCAAAAGTTTTG-GGGCAAAAGT
9485469 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.36, C:0.03, G:0.43, T:0.18
Consensus pattern (31 bp):
GGGAGAGGAGCAAAAGTTTTGGGGCAAAAGT
Found at i:9487462 original size:40 final size:41
Alignment explanation
Indices: 9487414--9487598 Score: 164
Period size: 40 Copynumber: 4.6 Consensus size: 41
9487404 TACCAAAAAA
* *
9487414 AAACAGGGGCAGGCATGTGCATTCAGGGGTACT-GTAA-TAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCG-AAGTAC
* * * *
9487454 AAATAGGGGTACAAATGTGCACTCAGGGGTA-TCGAAGTAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
* * *
9487494 AAACAGGGGCACGTATATGCATTCAGGGGTAC-CTAAGTAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
* * * * * *
9487534 AAACAAGGGCACGGATGCGCACTCAAGGGTACT-AAAGTAC
1 AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
* * *
9487574 AAACAAGGGCATGTATGTGCATTCA
1 AAACAGGGGCACGAATGTGCATTCA
9487599 TACGATAATT
Statistics
Matches: 117, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 114 0.97
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGAATGTGCATTCAGGGGTACTCGAAGTAC
Found at i:9487556 original size:80 final size:80
Alignment explanation
Indices: 9487414--9487598 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
9487404 TACCAAAAAA
* * * * * * *
9487414 AAACAGGGGCAGGCATGTGCATTCAGGGGTACTGTAATACAAATAGGGGTACAAATGTGCACTCA
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
* *
9487479 GGGGTA-TCGAAGTAC
66 AGGGTACT-AAAGTAC
* **
9487494 AAACAGGGGCACGTATATGCATTCAGGGGTAC-CTAAGTACAAACAAGGGCACGGATGCGCACTC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAA-TACAAACAAGGGCACAAATGCGCACTC
9487558 AAGGGTACTAAAGTAC
65 AAGGGTACTAAAGTAC
* *
9487574 AAACAAGGGCATGTATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
9487599 TACGATAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 84 0.95
81 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (80 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
AGGGTACTAAAGTAC
Found at i:9495965 original size:14 final size:14
Alignment explanation
Indices: 9495932--9495967 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
9495922 CAAGAAACTT
9495932 GTTTTC-AAACTAA
1 GTTTTCAAAACTAA
9495945 G-TTTCAAAACTAA
1 GTTTTCAAAACTAA
9495958 GTTTTCAAAA
1 GTTTTCAAAA
9495968 AACCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 9 0.43
14 8 0.38
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (14 bp):
GTTTTCAAAACTAA
Found at i:9497522 original size:27 final size:27
Alignment explanation
Indices: 9497471--9497687 Score: 211
Period size: 27 Copynumber: 8.1 Consensus size: 27
9497461 TTACACTATT
* * * *
9497471 ATGACCAAAATACCTCCATACGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
9497498 ATTACCGAAATATCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
9497525 ATGATCGAAATACCCCTATA-AGAAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
9497551 ATGACCAAAATACCCCTACAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
9497578 ATGACTGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * *
9497605 ATGATTGAAATACCCCCACAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
9497632 ATGACCGAAGTACCCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
9497659 ATGATCGAAACACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
9497686 AT
1 AT
9497688 TACTGTTATA
Statistics
Matches: 155, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 21 0.14
27 134 0.86
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Done.