Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 233 of 378
Found at i:68858864 original size:40 final size:40
Alignment explanation
Indices: 68858809--68858976 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
68858799 TGAATGATAC
*
68858809 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
68858849 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * *
68858889 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * * *
68858929 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
68858969 CC-GGCTAA
1 CCGGGCTAA
68858977 ATTCTGAAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.06
40 104 0.92
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:68866929 original size:40 final size:40
Alignment explanation
Indices: 68866874--68867041 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
68866864 TTAATGATAC
*
68866874 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
68866914 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * *
68866954 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA-
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * * *
68866993 CCTGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTGTAT
1 CC-GGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
68867034 CC-GGCTAA
1 CCGGGCTAA
68867042 ATTTCGGAGA
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 9 0.08
40 100 0.88
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:68869003 original size:5 final size:5
Alignment explanation
Indices: 68868993--68869023 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
68868983 ATAATAATAA
68868993 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
68869024 GCAAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:68872659 original size:26 final size:26
Alignment explanation
Indices: 68872629--68872721 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
68872619 TCTTTTTGAG
68872629 TCATTAAATACTTTTAACTCAAGTAA
1 TCATTAAATACTTTTAACTCAAGTAA
* *
68872655 TCATTAAATTTGTCAC-ATTACCCACT-AAATAA
1 TCATTAAA----T-ACTTTTA---ACTCAAGTAA
68872687 TCATTAAATACTTTTAACTCAAGTAA
1 TCATTAAATACTTTTAACTCAAGTAA
68872713 TCATTAAAT
1 TCATTAAAT
68872722 TTGTCACATT
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
25 3 0.06
26 22 0.42
27 2 0.04
28 4 0.08
30 4 0.08
31 2 0.04
32 13 0.25
33 3 0.06
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (26 bp):
TCATTAAATACTTTTAACTCAAGTAA
Found at i:68872693 original size:32 final size:32
Alignment explanation
Indices: 68872652--68872747 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
68872642 TTAACTCAAG
68872652 TAATCATTAAATTTGTCACATTACCCACTAAA
1 TAATCATTAAATTTGTCACATTACCCACTAAA
* *
68872684 TAATCATTAAA----T-ACTTTTA---ACTCAAG
1 TAATCATTAAATTTGTCAC-ATTACCCACT-AAA
68872710 TAATCATTAAATTTGTCACATTACCCACTAAA
1 TAATCATTAAATTTGTCACATTACCCACTAAA
68872742 TAATCA
1 TAATCA
68872748 ATGTCACTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
25 3 0.06
26 13 0.26
27 2 0.04
28 4 0.08
30 4 0.08
31 2 0.04
32 19 0.38
33 3 0.06
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (32 bp):
TAATCATTAAATTTGTCACATTACCCACTAAA
Found at i:68872693 original size:58 final size:58
Alignment explanation
Indices: 68872629--68872747 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
68872619 TCTTTTTGAG
68872629 TCATTAAATACTTTTAACTCAAGTAATCATTAAATTTGTCACATTACCCACTAAATAA
1 TCATTAAATACTTTTAACTCAAGTAATCATTAAATTTGTCACATTACCCACTAAATAA
68872687 TCATTAAATACTTTTAACTCAAGTAATCATTAAATTTGTCACATTACCCACTAAATAA
1 TCATTAAATACTTTTAACTCAAGTAATCATTAAATTTGTCACATTACCCACTAAATAA
68872745 TCA
1 TCA
68872748 ATGTCACTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (58 bp):
TCATTAAATACTTTTAACTCAAGTAATCATTAAATTTGTCACATTACCCACTAAATAA
Found at i:68876152 original size:56 final size:56
Alignment explanation
Indices: 68876095--68876353 Score: 347
Period size: 56 Copynumber: 4.6 Consensus size: 56
68876085 CATACAAGGT
* * * * * *
68876095 CTTACTCGTACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGTGGT
1 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
* * *
68876151 CTTACTCGCACACATATATCAGAGTCACATATCGATGGCAATGTATGAAATGTGGA
1 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
* * * * ** * *
68876207 CTTATTCGCACACATATATCGGAATCACATATCAATGCCAACACATTAAACATGGA
1 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
* *
68876263 CTTACTCTCACACTTATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
1 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
68876319 CTTACTCGCACACATATATCAGAGTCACATATCGA
1 CTTACTCGCACACATATATCAGAGTCACATATCGA
68876354 CTCCACATAT
Statistics
Matches: 173, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAACGTGGA
Found at i:68878964 original size:45 final size:44
Alignment explanation
Indices: 68878887--68878987 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 44
68878877 TCTCAGACAT
68878887 TGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCA-AAA
1 TGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGAAA
** *
68878930 TGTCTTACACTAACTTATGTCTCG-AGGCCGATGCATGTCCCAGACA
1 TGTCTTACACTAAC--ACATCTCGTA-GCCGATGCATGTCCCAGAAA
68878976 TGTCTTACACTA
1 TGTCTTACACTA
68878988 GCACTCGTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.27
44 1 0.02
45 22 0.43
46 14 0.27
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (44 bp):
TGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGAAA
Found at i:68878998 original size:46 final size:46
Alignment explanation
Indices: 68878815--68879083 Score: 178
Period size: 46 Copynumber: 5.7 Consensus size: 46
68878805 GGGGTAAAGT
* * * * *
68878815 GCCGATGACATGTCCCAGACATCGTCTTACACAATCTA-TAGCATATCTAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACT--CATCTCGAG
* * *
68878865 GCCGATGCCGTGTCTCAGACATTGTCTTACACTA--ACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCATCTCG-AG
* *
68878911 GCCGATGCATGTCCCA-AAATGTCTTACACTA--ACTTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCA--TCTCGAG
* * *
68878956 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAG
* * * *
68879002 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT--ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCGA-G
* *
68879050 GCCAATGCATGTCCCAGACATGTTTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
68879084 TCACAATAAC
Statistics
Matches: 179, Mismatches: 27, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
43 15 0.08
44 3 0.02
45 28 0.16
46 48 0.27
47 31 0.17
48 24 0.13
49 1 0.01
50 28 0.16
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAG
Found at i:68880718 original size:39 final size:39
Alignment explanation
Indices: 68880604--68880790 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 39
68880594 GCTACTCGTT
* *
68880604 CAAATGCCTTCGGGACATAGCCCGGTTATAGCAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGAT-TAGTAACTCGCA
* *
68880644 CAAATGCCTTCGGGACCTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGA-TTAGTAACTCGCA
** * *
68880684 CCCATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCACA
1 CAAATGCCTTCGGGACATAGCCC-GGATTAGTAACTCGCA
* * * ** *
68880723 CAAAGGCCTTC-GGATCTTAGTCCGGATATAGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGAT-TAGTAAC-TCGCA
* *
68880764 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACATAGCCCGGAT
68880791 ATCATTCGAA
Statistics
Matches: 121, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 61 0.50
41 25 0.21
42 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGACATAGCCCGGATTAGTAACTCGCA
Found at i:68882221 original size:40 final size:40
Alignment explanation
Indices: 68882176--68882342 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
68882166 CGGAATATAA
68882176 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
68882216 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
68882255 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68882295 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
68882335 CCGGATAT
1 CCGGATAT
68882343 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68882240 original size:39 final size:40
Alignment explanation
Indices: 68882192--68882301 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
68882182 ATAATCACGT
* *
68882192 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
68882231 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
68882271 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
68882302 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:68890218 original size:40 final size:40
Alignment explanation
Indices: 68890173--68890339 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
68890163 CGGAATATAA
68890173 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
68890213 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
68890252 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68890292 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
68890332 CCGGATAT
1 CCGGATAT
68890340 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68890237 original size:39 final size:40
Alignment explanation
Indices: 68890189--68890298 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
68890179 ATAATCACGT
* *
68890189 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
68890228 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
68890268 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
68890299 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:68897464 original size:41 final size:42
Alignment explanation
Indices: 68897419--68897508 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 42
68897409 AGCTATGGCT
* * *
68897419 TTACACGAAAT-CATAATGATGCTACTGTCCCAGACATGGTC
1 TTACACGAAATACATAATGATGCCAATCTCCCAGACATGGTC
*
68897460 TTACACGTAATCACATAATGATGCCAATCTCCCAGACATGGTC
1 TTACACGAAAT-ACATAATGATGCCAATCTCCCAGACATGGTC
68897503 TTACAC
1 TTACAC
68897509 ATAATCTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 10 0.23
43 33 0.77
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
TTACACGAAATACATAATGATGCCAATCTCCCAGACATGGTC
Found at i:68897493 original size:43 final size:43
Alignment explanation
Indices: 68897430--68897514 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
68897420 TACACGAAAT
* * * *
68897430 CATAATGATGCTACTGTCCCAGACATGGTCTTACACGTAATCA
1 CATAATGATGCCAATCTCCCAGACATGGTCTTACACATAATCA
68897473 CATAATGATGCCAATCTCCCAGACATGGTCTTACACATAATC
1 CATAATGATGCCAATCTCCCAGACATGGTCTTACACATAATC
68897515 TCATCTCGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (43 bp):
CATAATGATGCCAATCTCCCAGACATGGTCTTACACATAATCA
Found at i:68909787 original size:19 final size:20
Alignment explanation
Indices: 68909750--68909787 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
68909740 TTATTTAACT
* *
68909750 ATCAAGCTTATAAATATATC
1 ATCAAACTTATAAAAATATC
68909770 ATCAAACTT-TAAAAATAT
1 ATCAAACTTATAAAAATAT
68909788 TATAACTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (20 bp):
ATCAAACTTATAAAAATATC
Found at i:68911425 original size:53 final size:54
Alignment explanation
Indices: 68911340--68911550 Score: 212
Period size: 53 Copynumber: 3.9 Consensus size: 54
68911330 ATTAGGGTTT
* * * *
68911340 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTAAAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTAAAAGGC
* * * * * * * *
68911394 AAGGAAATCATG-AAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTAAAAGGC
* * * * * *
68911448 AAAGATCCCATGTAAGACAATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTAAAAGGC
* *
68911501 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT-TAAAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTAAAA
68911551 AGAAAAGGTA
Statistics
Matches: 124, Mismatches: 30, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
53 72 0.58
54 30 0.24
55 22 0.18
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTAAAAGGC
Found at i:68915170 original size:24 final size:24
Alignment explanation
Indices: 68915138--68915224 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
68915128 AATCTCAAAT
68915138 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
68915162 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
68915186 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
68915210 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
68915225 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:68915190 original size:48 final size:48
Alignment explanation
Indices: 68915138--68915246 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
68915128 AATCTCAAAT
** *
68915138 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
68915186 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
68915234 GCACTATGTGTGC
1 GCACTATGTGTGC
68915247 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:68915237 original size:24 final size:24
Alignment explanation
Indices: 68915138--68915246 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
68915128 AATCTCAAAT
*
68915138 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
68915162 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
68915186 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
68915210 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
68915234 GCACTATGTGTGC
1 GCACTATGTGTGC
68915247 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:68928265 original size:28 final size:27
Alignment explanation
Indices: 68928202--68928271 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
68928192 ATAGTGAGTC
*
68928202 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
68928229 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
68928257 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68928272 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:68934523 original size:67 final size:68
Alignment explanation
Indices: 68934364--68934523 Score: 196
Period size: 73 Copynumber: 2.3 Consensus size: 68
68934354 CACCACAGAA
* * *
68934364 ATTGCAGCGAGGCTGCCAGATATTGTGGCTAGGCCACCAGAACAGATATATATATATGTGACGAA
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGCCACCAGAACAG----A-ATATATGTGACGAA
68934429 GCCACCAG
61 GCCACCAG
* * * *
68934437 ATTACAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAACAG-ATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGCCACCAGAACAGAATATATGTGACGAAGCCAC
*
68934501 TAG
66 CAG
68934504 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
68934524 ACGCTTCCTC
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
67 38 0.49
73 40 0.51
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (68 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGCCACCAGAACAGAATATATGTGACGAAGCCAC
CAG
Found at i:68936848 original size:11 final size:10
Alignment explanation
Indices: 68936820--68936850 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
68936810 CAGTATCGTC
68936820 CTTTCGGTCA
1 CTTTCGGTCA
68936830 CTTTCGGTCA
1 CTTTCGGTCA
68936840 CTCTTCGGTCA
1 CT-TTCGGTCA
68936851 TTACAGCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.10, C:0.32, G:0.19, T:0.39
Consensus pattern (10 bp):
CTTTCGGTCA
Found at i:68944417 original size:27 final size:26
Alignment explanation
Indices: 68944370--68944420 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
68944360 TGAGGCTGCT
*
68944370 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
68944396 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
68944421 TTACAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:68944579 original size:26 final size:27
Alignment explanation
Indices: 68944543--68944618 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
68944533 TAAAATTAAC
* *
68944543 CCTAAGGGTATATTGGTCATTTT-GTA
1 CCTAGGGGTATATTGGTCATTTTCCTA
* *
68944569 CCTAGGGGTATAATGGTAATTTTCCCTA
1 CCTAGGGGTATATTGGTCATTTT-CCTA
* * *
68944597 CTTAGGGGTATTTTAGTCATTT
1 CCTAGGGGTATATTGGTCATTT
68944619 CAATAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 20 0.51
28 19 0.49
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (27 bp):
CCTAGGGGTATATTGGTCATTTTCCTA
Found at i:68945394 original size:12 final size:13
Alignment explanation
Indices: 68945360--68945399 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
68945350 TTTTTTTAAG
68945360 TAGTTTATTGATA
1 TAGTTTATTGATA
68945373 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
68945387 TAGTTTATTGATA
1 TAGTTTATTGATA
68945400 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:68949399 original size:24 final size:24
Alignment explanation
Indices: 68949227--68949397 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
68949217 GCAAAGACCA
*
68949227 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
68949251 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
68949275 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
68949299 TATGGCACTATGTGTGCGATACAC
1 TATGGCACTATGTGTGCGATTTAC
68949323 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
68949347 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
68949371 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
68949395 TAT
1 TAT
68949398 AGTCACATTC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:68957329 original size:24 final size:24
Alignment explanation
Indices: 68957157--68957327 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
68957147 GCAAAGACCA
*
68957157 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
68957181 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
68957205 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
68957229 TATGGCACTATGTGTGCGATACAC
1 TATGGCACTATGTGTGCGATTTAC
68957253 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
68957277 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
68957301 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
68957325 TAT
1 TAT
68957328 AGTCACATTC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:68958835 original size:19 final size:19
Alignment explanation
Indices: 68958811--68958847 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
68958801 AATGAAAGCA
68958811 AAGTATATGATGTATTAGC
1 AAGTATATGATGTATTAGC
68958830 AAGTATATGATGTATTAG
1 AAGTATATGATGTATTAG
68958848 AAATGTAATA
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:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (19 bp):
AAGTATATGATGTATTAGC
Found at i:68966888 original size:28 final size:29
Alignment explanation
Indices: 68966821--68966921 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
68966811 ATAGTGAATC
*
68966821 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
68966850 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
68966878 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
68966908 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68966922 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:68974025 original size:28 final size:29
Alignment explanation
Indices: 68973958--68974027 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
68973948 ATAGTGAATC
*
68973958 CGCACACTTAGTGCTATATACATTCAGCT
1 CGCACACTTAGTGCTATATACATTCAACT
68973987 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATACATTC-AACT
68974015 CGCACACTTAGTG
1 CGCACACTTAGTG
68974028 TTGTACAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATACATTCAACT
Found at i:68975338 original size:28 final size:29
Alignment explanation
Indices: 68975267--68975338 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 29
68975257 ATAGTAAGTC
*
68975267 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTATAACAATCAAACT
*
68975295 CGCACACTTAGTGCTAT-ACAATTAAACT
1 CGCACACTTAGTGCTATAACAATCAAACT
68975323 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
68975339 ATCTCATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAACAATCAAACT
Found at i:68975899 original size:2 final size:2
Alignment explanation
Indices: 68975892--68975925 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
68975882 GGCATACATT
68975892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68975926 GCCGAATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68980901 original size:28 final size:29
Alignment explanation
Indices: 68980861--68980959 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
68980851 GTAATAAGCC
*
68980861 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
68980889 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
68980917 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
68980946 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68980960 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:68988596 original size:28 final size:28
Alignment explanation
Indices: 68988556--68988653 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
68988546 GTAATAAGCC
* *
68988556 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
68988584 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
68988612 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
68988640 TGCACACTTAGTGC
1 CGCACACTTAGTGC
68988654 CAATTTGTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 65 0.98
29 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:69000961 original size:53 final size:54
Alignment explanation
Indices: 69000784--69000990 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
69000774 ATTAGAGTTT
* * *
69000784 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCACTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
* ** * * * * * * * * *
69000838 AAGGAAATGATGTAAGATCATGTCAAGACATGACATTAAGAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAAT-GGTAAGTTCTATAAGGC
* * *
69000893 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
* * * *
69000946 AAGGATACCACGTAAGACTATGTCAAGTCATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT
69000991 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 36, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
53 45 0.39
54 32 0.28
55 39 0.34
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCTATAAGGC
Found at i:69014804 original size:29 final size:29
Alignment explanation
Indices: 69014771--69014835 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
69014761 GTGACGAGAT
69014771 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69014800 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
69014829 CGGCACT
1 TGGCACT
69014836 GGGTGTGGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69024134 original size:78 final size:79
Alignment explanation
Indices: 69024047--69024196 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 79
69024037 ATCGACAAAG
69024047 ATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTA
1 ATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGTTA
69024111 CTA-AATCCGGACTA
65 CTATAATCCGGACTA
* ** *
69024125 ATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 ATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTAC
69024190 TATAATC
66 TATAATC
69024197 GGGCTATGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
77 1 0.02
78 61 0.92
79 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
ATCCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTAC
TATAATCCGGACTA
Found at i:69024226 original size:40 final size:39
Alignment explanation
Indices: 69023998--69024219 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
69023988 TCGAATGATG
* * * *
69023998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
69024038 T-C-GACAAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
69024076 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
69024116 TCCGGACTAA-TCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
**
69024154 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
69024195 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
69024220 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
38 57 0.35
39 10 0.06
40 93 0.57
41 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69033666 original size:40 final size:40
Alignment explanation
Indices: 69033621--69033788 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
69033611 CGGAATATAA
69033621 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
69033661 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
69033701 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
69033741 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
69033781 CCGGATAT
1 CCGGATAT
69033789 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69033771 original size:80 final size:80
Alignment explanation
Indices: 69033637--69033786 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
69033627 ATAACCACGT
* *
69033637 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
69033702 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
69033717 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
69033780 CCCGGAT
64 CCCGGAT
69033787 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:69044696 original size:40 final size:40
Alignment explanation
Indices: 69044651--69044818 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
69044641 CGGAATACAA
*
69044651 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
69044691 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
69044731 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
69044771 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
69044811 CCGGATAT
1 CCGGATAT
69044819 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:69044791 original size:80 final size:80
Alignment explanation
Indices: 69044651--69044818 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
69044641 CGGAATACAA
* * *
69044651 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
69044716 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
69044731 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
69044794 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
69044811 CCGGATAT
1 CCGGATAT
69044819 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:69051068 original size:40 final size:40
Alignment explanation
Indices: 69050983--69051135 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
69050973 GGATATAGCG
* * * * * ***
69050983 ACTCGCTCAAAAGCATTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
69051023 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
69051063 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
69051103 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
69051136 CATCATTCGA
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 77 0.85
41 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:69059120 original size:40 final size:40
Alignment explanation
Indices: 69059008--69059160 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
69058998 GGATATAGCG
* * * * ***
69059008 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
69059048 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
69059088 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
69059128 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
69059161 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:69061824 original size:40 final size:40
Alignment explanation
Indices: 69061758--69061924 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
69061748 AAATTGAATG
* * *
69061758 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
69061797 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
69061837 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
69061877 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
69061917 ATATCCGG
1 ATATCCGG
69061925 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:69071195 original size:28 final size:28
Alignment explanation
Indices: 69071163--69071261 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
69071153 TGCATAAGCC
*
69071163 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
69071191 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
69071219 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
69071248 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69071262 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:69074076 original size:40 final size:37
Alignment explanation
Indices: 69073981--69074090 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 37
69073971 CTGGAAATTA
* *
69073981 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGGC
**
69074019 TATTCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATTC
1 TA-TCCGGGCTAAGACCCGAAGGCATT-GTGCGAG-T-GGC
69074060 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
69074091 ACGTGATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 5 0.08
39 26 0.41
40 27 0.43
41 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGGC
Found at i:69074104 original size:40 final size:40
Alignment explanation
Indices: 69073941--69074106 Score: 171
Period size: 39 Copynumber: 4.2 Consensus size: 40
69073931 AAATTGAATG
* * **
69073941 ATATCCGGGCTAAGCCCCGAAGACAATT-TGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
69073980 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
*
69074020 AT-TCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
69074059 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
69074099 ATATCCGG
1 ATATCCGG
69074107 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 55 0.53
40 44 0.42
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:69081363 original size:49 final size:49
Alignment explanation
Indices: 69081291--69081651 Score: 569
Period size: 49 Copynumber: 7.4 Consensus size: 49
69081281 ATCAAGATTC
* * *
69081291 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
69081340 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
69081389 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
69081438 GGGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
69081487 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
69081536 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
69081585 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
69081634 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
69081652 ATGTGGTAAA
Statistics
Matches: 297, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 297 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:69081775 original size:37 final size:36
Alignment explanation
Indices: 69081720--69081806 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
69081710 AACTTGGAAA
69081720 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
69081758 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
69081795 TATGTCCGGGTA
1 TATGTCCGGGTA
69081807 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:69087229 original size:28 final size:28
Alignment explanation
Indices: 69087160--69087260 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
69087150 GACAAGATTG
* * * *
69087160 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
69087190 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
69087218 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
69087247 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
69087261 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:69106742 original size:68 final size:68
Alignment explanation
Indices: 69106622--69106748 Score: 150
Period size: 68 Copynumber: 1.9 Consensus size: 68
69106612 GCTACATCTA
* * *
69106622 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAACTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAACTACCTCATA
69106687 ATG
66 ATG
* * * * *
69106690 TCTCGTAGCTCTGTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAACTAC
69106749 ATACCATCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
68 47 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAACTACCTCATA
ATG
Found at i:69108488 original size:47 final size:44
Alignment explanation
Indices: 69108342--69108504 Score: 168
Period size: 47 Copynumber: 3.5 Consensus size: 44
69108332 TATGCGTGCT
* *
69108342 GATGCATGTCCCAGACATGTCTTACACTAGTGCAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGT-CATCTCTGAAGCC
* *
69108386 GATGCATGTCCCAGACACGTCTTACACTCG-CTATCTCTGTTAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGTC-ATCTCTG--AA-GCC
* * *
69108433 GATGCATGTCCCAGACATGTCTTACACTAGTCCTCGTCTGGATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGTCATC-TCT-GAAGCC
69108479 GATGCCATGTCCCAGACATGGTCTTA
1 GATG-CATGTCCCAGACAT-GTCTTA
69108505 TAATGGCGCA
Statistics
Matches: 100, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 28 0.28
46 7 0.07
47 48 0.48
48 10 0.10
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGTCATCTCTGAAGCC
Found at i:69110420 original size:28 final size:28
Alignment explanation
Indices: 69110377--69110479 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
69110367 ATTGCATGAC
* *
69110377 TATGAGTGTGAGTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
69110405 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
69110433 TATGAATGCGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
69110461 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
69110480 AAAGGGGCCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:69122593 original size:42 final size:43
Alignment explanation
Indices: 69122489--69122649 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 43
69122479 AGGATTTCGT
* * * * *
69122489 TATCTGATTTCATGTGAGACTACGTCTGGGAC-GTTAGCATCGA
1 TATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGA-CATCGA
*
69122532 CT-TCTGTTTTACGTGTAAGACCATGTCTGGGACA-TCGACATC-A
1 -TATCTGATTT-CGTGTAAGACCATGTCTGGGACAGT-GACATCGA
* * * *
69122575 TATCTGATTTCGTGTAAGACCTTATCTGAGACAGTGGCATCGA
1 TATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGA
* * * *
69122618 TGTTTGATTACATGTAAGACCATGTCTGGGAC
1 TATCTGATTTCGTGTAAGACCATGTCTGGGAC
69122650 GTTGGCATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
42 26 0.28
43 42 0.45
44 24 0.26
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TATCTGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGA
Found at i:69130125 original size:43 final size:42
Alignment explanation
Indices: 69129969--69130126 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 42
69129959 TCTATTTTCG
*
69129969 TGTAAGACCACGTCTGGGACGTTGGCAATCGACTTCTAT-TTTACA
1 TGTAAGACCACGTCTGGGACGTTGGC-ATCGA-TT-T-TGATTACA
* * ** * * **
69130014 TGTAAGACCATGTCTGGGACATCAGTATCG-TATCTGATTTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTTGATTACA
* *
69130056 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATGTTTGATTGCA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TTTGATTACA
69130099 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
69130127 TGTATATGTT
Statistics
Matches: 86, Mismatches: 20, Indels: 16
0.70 0.16 0.13
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 32 0.37
44 5 0.06
45 21 0.24
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTTGATTACA
Found at i:69134034 original size:13 final size:13
Alignment explanation
Indices: 69134016--69134042 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69134006 AAGATAGGGT
69134016 AGATAATACAAAC
1 AGATAATACAAAC
69134029 AGATAATACAAAC
1 AGATAATACAAAC
69134042 A
1 A
69134043 TCGAGCCACT
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:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AGATAATACAAAC
Found at i:69140613 original size:12 final size:12
Alignment explanation
Indices: 69140596--69140627 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
69140586 ATCACTAACC
69140596 CAATACCCAAAT
1 CAATACCCAAAT
69140608 CAATACCCAAAT
1 CAATACCCAAAT
*
69140620 TAATACCC
1 CAATACCC
69140628 TAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (12 bp):
CAATACCCAAAT
Found at i:69141975 original size:25 final size:25
Alignment explanation
Indices: 69141943--69142024 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
69141933 TAAAATTCTC
69141943 TTTATGTAAATTTATATTTAAAATA
1 TTTATGTAAATTTATATTTAAAATA
* *
69141968 TTTATGT-AATATT-TA-TTCACATA
1 TTTATGTAAAT-TTATATTTAAAATA
*
69141991 CATTATGTAAATTTATATTTAAAATA
1 -TTTATGTAAATTTATATTTAAAATA
69142017 TTTATGTA
1 TTTATGTA
69142025 GTATTCATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
23 6 0.13
24 13 0.28
25 21 0.46
26 6 0.13
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTATGTAAATTTATATTTAAAATA
Found at i:69141997 original size:49 final size:49
Alignment explanation
Indices: 69141944--69142043 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
69141934 AAAATTCTCT
*
69141944 TTATGTAAATTTATATTTAAAATATTTATGTAATATTTATTCACATACA
1 TTATGTAAATTTATATTTAAAATATTTATGTAATATTCATTCACATACA
* *
69141993 TTATGTAAATTTATATTTAAAATATTTATGTAGTATTCATTCTCATACA
1 TTATGTAAATTTATATTTAAAATATTTATGTAATATTCATTCACATACA
69142042 TT
1 TT
69142044 GATATTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (49 bp):
TTATGTAAATTTATATTTAAAATATTTATGTAATATTCATTCACATACA
Found at i:69142145 original size:2 final size:2
Alignment explanation
Indices: 69142138--69142177 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
69142128 AGATTTTACT
69142138 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69142178 TTGTTTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:69142744 original size:19 final size:18
Alignment explanation
Indices: 69142712--69142752 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
69142702 GATATTGTTA
69142712 ATTTCAAATAAATGTTTT
1 ATTTCAAATAAATGTTTT
*
69142730 ATTTCTAAATGAATGTTTT
1 ATTTC-AAATAAATGTTTT
69142749 ATTT
1 ATTT
69142753 GATTCAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (18 bp):
ATTTCAAATAAATGTTTT
Found at i:69145766 original size:29 final size:29
Alignment explanation
Indices: 69145711--69145810 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
69145701 CCTATATCTA
* *
69145711 GCCTATTAAGG-CC-AATCATATTTATATG
1 GCCTATT-AGGCCCAAATCACATATATATG
*
69145739 GCCTATTAGGCCCAAATCACCTATATATG
1 GCCTATTAGGCCCAAATCACATATATATG
* * ** *
69145768 GCCCATTAGGCCTAAATTGCATTTATATG
1 GCCTATTAGGCCCAAATCACATATATATG
69145797 GCCCT-TTAGGCCCA
1 G-CCTATTAGGCCCA
69145811 CATTCATATT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.05
28 9 0.16
29 44 0.76
30 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (29 bp):
GCCTATTAGGCCCAAATCACATATATATG
Found at i:69146058 original size:16 final size:16
Alignment explanation
Indices: 69146037--69146087 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
69146027 AACTTTAGGC
69146037 TTTCGGCATTTCAGCT
1 TTTCGGCATTTCAGCT
69146053 TTTCGGCATTTCAG-T
1 TTTCGGCATTTCAGCT
* *
69146068 ATTTCGACATTTCGGCT
1 -TTTCGGCATTTCAGCT
69146085 TTT
1 TTT
69146088 GTCAATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (16 bp):
TTTCGGCATTTCAGCT
Found at i:69147334 original size:16 final size:16
Alignment explanation
Indices: 69147315--69147346 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69147305 TTTTTTGAGA
*
69147315 TTTCTAGATTTTTGGG
1 TTTCAAGATTTTTGGG
69147331 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
69147347 GCATTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.25, T:0.53
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:69150236 original size:28 final size:29
Alignment explanation
Indices: 69150204--69150346 Score: 157
Period size: 29 Copynumber: 5.0 Consensus size: 29
69150194 TACCTGTATC
* * *
69150204 TGGCCCATTA-ACCCCAATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
69150232 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
69150261 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
69150290 TGGCCCGTTAGGCCC-AGTCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * * *
69150318 GGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
69150346 T
1 T
69150347 TCATGCTCAC
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 46 0.46
29 54 0.54
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:69151480 original size:40 final size:40
Alignment explanation
Indices: 69151404--69151630 Score: 328
Period size: 40 Copynumber: 5.7 Consensus size: 40
69151394 CCAACCCAAT
* * ** * *
69151404 TGCCTTCGGGATTTAGCCCGGATGTAACAACTAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* * *
69151444 TGCCTTCGGGACTTAACCCGAAAATAGCGACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
69151484 TGCCTTCGGGGCTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
69151524 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
69151564 TGCCTTCGGCACTTAACCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
69151604 TGCCTTCGAGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
69151631 TCCTCAATTG
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 167 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:69153844 original size:16 final size:16
Alignment explanation
Indices: 69153823--69153866 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
69153813 AACTTTTGGC
69153823 TTTCGGCATTTCAGCT-
1 TTTCGGCATTTCAG-TA
69153839 TTTCGGCATTTCAGTA
1 TTTCGGCATTTCAGTA
*
69153855 TTTCGCCATTTC
1 TTTCGGCATTTC
69153867 GGGTTTTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.45
Consensus pattern (16 bp):
TTTCGGCATTTCAGTA
Found at i:69158962 original size:26 final size:26
Alignment explanation
Indices: 69158933--69159072 Score: 106
Period size: 27 Copynumber: 5.3 Consensus size: 26
69158923 TTAGTTTACC
*
69158933 AAATTACTGAAATATCCTCAGTTGTA
1 AAATTACTGAAATACCCTCAGTTGTA
* * *
69158959 AAATTAC-CAAAGTACCCTCGGTTTATA
1 AAATTACTGAAA-TACCCTCAG-TTGTA
** * * *
69158986 AAATTACCCAAATATCCTCGATTTG-C
1 AAATTACTGAAATACCCTC-AGTTGTA
69159012 AAATTA-TCGAAATACCCTCAGTTTGTA
1 AAATTACT-GAAATACCCTCAG-TTGTA
**
69159039 AAATTACTGAAATACCCTCGACATGTA
1 AAATTACTGAAATACCCTC-AGTTGTA
69159066 AAATTAC
1 AAATTAC
69159073 CAAAGTACCC
Statistics
Matches: 89, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
25 4 0.04
26 32 0.36
27 47 0.53
28 6 0.07
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCAGTTGTA
Found at i:69159016 original size:53 final size:54
Alignment explanation
Indices: 69158933--69159100 Score: 189
Period size: 53 Copynumber: 3.1 Consensus size: 54
69158923 TTAGTTTACC
* *
69158933 AAATTACTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTCGGTTTATA
1 AAATTACCGAAATATCCTCGACTTGTAAAATTACCAAAGTACCCTCGGTTTATA
* * * * * *
69158986 AAATTACCCAAATATCCTCGATTTG-CAAATTATCGAAA-TACCCTCAGTTTGTA
1 AAATTACCGAAATATCCTCGACTTGTAAAATTA-CCAAAGTACCCTCGGTTTATA
* * * * *
69159039 AAATTACTGAAATACCCTCGACATGTAAAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCGAAATATCCTCGACTTGTAAAATTACCAAAGTACCCTCGGTTTATA
69159093 AAATTACC
1 AAATTACC
69159101 ATTTTACCCT
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
53 60 0.65
54 32 0.35
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATATCCTCGACTTGTAAAATTACCAAAGTACCCTCGGTTTATA
Found at i:69159068 original size:80 final size:79
Alignment explanation
Indices: 69158927--69159099 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 79
69158917 AATACTTTAG
* ***
69158927 TTTACCAAATTACTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA
1 TTTA-CAAATTACTGAAATACCCTCAGTTGTAAAATTACCAAAGTACCCTCGACATATAAAATTA
*
69158992 CCCAAA-TATCCTCGA
65 -CCAAAGTACCCTCGA
* * *
69159007 TTTGCAAATTA-TCGAAATACCCTCAGTTTGTAAAATTACTGAAA-TACCCTCGACATGTAAAAT
1 TTTACAAATTACT-GAAATACCCTCAG-TTGTAAAATTAC-CAAAGTACCCTCGACATATAAAAT
69159070 TACCAAAGTACCCTCGA
63 TACCAAAGTACCCTCGA
69159087 TTTACAAAATTAC
1 TTTAC-AAATTAC
69159100 CATTTTACCC
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 24 0.31
80 44 0.56
81 9 0.12
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (79 bp):
TTTACAAATTACTGAAATACCCTCAGTTGTAAAATTACCAAAGTACCCTCGACATATAAAATTAC
CAAAGTACCCTCGA
Found at i:69159112 original size:107 final size:107
Alignment explanation
Indices: 69158933--69159125 Score: 273
Period size: 107 Copynumber: 1.8 Consensus size: 107
69158923 TTAGTTTACC
* ** * *
69158933 AAATTACTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACCCAAA
1 AAATTACTGAAATACCCTCACATGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCCAAA
* *
69158998 TATCCTCGATTTGCA-AATTATCGAAATACCCTCAGTTTGTA
66 TACCCTCGATTTACAGAATTATCGAAATACCCTCAGTTTGTA
69159039 AAATTACTGAAATACCCTCGACATGTAAAATTACCAAAGTACCCTCGATTTACAAAATTA-CCAT
1 AAATTACTGAAATACCCTC-ACATGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCCA-
**
69159103 TTTACCCTCGATTTACAGAATTA
64 AATACCCTCGATTTACAGAATTA
69159126 CTATTTTACC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
106 21 0.28
107 49 0.65
108 5 0.07
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (107 bp):
AAATTACTGAAATACCCTCACATGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCCAAA
TACCCTCGATTTACAGAATTATCGAAATACCCTCAGTTTGTA
Found at i:69159180 original size:27 final size:27
Alignment explanation
Indices: 69159078--69159290 Score: 284
Period size: 27 Copynumber: 7.9 Consensus size: 27
69159068 ATTACCAAAG
*
69159078 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
69159105 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
69159132 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
69159159 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
69159186 TACCCTTGAATTACAAAATTA-TAGTTT
1 TACCCTCGATTTACAAAATTACTA-TTT
* * *
69159213 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
69159240 CACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
69159267 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAAAATTACTA
69159291 AAATACCCTT
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 158 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:69159297 original size:27 final size:27
Alignment explanation
Indices: 69158958--69159299 Score: 194
Period size: 27 Copynumber: 12.7 Consensus size: 27
69158948 CCTCAGTTGT
* * * *
69158958 AAAATTACCAAAGTACCCTCGGTTTAT
1 AAAATTACTAAATTACCCTCGATTTAC
* * *
69158985 AAAATTACCCAAA-TATCCTCGATTTGC
1 AAAATTA-CTAAATTACCCTCGATTTAC
* **
69159012 -AAATTATCGAAA-TACCCTC-AGTTTGT
1 AAAATTA-CTAAATTACCCTCGA-TTTAC
** **
69159038 AAAATTACTGAAA-TACCCTCGACATGT
1 AAAATTACT-AAATTACCCTCGATTTAC
* *
69159065 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
* **
69159092 AAAATTACCATTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
* ** *
69159119 AGAATTACTATTTTACCCTTGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
**
69159146 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
* * ** * *
69159173 AGAGTTACTATTTTACCCTTGAATTAC
1 AAAATTACTAAATTACCCTCGATTTAC
** *
69159200 AAAATTA-TAGTTTTACCCTCGATTTAT
1 AAAATTACTA-AATTACCCTCGATTTAC
* ** *
69159227 AGAATTACT-GTTTCACCCTTGATTTAC
1 AAAATTACTAAATT-ACCCTCGATTTAC
* ***
69159254 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
*
69159281 AAAATTACTAAAATACCCT
1 AAAATTACTAAATTACCCT
69159300 TGGTTTGTGA
Statistics
Matches: 261, Mismatches: 44, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 29 0.11
27 221 0.85
28 10 0.04
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
AAAATTACTAAATTACCCTCGATTTAC
Found at i:69159315 original size:54 final size:54
Alignment explanation
Indices: 69159078--69159290 Score: 320
Period size: 54 Copynumber: 3.9 Consensus size: 54
69159068 ATTACCAAAG
* *
69159078 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
*
69159132 TACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAGTTACTATTT
1 TACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
* * *
69159186 TACCCTTGAATTACAAAATTA-TAGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTA-TTTTACCCTCGATTTACAGAATTACTATTT
* * * *
69159240 CACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACTA
69159291 AAATACCCTT
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 2 0.01
54 140 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
Found at i:69159326 original size:81 final size:80
Alignment explanation
Indices: 69158958--69159332 Score: 247
Period size: 81 Copynumber: 4.6 Consensus size: 80
69158948 CCTCAGTTGT
* * * * * * *
69158958 AAAATTACCAAAGTACCCTCGGTTTATAAAATTACCCAAATATCCTCGATTTGCA-AATTATCGA
1 AAAATTACTAAAATACCCTCGATTTATAAAATTA-CCGAATACCCTCGATTTACAGAATTA-CTA
** **
69159022 -AATACCCTC-AGTTTGT
64 TTTTACCCTCGA-TTTAC
* ** * * * *
69159038 AAAATTACTGAAATACCCTCGACATGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCAT
1 AAAATTACTAAAATACCCTCGATTTATAAAATTACCGAA-TACCCTCGATTTACAGAATTACTAT
69159103 TTTACCCTCGATTTAC
65 TTTACCCTCGATTTAC
* *** * * * * *
69159119 AGAATTACTATTTTACCCTTGATTTACAAAATTA-CTATTTTACCCTCGATTTACAGAGTTACTA
1 AAAATTACTAAAATACCCTCGATTTATAAAATTACCGA--ATACCCTCGATTTACAGAATTACTA
* *
69159183 TTTTACCCTTGAATTAC
64 TTTTACCCTCGATTTAC
*** * * ** * *
69159200 AAAATTA-TAGTTTTACCCTCGATTTATAGAATTACTGTTTCACCCTTGATTTACAGAATTACTG
1 AAAATTACTA-AAATACCCTCGATTTATAAAATTACCGAAT-ACCCTCGATTTACAGAATTACTA
69159264 TTTTACCCTCGATTTAC
64 TTTTACCCTCGATTTAC
* * * * *
69159281 AAAATTACTAAAATACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTT
1 AAAATTACTAAAATACCCTCGATTTATAAAATTACCG-AATACCCTCGATTT
69159333 GTAAAACTAC
Statistics
Matches: 228, Mismatches: 56, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
79 5 0.02
80 48 0.21
81 171 0.75
82 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTCGATTTATAAAATTACCGAATACCCTCGATTTACAGAATTACTATT
TTACCCTCGATTTAC
Found at i:69160592 original size:9 final size:9
Alignment explanation
Indices: 69160580--69160636 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
69160570 TTTGATAAAC
69160580 ATGATATGT
1 ATGATATGT
*
69160589 ATGATATGCAC
1 ATGATATG--T
*
69160600 ATGACATGT
1 ATGATATGT
*
69160609 ATGATATGCAC
1 ATGATATG--T
69160620 ATGATATGT
1 ATGATATGT
69160629 ATGATATG
1 ATGATATG
69160637 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:69160603 original size:20 final size:20
Alignment explanation
Indices: 69160578--69160648 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
69160568 ATTTTGATAA
69160578 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69160598 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
69160618 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69160638 ACATGAGATGT
1 ACATGATATGT
69160649 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69160625 original size:11 final size:11
Alignment explanation
Indices: 69160589--69160643 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
69160579 CATGATATGT
69160589 ATGATATGCAC
1 ATGATATGCAC
* *
69160600 ATGACATG--T
1 ATGATATGCAC
69160609 ATGATATGCAC
1 ATGATATGCAC
*
69160620 ATGATATG--T
1 ATGATATGCAC
69160629 ATGATATGCAC
1 ATGATATGCAC
69160640 ATGA
1 ATGA
69160644 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:69160748 original size:24 final size:24
Alignment explanation
Indices: 69160691--69160857 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
69160681 GGAGGAAGTG
69160691 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
69160715 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
69160738 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
69160762 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
69160786 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
69160809 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
69160833 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
69160858 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 44 0.33
24 77 0.58
25 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:69160760 original size:47 final size:47
Alignment explanation
Indices: 69160691--69160857 Score: 239
Period size: 47 Copynumber: 3.5 Consensus size: 47
69160681 GGAGGAAGTG
69160691 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
69160738 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
69160786 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
* *
69160833 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
69160858 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
47 67 0.61
48 31 0.28
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:69160807 original size:71 final size:71
Alignment explanation
Indices: 69160691--69160857 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
69160681 GGAGGAAGTG
69160691 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
69160756 AGTTAT
66 AGTTAT
* *
69160762 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
69160827 AGTTAT
66 AGTTAT
* *
69160833 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
69160858 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 79 0.88
72 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:69163878 original size:27 final size:27
Alignment explanation
Indices: 69163828--69163932 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
69163818 AAATCCTTAG
69163828 TTGTAAAATTA-CCAAAGTACCCTCGGT
1 TTGTAAAATTACCCAAA-TACCCTCGGT
* * *
69163855 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCCAAATACCCTCGGT
* * * *
69163882 TTGCAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTACCCAAATACCCTCGGT
**
69163909 TTGTAAAATTACTGAAATACCCTC
1 TTGTAAAATTACCCAAATACCCTC
69163933 ATGTAAAATT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 59 0.92
28 5 0.08
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCCAAATACCCTCGGT
Found at i:69163933 original size:27 final size:27
Alignment explanation
Indices: 69163810--69163944 Score: 108
Period size: 27 Copynumber: 5.2 Consensus size: 27
69163800 TTAGTTTACC
*
69163810 AATTACTGAAAT--CCTTAG-TTGTAA
1 AATTACTGAAATACCCTCAGTTTGTAA
* * *
69163834 AATTAC-CAAAGTACCCTCGGTTTATAA
1 AATTACTGAAA-TACCCTCAGTTTGTAA
** * *
69163861 AATTACCCAAATATCCTC-GATTTGCAA
1 AATTACTGAAATACCCTCAG-TTTGTAA
69163888 AATTA-TCGAAATACCCTCAGTTTGTAA
1 AATTACT-GAAATACCCTCAGTTTGTAA
69163915 AATTACTGAAATACCCTCA---TGTAA
1 AATTACTGAAATACCCTCAGTTTGTAA
69163939 AATTAC
1 AATTAC
69163945 CACCCTCGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.03
24 18 0.20
26 5 0.05
27 59 0.65
28 6 0.07
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACTGAAATACCCTCAGTTTGTAA
Found at i:69163951 original size:19 final size:21
Alignment explanation
Indices: 69163927--69163967 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69163917 TTACTGAAAT
69163927 ACCCTC-ATGTA-AAATTACC
1 ACCCTCGATGTACAAATTACC
*
69163946 ACCCTCGATTTACAAATTACC
1 ACCCTCGATGTACAAATTACC
69163967 A
1 A
69163968 TTTTACCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 4 0.21
21 9 0.47
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.27
Consensus pattern (21 bp):
ACCCTCGATGTACAAATTACC
Found at i:69163998 original size:27 final size:26
Alignment explanation
Indices: 69163946--69164144 Score: 207
Period size: 27 Copynumber: 7.8 Consensus size: 26
69163936 TAAAATTACC
**
69163946 ACCCTCGATTTACAAATTACCATTTT
1 ACCCTCGATTTACAAATTACTGTTTT
69163972 ACCCTCGATTTACAGAATTACTGTTTT
1 ACCCTCGATTTACA-AATTACTGTTTT
*
69163999 ACCCT-GATTTACAAATTACTATTTT
1 ACCCTCGATTTACAAATTACTGTTTT
69164024 ACCCTCGATTTAC----TA---TTTT
1 ACCCTCGATTTACAAATTACTGTTTT
* * *
69164043 ACCCTTGAATTACAAATTACAGTTTT
1 ACCCTCGATTTACAAATTACTGTTTT
* * *
69164069 ACCCTTGATTTATAGAATTACTGTTTC
1 ACCCTCGATTTACA-AATTACTGTTTT
* *
69164096 ACCCTTGATTTATAGAATTACTGTTTT
1 ACCCTCGATTTACA-AATTACTGTTTT
69164123 ACCCTCGATTTACAAAATTACT
1 ACCCTCGATTTAC-AAATTACT
69164145 AAAATACCCT
Statistics
Matches: 150, Mismatches: 12, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.10
22 2 0.01
23 2 0.01
25 16 0.11
26 45 0.30
27 69 0.46
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (26 bp):
ACCCTCGATTTACAAATTACTGTTTT
Found at i:69164055 original size:19 final size:19
Alignment explanation
Indices: 69164012--69164055 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
69164002 CTGATTTACA
69164012 AATTACTATTTTACCCTCG
1 AATTACTATTTTACCCTCG
* *
69164031 ATTTACTATTTTACCCTTG
1 AATTACTATTTTACCCTCG
69164050 AATTAC
1 AATTAC
69164056 AAATTACAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (19 bp):
AATTACTATTTTACCCTCG
Found at i:69164059 original size:97 final size:99
Alignment explanation
Indices: 69163946--69164135 Score: 287
Period size: 97 Copynumber: 1.9 Consensus size: 99
69163936 TAAAATTACC
* *
69163946 ACCCTCGATTTACAAATTACCA-TTTTACCCTCGATTTACAGAATTACTGTTTTACCC-TGATTT
1 ACCCTCGAATTACAAATTA-CAGTTTTACCCTCGATTTACAGAATTACTGTTTCACCCTTGATTT
69164009 ACA-AATTACTATTTTACCCTCGATTTACTATTTT
65 ACAGAATTACTATTTTACCCTCGATTTACTATTTT
* * *
69164043 ACCCTTGAATTACAAATTACAGTTTTACCCTTGATTTATAGAATTACTGTTTCACCCTTGATTTA
1 ACCCTCGAATTACAAATTACAGTTTTACCCTCGATTTACAGAATTACTGTTTCACCCTTGATTTA
* *
69164108 TAGAATTACTGTTTTACCCTCGATTTAC
66 CAGAATTACTATTTTACCCTCGATTTAC
69164136 AAAATTACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
96 2 0.02
97 49 0.59
98 8 0.10
99 24 0.29
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (99 bp):
ACCCTCGAATTACAAATTACAGTTTTACCCTCGATTTACAGAATTACTGTTTCACCCTTGATTTA
CAGAATTACTATTTTACCCTCGATTTACTATTTT
Found at i:69164069 original size:45 final size:44
Alignment explanation
Indices: 69163989--69164080 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
69163979 ATTTACAGAA
* *
69163989 TTACTGTTTTACCCTGATTTACAAATTACTATTTTACCCTCGAT
1 TTACTATTTTACCCTGAATTACAAATTACTATTTTACCCTCGAT
*
69164033 TTACTATTTTACCCTTGAATTACAAATTAC-AGTTTTACCCTTGAT
1 TTACTATTTTACCC-TGAATTACAAATTACTA-TTTTACCCTCGAT
69164078 TTA
1 TTA
69164081 TAGAATTACT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 14 0.33
45 29 0.67
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.46
Consensus pattern (44 bp):
TTACTATTTTACCCTGAATTACAAATTACTATTTTACCCTCGAT
Found at i:69164154 original size:54 final size:52
Alignment explanation
Indices: 69164042--69164156 Score: 122
Period size: 54 Copynumber: 2.2 Consensus size: 52
69164032 TTTACTATTT
* * * ***
69164042 TACCCTTGAATTACAAATTACAGTTTTACCCTTGATTTATAGAATTACTGTT
1 TACCCTTGAATTACAAATTACAGTTTTACCCTCGATTTACAAAATTACTAAA
* * *
69164094 TCACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 T-ACCCTTGAATTACA-AATTACAGTTTTACCCTCGATTTACAAAATTACT-AAA
69164149 TACCCTTG
1 TACCCTTG
69164157 GTTTGTGAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.02
53 12 0.24
54 37 0.73
55 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (52 bp):
TACCCTTGAATTACAAATTACAGTTTTACCCTCGATTTACAAAATTACTAAA
Found at i:69165456 original size:9 final size:9
Alignment explanation
Indices: 69165444--69165500 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
69165434 TTTGATAAAC
69165444 ATGATATGT
1 ATGATATGT
*
69165453 ATGATATGCAC
1 ATGATATG--T
*
69165464 ATGACATGT
1 ATGATATGT
*
69165473 ATGATATGCAC
1 ATGATATG--T
69165484 ATGATATGT
1 ATGATATGT
69165493 ATGATATG
1 ATGATATG
69165501 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:69165467 original size:20 final size:20
Alignment explanation
Indices: 69165442--69165512 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
69165432 ATTTTGATAA
69165442 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69165462 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
69165482 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69165502 ACATGAGATGT
1 ACATGATATGT
69165513 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69165489 original size:11 final size:11
Alignment explanation
Indices: 69165453--69165507 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
69165443 CATGATATGT
69165453 ATGATATGCAC
1 ATGATATGCAC
* *
69165464 ATGACATG--T
1 ATGATATGCAC
69165473 ATGATATGCAC
1 ATGATATGCAC
*
69165484 ATGATATG--T
1 ATGATATGCAC
69165493 ATGATATGCAC
1 ATGATATGCAC
69165504 ATGA
1 ATGA
69165508 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:69165589 original size:23 final size:23
Alignment explanation
Indices: 69165559--69165724 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
69165549 AGGAAGTGCA
69165559 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
69165582 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
69165606 AAAGGG-TTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
69165629 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
69165652 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
69165675 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
69165698 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
69165722 AAA
1 AAA
69165725 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
23 94 0.69
24 43 0.31
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:69165633 original size:47 final size:47
Alignment explanation
Indices: 69165557--69165745 Score: 267
Period size: 47 Copynumber: 4.0 Consensus size: 47
69165547 GGAGGAAGTG
*
69165557 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
69165604 CAAAAGGG-TTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
* *
69165651 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* * *
69165697 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
69165746 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
46 43 0.33
47 65 0.50
48 10 0.08
49 11 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:69165670 original size:70 final size:70
Alignment explanation
Indices: 69165557--69165746 Score: 294
Period size: 70 Copynumber: 2.7 Consensus size: 70
69165547 GGAGGAAGTG
69165557 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGG-TTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCC
69165621 AGTTAT
65 AGTTAT
*
69165627 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
69165692 GTTAT
66 GTTAT
* * *
69165697 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTATA
69165747 TGATAAAGCA
Statistics
Matches: 111, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
69 6 0.05
70 85 0.77
71 9 0.08
72 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
GTTAT
Found at i:69167140 original size:84 final size:84
Alignment explanation
Indices: 69166999--69167160 Score: 252
Period size: 84 Copynumber: 1.9 Consensus size: 84
69166989 GTGTGTGGGC
* * * * *
69166999 GCCCGTGTGGCAAGCCGTGTGACAAAACATGGCTGTGTGGTCTATGAGATGGCCATGAGAGTCTT
1 GCCCGCGTGGCAAGCCATGTGACAAAACATGGCTATGTGGTCGACGAGATGGCCATGAGAGTCTT
69167064 CATGGGCCGAAACGATCAT
66 CATGGGCCGAAACGATCAT
* *
69167083 GCCCGCGTGGCAGGCCATGTGACAAAACATGGCTATGTGGTCGACGAGATGGCCATGAGCGTCTT
1 GCCCGCGTGGCAAGCCATGTGACAAAACATGGCTATGTGGTCGACGAGATGGCCATGAGAGTCTT
*
69167148 CATGGGCTGAAAC
66 CATGGGCCGAAAC
69167161 AATACTGTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (84 bp):
GCCCGCGTGGCAAGCCATGTGACAAAACATGGCTATGTGGTCGACGAGATGGCCATGAGAGTCTT
CATGGGCCGAAACGATCAT
Found at i:69172433 original size:130 final size:129
Alignment explanation
Indices: 69172299--69172541 Score: 355
Period size: 130 Copynumber: 1.9 Consensus size: 129
69172289 TCCTTTAGGT
* *
69172299 TTTCACT-CATTTTTTAGAAAACATTTTAAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGA
1 TTTCACTACATTTTCTA-AAAAC-TTTCAAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGA
* *
69172363 ATCGTGCCCTATCGTGCTGGGTTGCGCCTTTTCA-TTGGTCCAAAATAATTAAAGATCCTTTCGG
64 ATCGAGCCCTATCGTGCTGGGCTGCGCCTTTTCAGTT-GTCCAAAATAATTAAAGATCCTTTCGG
69172427 AA
128 AA
* * * *
69172429 TTTCACTCACATTTTCTAAAATCTTTCAAAATGAAGGCTATGTTCAATGTTTGGCGATTTGAGAA
1 TTTCACT-ACATTTTCTAAAAACTTTCAAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGAA
*
69172494 TCGAGCCCTATCGTGCTGGGCTGCGCTTTTTCAGTTGTCCAAAATAAT
65 TCGAGCCCTATCGTGCTGGGCTGCGCCTTTTCAGTTGTCCAAAATAAT
69172542 CAAATATCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
130 87 0.86
131 6 0.06
132 8 0.08
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (129 bp):
TTTCACTACATTTTCTAAAAACTTTCAAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGAAT
CGAGCCCTATCGTGCTGGGCTGCGCCTTTTCAGTTGTCCAAAATAATTAAAGATCCTTTCGGAA
Found at i:69172573 original size:130 final size:130
Alignment explanation
Indices: 69172326--69172562 Score: 361
Period size: 130 Copynumber: 1.8 Consensus size: 130
69172316 AAAACATTTT
* *
69172326 AAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCC
1 AAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGCTGCGCC
* *
69172391 TTTTCATTGGTCCAAAATAATTAAAGATCCTTTCGGAATTTCACTCACATTTTCTAAAATCTTTC
66 TTTTCATTGGTCCAAAATAATCAAAGATCCTCTCGGAATTTCACTCACATTTTCTAAAATCTTTC
* * * *
69172456 AAAATGAAGGCTATGTTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGCTGCGCT
1 AAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGCTGCGCC
*
69172521 TTTTCAGTT-GTCCAAAATAATCAAATAT-CTCCTCGGAATTTC
66 TTTTCA-TTGGTCCAAAATAATCAAAGATCCT-CTCGGAATTTC
69172563 GCATGTATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
129 2 0.02
130 92 0.96
131 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (130 bp):
AAAACGAAGGCGATGTCCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGCTGCGCC
TTTTCATTGGTCCAAAATAATCAAAGATCCTCTCGGAATTTCACTCACATTTTCTAAAATCTTTC
Found at i:69179162 original size:40 final size:40
Alignment explanation
Indices: 69179117--69179283 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
69179107 CGGAATATAA
69179117 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69179157 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
69179197 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69179237 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
69179276 CCGGATAT
1 CCGGATAT
69179284 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69179267 original size:80 final size:79
Alignment explanation
Indices: 69179117--69179283 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
69179107 CGGAATATAA
* *
69179117 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
69179182 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
69179197 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
69179259 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
69179276 CCGGATAT
1 CCGGATAT
69179284 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:69180131 original size:17 final size:19
Alignment explanation
Indices: 69180108--69180153 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
69180098 AAGAAGCATG
69180108 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
69180126 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
69180144 AATCATGCTC
1 AATCATGCTC
69180154 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:69186629 original size:12 final size:12
Alignment explanation
Indices: 69186606--69186636 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
69186596 AAGTTCATGC
69186606 TTTTCG-AGCCA
1 TTTTCGCAGCCA
69186617 TTTTCGCAGCCA
1 TTTTCGCAGCCA
69186629 TTTTCGCA
1 TTTTCGCA
69186637 TGGCCATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (12 bp):
TTTTCGCAGCCA
Found at i:69187180 original size:40 final size:40
Alignment explanation
Indices: 69187135--69187301 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
69187125 CGGAATATAA
69187135 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69187175 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
69187215 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69187255 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
69187294 CCGGATAT
1 CCGGATAT
69187302 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69187285 original size:80 final size:79
Alignment explanation
Indices: 69187135--69187301 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
69187125 CGGAATATAA
* *
69187135 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
69187200 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
69187215 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
69187277 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
69187294 CCGGATAT
1 CCGGATAT
69187302 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:69188150 original size:17 final size:19
Alignment explanation
Indices: 69188127--69188172 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
69188117 AAGAAGCATG
69188127 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
69188145 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
69188163 AATCATGCTC
1 AATCATGCTC
69188173 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:69195410 original size:44 final size:44
Alignment explanation
Indices: 69195347--69195879 Score: 645
Period size: 44 Copynumber: 12.1 Consensus size: 44
69195337 CGAATCCCAT
* * * *
69195347 AGATTTAGCGTCTCTGTATTGTCAGAGGGCAGATCGAAAATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
69195391 AGATTTGGCGTCTCTGTATTGGCGGAGAACAGATCGAAGGTAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
69195435 AGATTTGGCGTCTCTATATTGGCAGGGAGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* *
69195479 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * * * *
69195523 AGATTTGGCATCTTTATATTGGCGGAGAGTAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
69195567 AGATTTGGCGTCCCTATATTGGGAGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
69195611 AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
69195655 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* *
69195699 AGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
** * * * *
69195743 AGATTTGGCACCTCTATTTTGGCGGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
69195787 AGATTTGGCATATCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-C
* * *
69195831 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
69195875 AGATT
1 AGATT
69195880 GGTGTTCCCG
Statistics
Matches: 414, Mismatches: 73, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
43 1 0.00
44 413 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
Found at i:69195584 original size:132 final size:132
Alignment explanation
Indices: 69195347--69195879 Score: 733
Period size: 132 Copynumber: 4.0 Consensus size: 132
69195337 CGAATCCCAT
* * * *
69195347 AGATTTAGCGTCTCTGTATTGTCAGAGGGCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* * * *
69195412 GCGGAGAACAGATCGAAGGTAACAGATTTGGCGTCTCTATATTGGCAGGGAGTAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
*
69195477 GT
131 GC
* * *
69195479 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTTTATATTG
1 AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* * * *
69195544 GCGGAGAGTAGATCGAAGATAACAGATTTGGCGTCCCTATATTGGGAGGGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
69195609 GC
131 GC
* *
69195611 AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* * * *
69195676 GCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCAAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
69195741 GC
131 GC
* * * * * * * *
69195743 AGATTTGGCACCTCTATTTTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATATCTGTATTG
1 AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* * * * * *
69195808 ACAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
*
69195873 AC
131 GC
69195875 AGATT
1 AGATT
69195880 GGTGTTCCCG
Statistics
Matches: 358, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 358 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (132 bp):
AGATTTGGCGCCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
GC
Found at i:69196483 original size:7 final size:8
Alignment explanation
Indices: 69196456--69196482 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
69196446 GAATATTGTA
69196456 TTTTCATT
1 TTTTCATT
69196464 TTTTCATT
1 TTTTCATT
69196472 TTTTCATT
1 TTTTCATT
69196480 TTT
1 TTT
69196483 CTTTTACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCATT
Found at i:69198902 original size:130 final size:130
Alignment explanation
Indices: 69198803--69199065 Score: 302
Period size: 130 Copynumber: 2.0 Consensus size: 130
69198793 TCCTTTACGT
* * *
69198803 TTTCACT-CATTTTTTAGAAAACATTTTAAAACGAAGGTGATG-TCAAAGGTTTGGCGATTTGAG
1 TTTCACTACATTTTCTA-AAAAC-TTTCAAAACGAAGGCGATGTTC-AAGGTTTGGCGATTTGAG
* * *
69198866 AATCGTGCCCTATCGTGCTAGGTTGCGCCTTTTCA-TTGGTTCAAAACAATTGAAGATCCCTTCA
63 AATCGAGCCCTATCGTGCTAGGCTGCGCCTTTTCATTTGGTTCAAAACAATCGAAGATCCCTTCA
69198930 GAA
128 GAA
* * * *
69198933 TTTCACTCACATTTTCTAAAATCTTTCAAAATGAAGGCGATGTTCGATGTTTGGCGATTTGAGAA
1 TTTCACT-ACATTTTCTAAAAACTTTCAAAACGAAGGCGATGTTCAAGGTTTGGCGATTTGAGAA
* * * * * *
69198998 TCGAGCCCTATCGTGCTGGGCTGCGCTTTTTCATTT-GTCCAAAATAATCAAATATCTCCTTC-G
65 TCGAGCCCTATCGTGCTAGGCTGCGCCTTTTCATTTGGTTCAAAACAATCGAAGATC-CCTTCAG
69199061 AA
129 AA
69199063 TTT
1 TTT
69199066 TACACGTATT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
130 91 0.81
131 13 0.12
132 8 0.07
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (130 bp):
TTTCACTACATTTTCTAAAAACTTTCAAAACGAAGGCGATGTTCAAGGTTTGGCGATTTGAGAAT
CGAGCCCTATCGTGCTAGGCTGCGCCTTTTCATTTGGTTCAAAACAATCGAAGATCCCTTCAGAA
Found at i:69204727 original size:129 final size:130
Alignment explanation
Indices: 69204497--69204756 Score: 495
Period size: 129 Copynumber: 2.0 Consensus size: 130
69204487 TGTTCGGGTT
*
69204497 TCCCGAGACCTAGTTGCTTAAACATTTTGTTAGGCATGAAGTTGATACTAGCCCCTAAATCAGCT
1 TCCCGACACCTAGTTGCTTAAACATTTTGTTAGGCATGAAGTTGATACTAGCCCCTAAATCAGCT
*
69204562 AATGCATTATTAAGATCTAAACTACCAATTAAGCAAAGAAA-ATAAAACTCCCTGGATCTTTTAG
66 AATGCATTATTAACATCTAAACTACCAATTAAGCAAAGAAACATAAAACTCCCTGGATCTTTTAG
69204626 TCCCGACACCTAGTTGCTTAAACATTTTGTTAGGCATGAAGTTGATACTAGCCCCTAAATCAGCT
1 TCCCGACACCTAGTTGCTTAAACATTTTGTTAGGCATGAAGTTGATACTAGCCCCTAAATCAGCT
69204691 AATGCATTATTAACATCTAAACTACCAATTAAGCAAAGAAACATAAAACTCCCTGGATCTTTTAG
66 AATGCATTATTAACATCTAAACTACCAATTAAGCAAAGAAACATAAAACTCCCTGGATCTTTTAG
69204756 T
1 T
69204757 TTGTTTGGTA
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
129 104 0.81
130 24 0.19
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (130 bp):
TCCCGACACCTAGTTGCTTAAACATTTTGTTAGGCATGAAGTTGATACTAGCCCCTAAATCAGCT
AATGCATTATTAACATCTAAACTACCAATTAAGCAAAGAAACATAAAACTCCCTGGATCTTTTAG
Found at i:69206748 original size:40 final size:39
Alignment explanation
Indices: 69206703--69206910 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
69206693 CGGAATACAA
*
69206703 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
69206743 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
69206783 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
69206823 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
69206863 CCGAATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
69206903 CCGGATAT
1 CCGGATAT
69206911 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:69206843 original size:80 final size:80
Alignment explanation
Indices: 69206703--69206909 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
69206693 CGGAATACAA
* * *
69206703 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
69206767 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
69206783 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
69206847 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
69206863 CCGAATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
69206910 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:69211935 original size:48 final size:48
Alignment explanation
Indices: 69211565--69211937 Score: 532
Period size: 48 Copynumber: 7.8 Consensus size: 48
69211555 CCTATGGCAT
69211565 TGTGATCCCATGTAAGACCATGT-TAGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATA
* * * *
69211613 TATGATCCCATGTAAGACCATGTTTGAGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
69211661 TGTGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
69211709 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
69211757 TGTGATCCCGTGTAAGACCATGTCTGGGACATAGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
69211805 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * * *
69211853 TGTGATCCTAAGTAAGACCATATTTGGGATATGGCGTTAGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
**** **
69211901 TGTGATTTTGTGTAAGACCATGTCAAGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
69211938 CGATATGAGA
Statistics
Matches: 292, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
48 291 1.00
49 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:69214483 original size:28 final size:28
Alignment explanation
Indices: 69214402--69214483 Score: 74
Period size: 33 Copynumber: 2.8 Consensus size: 28
69214392 TAAATAGTGC
* *
69214402 ATGCAGTAATAGTCTGGGCCTGAGCCCT
1 ATGCAGTAACAGTATGGGCCTGAGCCCT
* * *
69214430 ATTCAGTATCAATACAGTTTGGGCCTTAGCCCT
1 ATGCAG--T--A-ACAGTATGGGCCTGAGCCCT
69214463 ATGCAGTAACAGTATGGGCCT
1 ATGCAGTAACAGTATGGGCCT
69214484 ACGCCCAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
28 17 0.40
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 22 0.51
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (28 bp):
ATGCAGTAACAGTATGGGCCTGAGCCCT
Found at i:69214718 original size:27 final size:26
Alignment explanation
Indices: 69214676--69214745 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
69214666 AATGTCGCAA
* * *
69214676 AGCCACCATTATCAGTAATTGTGGCAT
1 AGCCACCAGTAACAGTAA-TGTGACAT
*
69214703 AGCCACTAGTAACAGTGAATGTGACAT
1 AGCCACCAGTAACAGT-AATGTGACAT
*
69214730 AGTCACCAGTAA-AGTA
1 AGCCACCAGTAACAGTA
69214746 CCTCCTCCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.03
26 3 0.08
27 30 0.83
28 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (26 bp):
AGCCACCAGTAACAGTAATGTGACAT
Found at i:69214903 original size:27 final size:27
Alignment explanation
Indices: 69214872--69214927 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
69214862 GGAACATAAA
69214872 GGCATAATCGTCATTTTACCATACAGG
1 GGCATAATCGTCATTTTACCATACAGG
* * *
69214899 GGCATTATGGTCATTTTACCCTACAGG
1 GGCATAATCGTCATTTTACCATACAGG
69214926 GG
1 GG
69214928 TTTCAGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
GGCATAATCGTCATTTTACCATACAGG
Found at i:69216193 original size:12 final size:12
Alignment explanation
Indices: 69216178--69216203 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69216168 GAGAATTATG
69216178 GAGAAGAGAAAA
1 GAGAAGAGAAAA
69216190 GAGAAGAGAAAA
1 GAGAAGAGAAAA
69216202 GA
1 GA
69216204 AAAGCTTCGG
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAGAAGAGAAAA
Done.