Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 63 of 325
Found at i:16849982 original size:17 final size:17
Alignment explanation
Indices: 16849960--16849996 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16849950 TATAGTTGCG
16849960 TAAGTACGAAATTACCC
1 TAAGTACGAAATTACCC
16849977 TAAGTACGAAATTACCC
1 TAAGTACGAAATTACCC
16849994 TAA
1 TAA
16849997 AGAGCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (17 bp):
TAAGTACGAAATTACCC
Found at i:16854577 original size:30 final size:30
Alignment explanation
Indices: 16854541--16854597 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
16854531 ATCCCGAGCC
16854541 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * *
16854571 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
16854598 ATTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:16855076 original size:46 final size:46
Alignment explanation
Indices: 16855026--16855201 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
16855016 TGGTTGAGCA
16855026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16855072 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
16855117 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16855165 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16855202 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16855182 original size:93 final size:93
Alignment explanation
Indices: 16855023--16855194 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16855013 GGATGGTTGA
* *
16855023 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16855088 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
16855116 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16855181 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16855195 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:16858238 original size:43 final size:43
Alignment explanation
Indices: 16858177--16858562 Score: 479
Period size: 43 Copynumber: 9.0 Consensus size: 43
16858167 ATGTGATTCT
** * * * *
16858177 GATATGTGACGACGTGTAAGACCACATTTGGGAAGTTGGAATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
16858220 GATATGTGAATACGTGTAAGACCACGTCTGGCACGTTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
16858263 GATATGTGATTATGTGTAAGACAATGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * * *
16858306 GATATGTGAATATGTGTAAGACCACGTCTAGGACATTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
16858349 GATTTGTGAATACGTGTAAGACCACGTCTAGGACGTTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
16858392 GATATGTGATTATGTGTAAGACCACATATGAGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
*
16858435 GATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
16858478 GATATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
* * *
16858521 GATATGTGATTACATGTAACACCACGTCTGGGACATTGGCAT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
16858563 TGTACGATAT
Statistics
Matches: 299, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.00
43 296 0.99
44 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:16859770 original size:65 final size:65
Alignment explanation
Indices: 16859674--16859796 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
16859664 CAGGCATCAG
* *
16859674 ATAATAATATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
1 ATAATAACATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
*
16859739 ATAATAACATAGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
1 ATAATAACATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
16859797 ACCTTAGGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (65 bp):
ATAATAACATAGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
Found at i:16859855 original size:27 final size:26
Alignment explanation
Indices: 16859801--16859855 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
16859791 ACCTTAACCT
* * *
16859801 TAGGGGTATATCAGTAATTTTGCTCC
1 TAGGGGTAAATCAGTAATTTTCCACC
*
16859827 TAGGGGTAAATCTGTAAATTTTCCACC
1 TAGGGGTAAATCAGT-AATTTTCCACC
16859854 TA
1 TA
16859856 AAAAGGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (26 bp):
TAGGGGTAAATCAGTAATTTTCCACC
Found at i:16881128 original size:43 final size:43
Alignment explanation
Indices: 16881067--16881450 Score: 475
Period size: 43 Copynumber: 8.9 Consensus size: 43
16881057 GTGATTCCAT
*
16881067 TATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCATCGA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
* * *
16881110 TATGTGAATATGTGTAAGACCACATCTGGGACATTGGCATCGA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
* * **
16881153 TATGTGATTACGTGTAAGACAACATTTGGGACACTGGCATCGA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
*
16881196 TATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
* * * * * **
16881239 TATGTGAATATGTGTATGACCACGTCTGAGACGTTGGCATTAA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
* * * *
16881282 TATGTGATTACATGTAAGACCACGTATGGGACGCTGGCATCGA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
* ** *
16881325 TATGTGATTATGTGTAAGACCACATCTAAGACATTGGCATCGA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
**
16881368 TATGTGATTACGTGTAAGACTC-TGTCTGGGACAG-TGGCATCGA
1 TATGTGATTACGTGTAAGAC-CACATCTGGGAC-GTTGGCATCGA
** *
16881411 TATGTGATTATATGTAAGACCACATCTGGGACGTTAGCAT
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCAT
16881451 TGTACGAAAT
Statistics
Matches: 289, Mismatches: 48, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
42 2 0.01
43 286 0.99
44 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGA
Found at i:16881443 original size:129 final size:129
Alignment explanation
Indices: 16881067--16881443 Score: 524
Period size: 129 Copynumber: 2.9 Consensus size: 129
16881057 GTGATTCCAT
*
16881067 TATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCATCGATATGTGAATATGTGTAAGACCA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGAATATGTGTAAGACCA
* * * * * *
16881132 CATCTGGGACATTGGCATCGATATGTGATTACGTGTAAGACAACATTTGGGACACTGGCATCGA
66 CGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCACATATGGGACGCTGGCATCGA
* *
16881196 TATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGAATATGTGTATGACCA
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGAATATGTGTAAGACCA
* ** *
16881261 CGTCTGAGAC-GTTGGCATTAATATGTGATTACATGTAAGACCACGTATGGGACGCTGGCATCGA
66 CGTCTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACCACATATGGGACGCTGGCATCGA
* ** * * *
16881325 TATGTGATTATGTGTAAGACCACATCTAAGACATTGGCATCGATATGTGATTACGTGTAAGACTC
1 TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGAATATGTGTAAGAC-C
* * *
16881390 -TGTCTGGGACAGTGGCATCGATATGTGATTATATGTAAGACCACATCTGGGACG
65 ACGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCACATATGGGACG
16881444 TTAGCATTGT
Statistics
Matches: 217, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
129 215 0.99
130 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (129 bp):
TATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGAATATGTGTAAGACCA
CGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCACATATGGGACGCTGGCATCGA
Found at i:16883952 original size:40 final size:40
Alignment explanation
Indices: 16883895--16884027 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
16883885 TGATAACCGA
* *
16883895 GCTAAGTCCCGACGGCATTTGTGCGAGTTACTATATTCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCGG
*
16883935 GCTAAGTGCCGAAGGCATTTGTGCGAGTTACTATAATCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCGG
* *
16883975 GCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTAT-ATC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAATCGG
*
16884013 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
16884028 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.18
39 5 0.06
40 65 0.76
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCGG
Found at i:16891924 original size:39 final size:40
Alignment explanation
Indices: 16891787--16891924 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
16891777 CGGATGATAA
*
16891787 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
16891827 CCGGGCTAAGTCCCTAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16891867 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
16891907 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16891925 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.19
40 73 0.81
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16897043 original size:55 final size:53
Alignment explanation
Indices: 16896959--16897210 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 53
16896949 AGGGTTTAAG
* *
16896959 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGCAAA
* * * * *
16897014 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGCAAA
* * * * * *
16897069 GGTCCCAGGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAA
* * *
16897122 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAA
* * * * *
16897171 GATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
16897211 GTATCTGTGT
Statistics
Matches: 164, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
49 39 0.24
52 3 0.02
53 44 0.27
54 11 0.07
55 67 0.41
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAA
Found at i:16897162 original size:108 final size:110
Alignment explanation
Indices: 16896967--16897163 Score: 310
Period size: 108 Copynumber: 1.8 Consensus size: 110
16896957 AGGATACCAT
* *
16896967 GTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAATGAAATCATGTAAGACCAT
1 GTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
*
16897032 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCAG
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCAG
* *
16897077 GTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACCA
1 GTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACCA
*
16897139 TGTCAAGACATGGCAATGGTAAGTT
65 TGTCAAGACATGGCAATGATAAGTT
16897164 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 23 0.29
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
GTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCAG
Found at i:16910639 original size:18 final size:18
Alignment explanation
Indices: 16910616--16910661 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
16910606 TAGCCCATTA
16910616 CAGTAACAGTAAACAATG
1 CAGTAACAGTAAACAATG
* *
16910634 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAAACAATG
16910652 CAGTAACAGT
1 CAGTAACAGT
16910662 TTAAACAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAAACAATG
Found at i:16911040 original size:27 final size:27
Alignment explanation
Indices: 16910995--16911047 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
16910985 ACATAGGGGC
16910995 AAAATAGTCACCTTACATATA-AGGGA
1 AAAATAGTCACCTTACATATATAGGGA
**
16911021 AAAATAGTCATTTTATCATATATAGGG
1 AAAATAGTCACCTTA-CATATATAGGG
16911048 GGTCTAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 6 0.26
28 4 0.17
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (27 bp):
AAAATAGTCACCTTACATATATAGGGA
Found at i:16913812 original size:56 final size:56
Alignment explanation
Indices: 16913752--16914020 Score: 412
Period size: 56 Copynumber: 4.8 Consensus size: 56
16913742 TCCCAGACAG
* * *
16913752 GGTCTTACTCGTAAACACATATCGGAATCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
16913808 GGTCTTACTCGCACACACATATCGGAATCACATGTCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
16913864 GGTCTTACTCACACACACATATCGGAATCATATATCGGTGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
16913920 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAATGTATTAAATGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
** *
16913976 ATTCTTACTCGCACACACATATCGGAATCACATATTGATGCCAAC
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAAC
16914021 TCAAGAATGT
Statistics
Matches: 192, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 192 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:16922341 original size:35 final size:35
Alignment explanation
Indices: 16922261--16922342 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
16922251 GTAGTTGGAT
* * *** * *
16922261 AAATGGTCTACTGGCTCTACGGAGTGGCATCATGG
1 AAATGGTCTACTAGCTCTACAGAGCAACACCATGA
**
16922296 AAATTATCTACTAGCTCTACAGAGCAACACCATGA
1 AAATGGTCTACTAGCTCTACAGAGCAACACCATGA
16922331 AAATGGTCTACT
1 AAATGGTCTACT
16922343 GACTCATCAG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (35 bp):
AAATGGTCTACTAGCTCTACAGAGCAACACCATGA
Found at i:16925919 original size:43 final size:42
Alignment explanation
Indices: 16925822--16925931 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
16925812 GACTTGAGAT
* * *
16925822 TTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATATGA
1 TTACATGTAAGACCCTGTCTGGGACATCGGCATGGTATATGA
* * *
16925864 TTTCATGTAAGACCCTGTCTGGGATAGT-GGCATGGATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACA-TCGGCATGG-TATATGA
16925907 TTACATGTAAGACCAC-GTCTGGGAC
1 TTACATGTAAGACC-CTGTCTGGGAC
16925932 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 28 0.49
43 28 0.49
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCCTGTCTGGGACATCGGCATGGTATATGA
Found at i:16925938 original size:43 final size:43
Alignment explanation
Indices: 16925783--16925939 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
16925773 TGTGATATTG
* * *
16925783 TGTAAGACCACATCTGGGACGTTGGTATCGACT-TGA-GATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TAT-ATGA-TTACA
* * * * *
16925827 TGTAAGACCATGTCTGGGACATCGGCATTG-TATATGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
* * *
16925869 TGTAAGACC-CTGTCTGGGATAG-TGGCATGGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATATGATTACA
16925912 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
16925940 TGTACAAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 29 0.32
43 36 0.40
44 25 0.28
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACA
Found at i:16927118 original size:20 final size:20
Alignment explanation
Indices: 16927093--16927130 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16927083 GTTTATTCGC
*
16927093 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
16927113 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
16927131 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:16935047 original size:20 final size:20
Alignment explanation
Indices: 16935022--16935059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16935012 GTTTATTCGC
*
16935022 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
16935042 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
16935060 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:16936694 original size:28 final size:28
Alignment explanation
Indices: 16936662--16936730 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
16936652 GCGTAGATCA
16936662 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16936690 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
16936718 CGATA-TACCCCTA
1 CGAAATTACCCCTA
16936731 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:16943870 original size:20 final size:20
Alignment explanation
Indices: 16943845--16943882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16943835 GTTTATTCGC
*
16943845 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
16943865 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
16943883 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:16945525 original size:28 final size:28
Alignment explanation
Indices: 16945493--16945561 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
16945483 GCGTAGATCA
16945493 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16945521 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
16945549 CGATA-TACCCCTA
1 CGAAATTACCCCTA
16945562 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:16950395 original size:46 final size:44
Alignment explanation
Indices: 16950342--16950505 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 44
16950332 GACGAGGGCT
16950342 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATC-GCCACAG-ATGAGAGCC
* * ** *
16950388 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTCATCC
1 AGTGTAAGACATGTCTAGGACATGCATCG-CCAC-AGATGAGAGCC
* * * *
16950434 AGTGTCAA-ACATGTCTAGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGT-AAGACATGTCTAGGACATGCATC-GCCACAGATGA-GAGCC
* *
16950478 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTAGGACATGCATC
16950506 TACACGGTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
43 3 0.03
44 25 0.26
45 1 0.01
46 61 0.64
47 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGCCACAGATGAGAGCC
Found at i:16957526 original size:20 final size:20
Alignment explanation
Indices: 16957503--16957558 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
16957493 ACATGGTATG
*
16957503 TATGATATGCACATGACATA
1 TATGATATGCACATGAAATA
*
16957523 TATGATATGCACATGAAATG
1 TATGATATGCACATGAAATA
16957543 TATGATATGCACATGA
1 TATGATATGCACATGA
16957559 TGTACTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
TATGATATGCACATGAAATA
Found at i:16957636 original size:24 final size:24
Alignment explanation
Indices: 16957609--16957704 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
16957599 GAGGAAGTGC
16957609 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
16957633 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
16957657 AAAAGGGATTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
16957681 GAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
16957705 ATGATAAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
24 54 0.84
25 10 0.16
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:16962684 original size:24 final size:23
Alignment explanation
Indices: 16962656--16962703 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
16962646 ACCTTTGCTC
*
16962656 TTTTAGCATGAACTTGTCTTACCT
1 TTTTAGCAT-AACTCGTCTTACCT
*
16962680 TTTTAGTATAACTCGTCTTACCT
1 TTTTAGCATAACTCGTCTTACCT
16962703 T
1 T
16962704 ACCTTACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTTAGCATAACTCGTCTTACCT
Found at i:16962996 original size:55 final size:54
Alignment explanation
Indices: 16962772--16963026 Score: 197
Period size: 55 Copynumber: 4.8 Consensus size: 54
16962762 ACACGGGTAC
* * * **
16962772 CTTACC-ATTTCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAA
* * * * *
16962821 CTTACC-ATTGCCATGTCTCGACATGGTCATACATGGTATTCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCCCTTA-GAAA
* * * * * * *
16962874 CTCACCAA-TACCAAGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TT-CCCT-TAGAAA
* * * *
16962929 CTTA-TAAATGCCATGTCTTGAAATGGTCTTACATGGTATCCTTCCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAA
*
16962982 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
16963027 AAACCCTAAT
Statistics
Matches: 158, Mismatches: 34, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
49 35 0.22
52 3 0.02
53 37 0.23
54 14 0.09
55 67 0.42
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAA
Found at i:16971454 original size:40 final size:40
Alignment explanation
Indices: 16971409--16971575 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16971399 CGGAATATAA
16971409 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16971449 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
16971489 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16971529 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16971568 CCGGATAT
1 CCGGATAT
16971576 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:16971559 original size:80 final size:79
Alignment explanation
Indices: 16971409--16971575 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
16971399 CGGAATATAA
* *
16971409 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
16971474 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
16971489 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
16971551 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
16971568 CCGGATAT
1 CCGGATAT
16971576 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:16972424 original size:17 final size:19
Alignment explanation
Indices: 16972401--16972446 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
16972391 AAGAAGCATG
16972401 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
16972419 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
16972437 AATCATGCTC
1 AATCATGCTC
16972447 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:16979469 original size:40 final size:40
Alignment explanation
Indices: 16979424--16979590 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16979414 CGGAATATAA
16979424 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16979464 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
16979504 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16979544 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16979583 CCGGATAT
1 CCGGATAT
16979591 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:16979574 original size:80 final size:79
Alignment explanation
Indices: 16979424--16979590 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
16979414 CGGAATATAA
* *
16979424 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
16979489 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
16979504 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
16979566 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
16979583 CCGGATAT
1 CCGGATAT
16979591 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:16980439 original size:17 final size:19
Alignment explanation
Indices: 16980416--16980461 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
16980406 AAGAAGCATG
16980416 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
16980434 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
16980452 AATCATGCTC
1 AATCATGCTC
16980462 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:16985094 original size:29 final size:28
Alignment explanation
Indices: 16985031--16985145 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
16985021 TTCACATACC
* * * *
16985031 TGTATCTGGCCCATTAAGCCCAATCATA
1 TGTATATGGCCCATTAGGCCAAATCACA
* *
16985059 T-TCATATGGCCCATTAGGCTCGAATCACC
1 TGT-ATATGGCCCATTAGGC-CAAATCACA
16985088 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGG-CCAAATCACA
* * * *
16985117 TTTATATGGCCCGTTAGGCCCAGTCACA
1 TGTATATGGCCCATTAGGCCAAATCACA
16985145 T
1 T
16985146 TCATAATCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.01
28 24 0.33
29 45 0.62
30 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (28 bp):
TGTATATGGCCCATTAGGCCAAATCACA
Found at i:16985241 original size:18 final size:19
Alignment explanation
Indices: 16985218--16985253 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16985208 ATGGGCCCAA
16985218 TAGCCCATCA-GGCCCATT
1 TAGCCCATCATGGCCCATT
*
16985236 TAGCCCATTATGGCCCAT
1 TAGCCCATCATGGCCCAT
16985254 ATGGCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (19 bp):
TAGCCCATCATGGCCCATT
Found at i:16993564 original size:29 final size:29
Alignment explanation
Indices: 16993509--16993645 Score: 170
Period size: 29 Copynumber: 4.8 Consensus size: 29
16993499 CATGTATCTA
* * *
16993509 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
*
16993537 GCCCATTAGGCCCAAATCACCTTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* *
16993566 GCCTATTAGGCCCAAATCACCTTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* *
16993595 GCCTATTAGGCCCAAATCAGATTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* *
16993624 GCCCGTTAGGCCC-AGTCACATT
1 GCCCATTAGGCCCAAATCACATT
16993646 CATAATCATG
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 19 0.20
29 78 0.80
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTATATG
Found at i:16993886 original size:16 final size:16
Alignment explanation
Indices: 16993861--16993895 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16993851 ATAGCCAAAC
*
16993861 TTTCGGCATTTCGGCT
1 TTTCGACATTTCGGCT
*
16993877 TTTCGACATTTTGGCT
1 TTTCGACATTTCGGCT
16993893 TTT
1 TTT
16993896 GCCGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCGACATTTCGGCT
Found at i:16997330 original size:43 final size:43
Alignment explanation
Indices: 16997187--16997334 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
16997177 GGTTACCGAG
* * * *
16997187 ATGTGATTACATGTAAGACCCTGAGTAGGATAGTGGCATTGTA
1 ATGTGATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTA
* * *
16997230 TTGCGATTAC-TGTAAGACCTTGTGTGGGACA-TCGGCATCGTTA
1 ATGTGATTACATGTAAGACCCTGTGTGGGACAGT-GGCATCG-TA
* * *
16997273 AT-TGACTT-CGTGTAAGACCCTGTGTGGGACAGTGACATCGAA
1 ATGTGA-TTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTA
*
16997315 ATGTGATAACATGTAAGACC
1 ATGTGATTACATGTAAGACC
16997335 ATATCTAGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.36
43 52 0.62
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGTA
Found at i:16997742 original size:41 final size:41
Alignment explanation
Indices: 16997671--16997826 Score: 135
Period size: 41 Copynumber: 3.8 Consensus size: 41
16997661 TGATATTTGG
* * * *
16997671 GCTTTAAGCCTAGCAAGCATTGTGCTGGTGAATGTAATCAA
1 GCTTTAAGCCTAGCAGGCTTTATGCCGGTGAATGTAATCAA
* *
16997712 GCTTTATGCCTAGCAGGC-TTATTGCCGGTGAATATAAT-ATCA
1 GCTTTAAGCCTAGCAGGCTTTA-TGCCGGTGAATGTAATCA--A
* *
16997754 GACTTTAAGTCTAGCAGGCTTTGA-GCCGGTG--TGTAATACAG
1 G-CTTTAAGCCTAGCAGGCTTT-ATGCCGGTGAATGTAAT-CAA
*
16997795 GC-TTATGCCTAGCAGGCTTTATGCCGGTGAAT
1 GCTTTAAGCCTAGCAGGCTTTATGCCGGTGAAT
16997827 TATTAAAAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
38 1 0.01
39 23 0.25
40 4 0.04
41 37 0.40
42 2 0.02
43 23 0.25
44 2 0.02
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
GCTTTAAGCCTAGCAGGCTTTATGCCGGTGAATGTAATCAA
Found at i:16997821 original size:39 final size:42
Alignment explanation
Indices: 16997713--16997824 Score: 126
Period size: 39 Copynumber: 2.7 Consensus size: 42
16997703 TGTAATCAAG
16997713 CTTTATGCCTAGCAGGC-TTATTGCCGGTGAATATAATATCAGA
1 CTTTATGCCTAGCAGGCTTTA-TGCCGGTG-ATATAATATCAGA
* * * *
16997756 CTTTAAGTCTAGCAGGCTTTGA-GCCGGTG-TGTAATA-CAGG
1 CTTTATGCCTAGCAGGCTTT-ATGCCGGTGATATAATATCAGA
16997796 C-TTATGCCTAGCAGGCTTTATGCCGGTGA
1 CTTTATGCCTAGCAGGCTTTATGCCGGTGA
16997825 ATTATTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
38 1 0.02
39 23 0.39
40 4 0.07
41 6 0.10
43 22 0.37
44 2 0.03
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (42 bp):
CTTTATGCCTAGCAGGCTTTATGCCGGTGATATAATATCAGA
Found at i:17002974 original size:55 final size:53
Alignment explanation
Indices: 17002839--17003046 Score: 213
Period size: 55 Copynumber: 3.8 Consensus size: 53
17002829 ATCCTTTTGA
* * *
17002839 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
17002892 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCTTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * *
17002946 TAACTTATCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * * *
17002999 AAATCATACCGATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACC-AATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
17003047 AAACCCTAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 5 0.04
55 74 0.58
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:17002983 original size:108 final size:109
Alignment explanation
Indices: 17002839--17003039 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 109
17002829 ATCCTTTTGA
* * *
17002839 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC-ACC-AA
1 AACTTACCAATGCCATGTCTCGACATGGTCCTACATGGTATCCTTGCCTTA-GAAATCAACCGAA
17002902 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
* * *
17002947 AACTTATCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTGCCTTAGAAATCATACCGAT
1 AACTTACCAATGCCATGTCTCGACATGGTCCTACATGGTATCCTTGCCTTAGAAATCA-ACCGAA
17003012 TGCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
17003040 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 5 0.06
108 47 0.56
109 3 0.04
110 29 0.35
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTCGACATGGTCCTACATGGTATCCTTGCCTTAGAAATCAACCGAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
Found at i:17009259 original size:42 final size:43
Alignment explanation
Indices: 17009201--17009298 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 43
17009191 GACTTGAGAT
* * * *
17009201 TTACGTGTAAGACCATGTCTGGGACATCGGTATC-ATATATGA
1 TTACATGTAAGACCATGTCTGAGACAGCGGCATCGATATATGA
* *
17009243 TTTCATGTAAGACCATGTCTGAGACAGCGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGAGACAGCGGCATCGATATATGA
17009286 TTACATGTAAGAC
1 TTACATGTAAGAC
17009299 TATCAATGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGAGACAGCGGCATCGATATATGA
Found at i:17020629 original size:93 final size:93
Alignment explanation
Indices: 17020465--17020635 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
17020455 GGATGGTTGA
* *
17020465 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
*
17020530 TAAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCAAGTTCGTGAGATGTAACTAG
* * * *
17020558 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
*
17020623 TGAGTCCAAGTTC
66 TAAGTCCAAGTTC
17020636 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
TAAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:17020638 original size:46 final size:45
Alignment explanation
Indices: 17020469--17020640 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
17020459 GGTTGAGCAT
* * * *
17020469 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGTGAACGC
* * *
17020515 CCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA-GATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGTGAAC---GC
17020560 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGTGAACGC
* *
17020608 CCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17020641 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 27 0.26
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGTGAACGC
Found at i:17023825 original size:13 final size:13
Alignment explanation
Indices: 17023803--17023835 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17023793 AGGGATTTGT
17023803 TTAT-TAAACTAA
1 TTATCTAAACTAA
17023815 TTATCTAAACTAA
1 TTATCTAAACTAA
*
17023828 TTAACTAA
1 TTATCTAA
17023836 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:17024883 original size:20 final size:21
Alignment explanation
Indices: 17024847--17024897 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
17024837 CGTGTGATCT
*
17024847 TCTCGATTTGGTCCG-TTTTG
1 TCTCGTTTTGGTCCGTTTTTG
17024867 TCTCGTTTTAGGT-CGTTTTTG
1 TCTCGTTTT-GGTCCGTTTTTG
*
17024888 GCTCGTTTTG
1 TCTCGTTTTG
17024898 ACTCTTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.04, C:0.18, G:0.25, T:0.53
Consensus pattern (21 bp):
TCTCGTTTTGGTCCGTTTTTG
Found at i:17026749 original size:6 final size:5
Alignment explanation
Indices: 17026720--17026806 Score: 65
Period size: 5 Copynumber: 16.8 Consensus size: 5
17026710 TATGTCTTTC
* *
17026720 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAATT AAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAA-T AAAA-T AAAAT
17026768 AAAAT -AAAT AAAAT AAAAT AAAAAT AAGAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
17026807 AATAGGAGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
3 3 0.04
4 7 0.10
5 28 0.42
6 28 0.42
7 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:17026752 original size:17 final size:16
Alignment explanation
Indices: 17026730--17026786 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
17026720 AAAATAAAAT
17026730 AATAAAATTGAAATGAA
1 AATAAAATT-AAATGAA
*
17026747 AATAAAAATTAAAAGAAA
1 AAT-AAAATTAAATG-AA
17026765 AATAAAA-TAAAT-AA
1 AATAAAATTAAATGAA
17026779 AATAAAAT
1 AATAAAAT
17026787 AAAAATAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 9 0.26
16 4 0.11
17 11 0.31
18 11 0.31
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAAAATTAAATGAA
Found at i:17026767 original size:43 final size:42
Alignment explanation
Indices: 17026720--17026810 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 42
17026710 TATGTCTTTC
* *
17026720 AAAATAAAAT-AATAAAATTGAAATGAAAATAAAAATTAAA-AGA
1 AAAATAAAATAAATAAAA-TAAAATAAAAATAAAAA-TAAATA-A
*
17026763 AAAATAAAATAAATAAAATAAAATAAAAATAAGAATAAATAA
1 AAAATAAAATAAATAAAATAAAATAAAAATAAAAATAAATAA
17026805 AAAATA
1 AAAATA
17026811 GGAGGATTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 11 0.26
43 25 0.58
44 7 0.16
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (42 bp):
AAAATAAAATAAATAAAATAAAATAAAAATAAAAATAAATAA
Found at i:17026780 original size:26 final size:26
Alignment explanation
Indices: 17026746--17026806 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
17026736 ATTGAAATGA
17026746 AAATAAAAATTAAAAGAAAAATAA-AAT
1 AAAT-AAAA-TAAAAGAAAAATAAGAAT
*
17026773 AAATAAAATAAAATAAAAATAAGAAT
1 AAATAAAATAAAAGAAAAATAAGAAT
17026799 AAATAAAA
1 AAATAAAA
17026807 AATAGGAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 13 0.41
26 15 0.47
27 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (26 bp):
AAATAAAATAAAAGAAAAATAAGAAT
Found at i:17028742 original size:21 final size:20
Alignment explanation
Indices: 17028718--17028762 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
17028708 TCGCTTCTCC
*
17028718 CACGCCCATGTTTTATGGTA
1 CACGCCCATGTATTATGGTA
* *
17028738 GCACGCCCGTGTATTATTGTA
1 -CACGCCCATGTATTATGGTA
17028759 CACG
1 CACG
17028763 GCTGAATGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
CACGCCCATGTATTATGGTA
Found at i:17032170 original size:13 final size:13
Alignment explanation
Indices: 17032148--17032180 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17032138 AAGGATTTGT
17032148 TTAT-TAAACTAA
1 TTATCTAAACTAA
17032160 TTATCTAAACTAA
1 TTATCTAAACTAA
*
17032173 TTAACTAA
1 TTATCTAA
17032181 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:17034094 original size:19 final size:19
Alignment explanation
Indices: 17034070--17034108 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17034060 CCTGTAATTA
17034070 CTCCATCACTCTACTTCTT
1 CTCCATCACTCTACTTCTT
17034089 CTCCATCACTCTACTTCTT
1 CTCCATCACTCTACTTCTT
17034108 C
1 C
17034109 CTATTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.44, G:0.00, T:0.41
Consensus pattern (19 bp):
CTCCATCACTCTACTTCTT
Found at i:17037677 original size:39 final size:39
Alignment explanation
Indices: 17037630--17037812 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
17037620 AATGTTCGAG
17037630 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
17037669 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
17037708 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
17037747 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
17037787 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
17037813 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:17045629 original size:39 final size:39
Alignment explanation
Indices: 17045582--17045764 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
17045572 AATGTTCGAG
17045582 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
17045621 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
17045660 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
17045699 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
17045739 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
17045765 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:17051413 original size:28 final size:28
Alignment explanation
Indices: 17051381--17051449 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
17051371 TATATATATG
*
17051381 TGGCACTTAGTGTGCGAAATATTTAGAA
1 TGGCACTTAGTGTGCGAAATATTGAGAA
* * *
17051409 TGGCACTTGGTGTGCGAGATATTGAGTA
1 TGGCACTTAGTGTGCGAAATATTGAGAA
*
17051437 TGACACTTAGTGT
1 TGGCACTTAGTGT
17051450 TCGAGACATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAATATTGAGAA
Found at i:17053235 original size:12 final size:12
Alignment explanation
Indices: 17053218--17053259 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
17053208 GAAATTTTTT
17053218 AAGTTTTCCCAA
1 AAGTTTTCCCAA
17053230 AAGTTTT-CC--
1 AAGTTTTCCCAA
17053239 AAGTTTTCCCAA
1 AAGTTTTCCCAA
17053251 AAGTTTTCC
1 AAGTTTTCC
17053260 AAGTTCTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 2 0.07
12 16 0.59
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (12 bp):
AAGTTTTCCCAA
Found at i:17053242 original size:21 final size:21
Alignment explanation
Indices: 17053218--17053264 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
17053208 GAAATTTTTT
17053218 AAGTTTTCCCAAAAGTTTTCC
1 AAGTTTTCCCAAAAGTTTTCC
17053239 AAGTTTTCCCAAAAGTTTTCC
1 AAGTTTTCCCAAAAGTTTTCC
17053260 AAGTT
1 AAGTT
17053265 CTGGATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (21 bp):
AAGTTTTCCCAAAAGTTTTCC
Found at i:17054206 original size:19 final size:19
Alignment explanation
Indices: 17054182--17054220 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17054172 AACGTGTAAG
17054182 ACCATAGCTGGGCCATGGC
1 ACCATAGCTGGGCCATGGC
17054201 ACCATAGCTGGGCCATGGC
1 ACCATAGCTGGGCCATGGC
17054220 A
1 A
17054221 TCGTGATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (19 bp):
ACCATAGCTGGGCCATGGC
Found at i:17054236 original size:56 final size:56
Alignment explanation
Indices: 17054145--17054257 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
17054135 TACGTGTAAG
* *
17054145 ACCATAGCTGGGCTATAGCATCGTAATAACGTGTAAGACCATAGCTGGGCC-ATGGC
1 ACCATAGCTGGGCCATAGCATCGTAATAACATGTAAGACCATAGCT-GGCCTATGGC
* * *
17054201 ACCATAGCTGGGCCATGGCATCGTGATGACATGTAAGACCATAGCTGGCCTATGGC
1 ACCATAGCTGGGCCATAGCATCGTAATAACATGTAAGACCATAGCTGGCCTATGGC
17054257 A
1 A
17054258 TTGTGATACG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 4 0.08
56 47 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (56 bp):
ACCATAGCTGGGCCATAGCATCGTAATAACATGTAAGACCATAGCTGGCCTATGGC
Found at i:17054256 original size:37 final size:36
Alignment explanation
Indices: 17054201--17054278 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 36
17054191 GGGCCATGGC
17054201 ACCATAGCTGGGCCATGGCATCGTGATGACATGTAAG
1 ACCATAGCTGGGCCATGGCATCGTGAT-ACATGTAAG
* *
17054238 ACCATAGCT-GGCCTATGGCATTGTGATACGTGTAAG
1 ACCATAGCTGGGCC-ATGGCATCGTGATACATGTAAG
17054274 ACCAT
1 ACCAT
17054279 GTCTGGGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 17 0.45
37 21 0.55
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (36 bp):
ACCATAGCTGGGCCATGGCATCGTGATACATGTAAG
Found at i:17054291 original size:36 final size:37
Alignment explanation
Indices: 17054201--17054292 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 37
17054191 GGGCCATGGC
*
17054201 ACCATAGCTGGGC-CATGGCATCGTGATGACATGTAAG
1 ACCATAGCT-GGCATATGGCATCGTGATGACATGTAAG
* * *
17054238 ACCATAGCTGGCCTATGGCATTGTGAT-ACGTGTAAG
1 ACCATAGCTGGCATATGGCATCGTGATGACATGTAAG
*
17054274 ACCAT-GTCTGGGATATGGC
1 ACCATAG-CTGGCATATGGC
17054293 TTCGCTATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.02
36 26 0.54
37 21 0.44
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (37 bp):
ACCATAGCTGGCATATGGCATCGTGATGACATGTAAG
Found at i:17054318 original size:42 final size:42
Alignment explanation
Indices: 17054264--17054419 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
17054254 GGCATTGTGA
*
17054264 TACGTGTAAGACCATGTCTGGGATATGGCTTCGCTATGAGAT
1 TACGTGTAAGACCATGTCTGGGATATGGCTTCGATATGAGAT
** * * * *
17054306 CCCATGAAAGACCATATCTGGGATATAGCATTGGCATCGATATGAGAT
1 TACGTGTAAGACCATGTCTGGG--AT---A-TGGCTTCGATATGAGAT
* *
17054354 TACGTGTAAGACCATCTCTGGGATATGGCTTCGGTATGAGAT
1 TACGTGTAAGACCATGTCTGGGATATGGCTTCGATATGAGAT
*
17054396 TTCGTGTAAGACCATGTCTGGGAT
1 TACGTGTAAGACCATGTCTGGGAT
17054420 GCAGCATCGA
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 54 0.59
43 1 0.01
44 2 0.02
46 2 0.02
47 1 0.01
48 32 0.35
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
TACGTGTAAGACCATGTCTGGGATATGGCTTCGATATGAGAT
Found at i:17054439 original size:42 final size:42
Alignment explanation
Indices: 17054266--17054494 Score: 154
Period size: 42 Copynumber: 5.3 Consensus size: 42
17054256 CATTGTGATA
* ** * * **
17054266 CGTGTAAGACCATGTCTGGGATATGGCTTCGCTATGAGATCC
1 CGTGTAAGACCATCTCTGGGATACAGCATCGATATGAGATTT
* * * *
17054308 CATGAAAGACCATATCTGGGATATAGCATTGGCATCGATATGAGATTA
1 CGTGTAAGACCATCTCTGGG--ATA-CA---GCATCGATATGAGATTT
** * *
17054356 CGTGTAAGACCATCTCTGGGATATGGCTTCGGTATGAGATTT
1 CGTGTAAGACCATCTCTGGGATACAGCATCGATATGAGATTT
* * * *
17054398 CGTGTAAGACCATGTCTGGGATGCAGCATCGATAAGTGATTT
1 CGTGTAAGACCATCTCTGGGATACAGCATCGATATGAGATTT
* * * * * * *
17054440 CGTATAAGACCATTTCTAGGAGATAGCATAGATGTGAGACTTT
1 CGTGTAAGACCATCTCTGGGATACAGCATCGATATGAGA-TTT
17054483 -GTGTAAGACCAT
1 CGTGTAAGACCAT
17054495 AGTTGGATTG
Statistics
Matches: 144, Mismatches: 36, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
42 105 0.73
43 3 0.02
44 3 0.02
46 3 0.02
48 30 0.21
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATCTCTGGGATACAGCATCGATATGAGATTT
Found at i:17075119 original size:81 final size:81
Alignment explanation
Indices: 17074984--17075149 Score: 314
Period size: 81 Copynumber: 2.0 Consensus size: 81
17074974 TCTGAATTTT
17074984 ATAACAAAATCTTGGTATCCCCACATAGTGATGGCCTTATGCAACAGAGCAAGGGTTCTGGTGGT
1 ATAACAAAATCTTGGTATCCCCACATAGTGATGGCCTTATGCAACAGAGCAAGGGTTCTGGTGGT
*
17075049 GTCCACTAAGTAGTTC
66 GCCCACTAAGTAGTTC
*
17075065 ATAACAAAATCTTGGTATCCCCACATAGTGATGGCCTTATGCAATAGAGCAAGGGTTCTGGTGGT
1 ATAACAAAATCTTGGTATCCCCACATAGTGATGGCCTTATGCAACAGAGCAAGGGTTCTGGTGGT
17075130 GCCCACTAAGTAGTTC
66 GCCCACTAAGTAGTTC
17075146 ATAA
1 ATAA
17075150 AACAATCCTG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (81 bp):
ATAACAAAATCTTGGTATCCCCACATAGTGATGGCCTTATGCAACAGAGCAAGGGTTCTGGTGGT
GCCCACTAAGTAGTTC
Found at i:17076846 original size:34 final size:34
Alignment explanation
Indices: 17076799--17076868 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
17076789 ATATAGCTCA
17076799 TACAATGCCATATCCCAGATATGGTCTTACATGT
1 TACAATGCCATATCCCAGATATGGTCTTACATGT
**
17076833 TACAATGTTATATCCCAGATATGGTCTTACATGT
1 TACAATGCCATATCCCAGATATGGTCTTACATGT
17076867 TA
1 TA
17076869 TCACATATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (34 bp):
TACAATGCCATATCCCAGATATGGTCTTACATGT
Found at i:17076924 original size:43 final size:43
Alignment explanation
Indices: 17076845--17076960 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
17076835 CAATGTTATA
* * *
17076845 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGATATGGTCTTACATGTAATCACATAACGATGCCAATG
* * * *
17076888 TCCCAGATAGGGTCTTATATGAAATCATATAACGATGCCAATG
1 TCCCAGATATGGTCTTACATGTAATCACATAACGATGCCAATG
*
17076931 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCCAGATATGGTCTTACATGTAATCACAT
17076961 CTCGGTAATC
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACATGTAATCACATAACGATGCCAATG
Found at i:17078704 original size:21 final size:21
Alignment explanation
Indices: 17078680--17078719 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17078670 AGATTTCTAT
17078680 CTATC-CGAAGCTGCTTTCAAA
1 CTATCACGAA-CTGCTTTCAAA
*
17078701 CTATCACGAATTGCTTTCA
1 CTATCACGAACTGCTTTCA
17078720 CTTTCTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (21 bp):
CTATCACGAACTGCTTTCAAA
Found at i:17081524 original size:49 final size:49
Alignment explanation
Indices: 17081452--17081756 Score: 537
Period size: 49 Copynumber: 6.3 Consensus size: 49
17081442 CCCTTCGGGA
*
17081452 CTTATCACATTTATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
17081501 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17081550 CTTATCACATGTGTACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
17081599 CTTATCACATATATACGCACTTTCACATTCATCACA----CCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
17081644 CTTATCACATATATACGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
17081693 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
17081742 CTTATCACATATATA
1 CTTATCACATATATA
17081757 TATCTCATGC
Statistics
Matches: 245, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
45 45 0.18
49 200 0.82
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17081559 original size:22 final size:22
Alignment explanation
Indices: 17081531--17081608 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
17081521 TTTCACATTC
17081531 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *
17081553 ATCACAT-GTGTACACACTTTCACATT
1 ATCACATCG-G--C-CA-TTAGGCCTT
17081579 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
17081602 ATCACAT
1 ATCACAT
17081609 ATATACGCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
21 1 0.02
22 15 0.37
23 5 0.12
24 3 0.07
25 3 0.07
26 5 0.12
27 8 0.20
28 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:17081714 original size:143 final size:144
Alignment explanation
Indices: 17081452--17081756 Score: 531
Period size: 143 Copynumber: 2.1 Consensus size: 144
17081442 CCCTTCGGGA
*
17081452 CTTATCACATTTATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACA---GCCATTAGGCCTTATCACATATATAC
* *
17081517 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTGTACACACTTTCACATTCAT
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
17081582 CACATCGGCCATTAGGC
128 CACATCGGCCATTAGGC
* *
17081599 CTTATCACATATATACGCACTTTCACATTCATCACA-CCATTAGGCCTTATCACATATATACGCA
1 CTTATCACATATATACACACTTTCACATTCATCACAGCCATTAGGCCTTATCACATATATACACA
17081663 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
17081728 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
17081742 CTTATCACATATATA
1 CTTATCACATATATA
17081757 TATCTCATGC
Statistics
Matches: 153, Mismatches: 5, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
143 119 0.78
147 34 0.22
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (144 bp):
CTTATCACATATATACACACTTTCACATTCATCACAGCCATTAGGCCTTATCACATATATACACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:17088398 original size:27 final size:27
Alignment explanation
Indices: 17088363--17088595 Score: 301
Period size: 27 Copynumber: 8.7 Consensus size: 27
17088353 CCAAAGTACT
17088363 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
17088390 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
17088417 CTCGATCTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
17088444 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
* *
17088471 C-CGATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
17088497 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
17088524 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
17088551 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
17088578 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
17088596 TAAAATACCC
Statistics
Matches: 181, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.13
27 156 0.86
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:17088508 original size:107 final size:108
Alignment explanation
Indices: 17088363--17088595 Score: 317
Period size: 107 Copynumber: 2.2 Consensus size: 108
17088353 CCAAAGTACT
* *
17088363 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATCTACA
1 CTCGATTTACAAAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATCTACA
*
17088428 AAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACC
66 AAATTACCGTTTTACCCCTAATTTACAGAATTACCATTTTACC
* * * * *
17088471 C-CGATTTACATAATTATCGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTCGATTTAT
1 CTCGATTTACAAAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTCGATCTAC
* * * * **
17088534 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACC
65 AAAATTACCGTTTTACCCCTAATTTACAGAATTACCATTTTACC
17088578 CTCGATTTACAAAATTAC
1 CTCGATTTACAAAATTAC
17088596 TAAAATACCC
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
106 1 0.01
107 92 0.85
108 15 0.14
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (108 bp):
CTCGATTTACAAAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATCTACA
AAATTACCGTTTTACCCCTAATTTACAGAATTACCATTTTACC
Found at i:17088605 original size:134 final size:134
Alignment explanation
Indices: 17088363--17088605 Score: 346
Period size: 134 Copynumber: 1.8 Consensus size: 134
17088353 CCAAAGTACT
17088363 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATCTACA
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATCTACA
* ***
17088428 AAATTACCGTTTTACCCCTAATTTACATAATTACCATTTTACCCCGATTTACATAATTATCGTTT
66 AAATTACCGTTTTACCCCTAATTTACAAAATTACCAAAATACCCCGATTTACATAATTATCGTTT
17088493 TACC
131 TACC
* * * *
17088497 CTCGATTTACAGAATTACCGTTTTACCCTC-GATTTATAGAATTACTGTTTTACCCTTGATTTAC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTATTTTACCCTCGATCTAC
* * * *
17088561 AGAATTACTGTTTTA-CCCTCGATTTACAAAATTACTAAAATACCC
65 AAAATTACCGTTTTACCCCT-AATTTACAAAATTACCAAAATACCC
17088606 TTGGTTTGTG
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
133 5 0.05
134 90 0.95
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (134 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATCTACA
AAATTACCGTTTTACCCCTAATTTACAAAATTACCAAAATACCCCGATTTACATAATTATCGTTT
TACC
Found at i:17089893 original size:9 final size:9
Alignment explanation
Indices: 17089881--17089937 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17089871 TTTGATAAAC
17089881 ATGATATGT
1 ATGATATGT
*
17089890 ATGATATGCAC
1 ATGATATG--T
*
17089901 ATGACATGT
1 ATGATATGT
*
17089910 ATGATATGCAC
1 ATGATATG--T
17089921 ATGATATGT
1 ATGATATGT
17089930 ATGATATG
1 ATGATATG
17089938 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:17089904 original size:20 final size:20
Alignment explanation
Indices: 17089879--17089949 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17089869 ATTTTGATAA
17089879 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17089899 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17089919 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17089939 ACATGAGATGT
1 ACATGATATGT
17089950 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:17089926 original size:11 final size:11
Alignment explanation
Indices: 17089890--17089944 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17089880 CATGATATGT
17089890 ATGATATGCAC
1 ATGATATGCAC
* *
17089901 ATGACATG--T
1 ATGATATGCAC
17089910 ATGATATGCAC
1 ATGATATGCAC
*
17089921 ATGATATG--T
1 ATGATATGCAC
17089930 ATGATATGCAC
1 ATGATATGCAC
17089941 ATGA
1 ATGA
17089945 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:17090024 original size:23 final size:23
Alignment explanation
Indices: 17089994--17090181 Score: 333
Period size: 23 Copynumber: 8.1 Consensus size: 23
17089984 AGGAAGTGCA
17089994 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17090017 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17090040 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17090063 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
17090087 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17090110 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17090133 AAAGGGC-TATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17090155 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
17090179 AAA
1 AAA
17090182 AGAGGCTAGG
Statistics
Matches: 159, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
22 15 0.09
23 108 0.68
24 36 0.23
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:17090160 original size:93 final size:93
Alignment explanation
Indices: 17089992--17090202 Score: 354
Period size: 93 Copynumber: 2.3 Consensus size: 93
17089982 GGAGGAAGTG
17089992 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
17090057 GTTATTAAAGGGCTTATGCCCCAGTTAT
66 GTTATTAAAGGGCTTATGCCCCAGTTAT
17090085 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGC-TATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
*
17090149 GTTATTAAAAGGGCTTTTGCCCCAGTTAT
66 GTTATT-AAAGGGCTTATGCCCCAGTTAT
* *
17090178 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
17090203 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
92 15 0.13
93 86 0.77
94 11 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (93 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
GTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:17093557 original size:27 final size:27
Alignment explanation
Indices: 17093298--17093556 Score: 346
Period size: 27 Copynumber: 9.7 Consensus size: 27
17093288 CCAAAGTACT
17093298 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
17093325 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
17093352 CTCGATTTACA-AATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
17093378 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
* *
17093405 C-CGATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
17093431 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
17093458 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
17093485 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
17093512 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
17093539 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
17093557 TAAAATACCC
Statistics
Matches: 206, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.00
26 44 0.21
27 160 0.78
28 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:17093593 original size:81 final size:81
Alignment explanation
Indices: 17093348--17093600 Score: 226
Period size: 81 Copynumber: 3.1 Consensus size: 81
17093338 ATTACTATTT
* * ***
17093348 TACCCTCGATTTACA-AATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CGAT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAAAATTACCAAAATACCCTCGAT
* * * ***
17093410 TTACATAATTATCGTTT
65 TTATAGAATTACCGCAA
* ***
17093427 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
17093492 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
17093508 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
17093573 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
17093589 TACCCTCAATTT
1 TACCCTCGATTT
17093601 GTAAAACTAC
Statistics
Matches: 148, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
79 15 0.10
80 40 0.27
81 93 0.63
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:17094855 original size:9 final size:9
Alignment explanation
Indices: 17094843--17094899 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17094833 TTTGATAAAC
17094843 ATGATATGT
1 ATGATATGT
*
17094852 ATGATATGCAC
1 ATGATATG--T
*
17094863 ATGACATGT
1 ATGATATGT
*
17094872 ATGATATGCAC
1 ATGATATG--T
17094883 ATGATATGT
1 ATGATATGT
17094892 ATGATATG
1 ATGATATG
17094900 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:17094866 original size:20 final size:20
Alignment explanation
Indices: 17094841--17094911 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17094831 ATTTTGATAA
17094841 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17094861 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17094881 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17094901 ACATGAGATGT
1 ACATGATATGT
17094912 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:17094888 original size:11 final size:11
Alignment explanation
Indices: 17094852--17094906 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17094842 CATGATATGT
17094852 ATGATATGCAC
1 ATGATATGCAC
* *
17094863 ATGACATG--T
1 ATGATATGCAC
17094872 ATGATATGCAC
1 ATGATATGCAC
*
17094883 ATGATATG--T
1 ATGATATGCAC
17094892 ATGATATGCAC
1 ATGATATGCAC
17094903 ATGA
1 ATGA
17094907 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:17095077 original size:23 final size:24
Alignment explanation
Indices: 17094957--17095096 Score: 209
Period size: 23 Copynumber: 6.0 Consensus size: 24
17094947 GAGGAAGTGC
17094957 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17094981 -AAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
*
17095003 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17095027 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17095051 -AAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17095073 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17095097 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 3, Indels: 11
0.88 0.02 0.09
Matches are distributed among these distances:
22 14 0.13
23 56 0.52
24 29 0.27
25 8 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17095321 original size:30 final size:31
Alignment explanation
Indices: 17095287--17095349 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
17095277 CGTTTACAGT
17095287 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
17095317 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17095348 AA
1 AA
17095350 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17098416 original size:27 final size:27
Alignment explanation
Indices: 17098155--17098415 Score: 346
Period size: 27 Copynumber: 9.7 Consensus size: 27
17098145 CCAAAGTACT
17098155 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
17098182 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
17098209 CTCGATCTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
17098236 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
* * *
17098263 CCCGATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
17098290 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
17098317 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
17098344 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
17098371 CTTGATTTACAAAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
17098398 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
17098416 TAAAATACCC
Statistics
Matches: 207, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 203 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:17098452 original size:81 final size:81
Alignment explanation
Indices: 17098205--17098459 Score: 208
Period size: 81 Copynumber: 3.1 Consensus size: 81
17098195 ATTACTATTT
* * * * *** *
17098205 TACCCTCGATCTACAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCCCGAT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTC-GATTTACAAAATTACCAAAATACCCTCGAT
* * * ***
17098269 TTACATAATTATCGTTT
65 TTATAGAATTACCGCAA
* * ***
17098286 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
17098351 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
17098367 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
17098432 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
17098448 TACCCTCAATTT
1 TACCCTCGATTT
17098460 GTAAAACTAC
Statistics
Matches: 147, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 145 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:17099724 original size:9 final size:9
Alignment explanation
Indices: 17099712--17099768 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17099702 TTTGATAAAC
17099712 ATGATATGT
1 ATGATATGT
*
17099721 ATGATATGCAC
1 ATGATATG--T
*
17099732 ATGACATGT
1 ATGATATGT
*
17099741 ATGATATGCAC
1 ATGATATG--T
17099752 ATGATATGT
1 ATGATATGT
17099761 ATGATATG
1 ATGATATG
17099769 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:17099735 original size:20 final size:20
Alignment explanation
Indices: 17099710--17099780 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17099700 ATTTTGATAA
17099710 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17099730 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17099750 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17099770 ACATGAGATGT
1 ACATGATATGT
17099781 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:17099757 original size:11 final size:11
Alignment explanation
Indices: 17099721--17099775 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17099711 CATGATATGT
17099721 ATGATATGCAC
1 ATGATATGCAC
* *
17099732 ATGACATG--T
1 ATGATATGCAC
17099741 ATGATATGCAC
1 ATGATATGCAC
*
17099752 ATGATATG--T
1 ATGATATGCAC
17099761 ATGATATGCAC
1 ATGATATGCAC
17099772 ATGA
1 ATGA
17099776 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:17099857 original size:23 final size:23
Alignment explanation
Indices: 17099827--17100016 Score: 317
Period size: 23 Copynumber: 8.1 Consensus size: 23
17099817 AGGAAGTGCA
17099827 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17099850 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17099873 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
17099897 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
17099921 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17099944 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17099967 AAAGGGCTCATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17099990 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
17100014 AAA
1 AAA
17100017 AGAGGCTAGG
Statistics
Matches: 160, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
23 93 0.58
24 67 0.42
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:17099905 original size:24 final size:23
Alignment explanation
Indices: 17099826--17100038 Score: 302
Period size: 23 Copynumber: 9.0 Consensus size: 23
17099816 GAGGAAGTGC
17099826 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
17099849 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
17099872 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
17099895 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
17099919 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
17099943 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
17099966 TAAAGGGCTCATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
17099990 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
17100014 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17100038 A
1 A
17100039 TGATAAAGCA
Statistics
Matches: 177, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
23 88 0.50
24 79 0.45
25 10 0.06
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:17099986 original size:94 final size:94
Alignment explanation
Indices: 17099825--17100037 Score: 356
Period size: 94 Copynumber: 2.3 Consensus size: 94
17099815 GGAGGAAGTG
*
17099825 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
17099890 GTTATCAAAAGGGCTTATGCCCCAGTTAT
66 GTTATCAAAAGGGCTTATGCCCCAGTTAT
17099919 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
* *
17099984 GTTATTAAAAGGGCTTTTGCCCCAGTTAT
66 GTTATCAAAAGGGCTTATGCCCCAGTTAT
* *
17100013 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
17100038 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 101 0.90
95 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (94 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTCATGCCCCA
GTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:17107105 original size:3 final size:3
Alignment explanation
Indices: 17107097--17107129 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
17107087 AAATAATCAA
17107097 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
17107130 AATAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:17107134 original size:3 final size:3
Alignment explanation
Indices: 17107128--17107176 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
17107118 GATGATGATG
17107128 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17107176 A
1 A
17107177 ACTAAATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17112500 original size:27 final size:26
Alignment explanation
Indices: 17112463--17112626 Score: 157
Period size: 27 Copynumber: 6.2 Consensus size: 26
17112453 CCCTGTTTAG
* * **
17112463 AATACTTTAGTTTACCAAATTATTAA
1 AATACCTTAGTTTACAAAATTACCAA
17112489 AATACCATTAGTTTACAAAATTACCAA
1 AATACC-TTAGTTTACAAAATTACCAA
* * *
17112516 AATACCCTGGTTTATAAAATTACCAA
1 AATACCTTAGTTTACAAAATTACCAA
*
17112542 AATACCCTTGGTTTACAAAATTACCAA
1 AATA-CCTTAGTTTACAAAATTACCAA
* * ** *
17112569 AATACCCCTGGTTTGTAAAATTACTAA
1 AATA-CCTTAGTTTACAAAATTACCAA
* *
17112596 AATACCCTTTGTTTATAAAATTACCAA
1 AATA-CCTTAGTTTACAAAATTACCAA
17112623 AATA
1 AATA
17112627 TCCCTGGTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.22
27 93 0.78
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.34
Consensus pattern (26 bp):
AATACCTTAGTTTACAAAATTACCAA
Found at i:17112536 original size:53 final size:54
Alignment explanation
Indices: 17112479--17112655 Score: 259
Period size: 54 Copynumber: 3.3 Consensus size: 54
17112469 TTAGTTTACC
* * *
17112479 AAATTATTAAAATACCATTAGTTTACAAAATTACCAAAATA-CCCTGGTTTATA
1 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
* *
17112532 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
* * *
17112586 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
*
17112640 AAATTA-TCAAATACCC
1 AAATTACTAAAATACCC
17112656 CCGATTTGCA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 46 0.41
54 67 0.59
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (54 bp):
AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:17112636 original size:27 final size:26
Alignment explanation
Indices: 17112499--17112655 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 26
17112489 AATACCATTA
*
17112499 GTTTACAAAATTACCAAAATACCCTG
1 GTTTATAAAATTACCAAAATACCCTG
17112525 GTTTATAAAATTACCAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCC-TG
*
17112552 GTTTACAAAATTACCAAAATACCCCTG
1 GTTTATAAAATTACCAAAATA-CCCTG
* * *
17112579 GTTTGTAAAATTACTAAAATACCCTTT
1 GTTTATAAAATTACCAAAATACCC-TG
17112606 GTTTATAAAATTACCAAAATATCCCTG
1 GTTTATAAAATTACCAAAATA-CCCTG
* *
17112633 GTTTGTAAAATTATC-AAATACCC
1 GTTTATAAAATTACCAAAATACCC
17112656 CCGATTTGCA
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
25 3 0.03
26 31 0.27
27 76 0.66
28 6 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
GTTTATAAAATTACCAAAATACCCTG
Found at i:17112678 original size:27 final size:27
Alignment explanation
Indices: 17112500--17112708 Score: 94
Period size: 27 Copynumber: 7.8 Consensus size: 27
17112490 ATACCATTAG
* *
17112500 TTTACAAAATTACCA-AAATA-CCCTGG
1 TTTACAAAATTA-CAGAAATACCCCCGA
* ** *
17112526 TTTATAAAATTACCA-AAATACCCTTGG
1 TTTACAAAATTA-CAGAAATACCCCCGA
* *
17112553 TTTACAAAATTACCA-AAATACCCCTGG
1 TTTACAAAATTA-CAGAAATACCCCCGA
** **
17112580 TTTGTAAAATTACTA-AAATACCCTTTG-
1 TTTACAAAATTAC-AGAAATACCC-CCGA
* * * *
17112607 TTTATAAAATTACCA-AAATATCCCTGG
1 TTTACAAAATTA-CAGAAATACCCCCGA
**
17112634 TTTGTAAAATTATC--AAATACCCCCGA
1 TTTACAAAATTA-CAGAAATACCCCCGA
* * *
17112660 TTTGCAAACTTACAGAAATACCTCCGA
1 TTTACAAAATTACAGAAATACCCCCGA
*
17112687 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACAGAAATACC
17112709 TTTATAGGGT
Statistics
Matches: 155, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 41 0.26
27 110 0.71
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACAGAAATACCCCCGA
Found at i:17112725 original size:107 final size:107
Alignment explanation
Indices: 17112505--17112736 Score: 247
Period size: 107 Copynumber: 2.2 Consensus size: 107
17112495 ATTAGTTTAC
** *
17112505 AAAATTACCAAAATACCCTGGTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAAATTACCAAAATACCCTGGTTTATAAAATTACCAAAATACCCCCGATTTACAAAATTACCAAA
* ** * **
17112570 ATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTAT
66 ATACCCCTGATTTACAAAATTACTAAAATACCCTTTATGGAT
* * * *
17112612 AAAATTACCAAAATATCCCTGGTTTGTAAAATTATC-AAATACCCCCGATTTGCAAACTTA-CAG
1 AAAATTACCAAAATA-CCCTGGTTTATAAAATTACCAAAATACCCCCGATTTACAAAATTACCA-
* *
17112675 AAATACCTCC-GATTTACAAAATTACTGAAATA-CCTTTATAGGGT
64 AAATACC-CCTGATTTACAAAATTACTAAAATACCCTTTAT-GGAT
* *
17112719 AGAATTACCGAAATACCC
1 AAAATTACCAAAATACCC
17112737 CTGTAGGGTA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
106 11 0.11
107 73 0.70
108 20 0.19
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (107 bp):
AAAATTACCAAAATACCCTGGTTTATAAAATTACCAAAATACCCCCGATTTACAAAATTACCAAA
ATACCCCTGATTTACAAAATTACTAAAATACCCTTTATGGAT
Found at i:17112912 original size:160 final size:161
Alignment explanation
Indices: 17112704--17113005 Score: 480
Period size: 160 Copynumber: 1.9 Consensus size: 161
17112694 AATTACTGAA
* *
17112704 ATACCTTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATA
1 ATACCCTTATAGGGTAGAATAACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATA
* * * *
17112769 GGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTGCTGAAATACCCCTGTAGGGTAGAATTA
66 GGGTAGAATTACAGAAATACACTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTA
*
17112834 CTGAAATACCCTATAGGGTAGAATTATTTAT
131 CCGAAATACCCTATAGGGTAGAATTATTTAT
* * * * *
17112865 ATACCCTTGTAGGGTAGAA-AACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTA
1 ATACCCTTATAGGGTAGAATAACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATA
17112929 GGGTAGAATTACAGAAATACACTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTA
66 GGGTAGAATTACAGAAATACACTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTA
*
17112994 CCGAGATACCCT
131 CCGAAATACCCT
17113006 TGTGGGGTAA
Statistics
Matches: 128, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
160 111 0.87
161 17 0.13
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (161 bp):
ATACCCTTATAGGGTAGAATAACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATA
GGGTAGAATTACAGAAATACACTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTA
CCGAAATACCCTATAGGGTAGAATTATTTAT
Found at i:17113022 original size:27 final size:27
Alignment explanation
Indices: 17112694--17113021 Score: 426
Period size: 27 Copynumber: 12.2 Consensus size: 27
17112684 CGATTTACAA
* *
17112694 AATTACTGAAATACCTTTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
17112721 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
17112748 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
17112775 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
17112802 AATTGCTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
17112829 AATTACTGAAATACCC-TATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
17112855 AATTATTTATATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
17112882 AA-AACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
17112908 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
17112935 AATTACAGAAATACACTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
17112962 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
17112989 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
17113016 AATTAC
1 AATTAC
17113022 CATTTTACCC
Statistics
Matches: 264, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 43 0.16
27 221 0.84
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:17113572 original size:6 final size:6
Alignment explanation
Indices: 17113541--17113622 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
17113531 TTGCATTCAC
* *
17113541 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
17113591 ATTCTG ATTCTA ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
17113623 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 45 0.75
7 7 0.12
8 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:17113572 original size:25 final size:25
Alignment explanation
Indices: 17113544--17113601 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
17113534 CATTCACATT
*
17113544 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
17113569 CTGATTCTGATTCTGTTACCTGATT
1 CTGATTCTGATTCTGTTACCTGATA
17113594 CTGATTCT
1 CTGATTCT
17113602 AATTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:17121516 original size:27 final size:26
Alignment explanation
Indices: 17121454--17121565 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
17121444 AGCAGGGTTG
* * *
17121454 CCAGAACGGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
17121480 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
17121508 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
17121535 CCAGATCAGATAATTGTAGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
17121562 CCAG
1 CCAG
17121566 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17121548 original size:54 final size:54
Alignment explanation
Indices: 17121454--17121565 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
17121444 AGCAGGGTTG
* * *
17121454 CCAGAACGGATAATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAAATACAGATAATCGTAGCAGAGCCA
* * * *
17121508 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTAGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAAATACAGATAATCGTAGCAGAGCCA
17121562 CCAG
1 CCAG
17121566 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAAATACAGATAATCGTAGCAGAGCCA
Found at i:17121713 original size:26 final size:27
Alignment explanation
Indices: 17121684--17121743 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
17121674 GGGTATAATG
* *
17121684 GTAATTTT-GTACCTAGAGGTATATC-A
1 GTAATTTTCATACATAGAGGTAT-TCAA
*
17121710 GTAATTTTCATACATAGGGGTATTCAA
1 GTAATTTTCATACATAGAGGTATTCAA
17121737 GTAATTT
1 GTAATTT
17121744 CACTATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTCATACATAGAGGTATTCAA
Found at i:17128349 original size:16 final size:16
Alignment explanation
Indices: 17128328--17128359 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17128318 CAATCTTTAT
17128328 AAAATTTTTATTTTTG
1 AAAATTTTTATTTTTG
*
17128344 AAAATTTTTGTTTTTG
1 AAAATTTTTATTTTTG
17128360 TAAACCCATT
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:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (16 bp):
AAAATTTTTATTTTTG
Found at i:17138297 original size:28 final size:28
Alignment explanation
Indices: 17138261--17138331 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
17138251 ATAGTCAGTC
* * *
17138261 CGCATACTTAGTGCTATATAATCAACCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
17138289 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
17138317 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17138332 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:17146240 original size:28 final size:27
Alignment explanation
Indices: 17146177--17146246 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
17146167 ATAGTGAGTC
*
17146177 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
17146204 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
17146232 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17146247 GTACAAGTTT
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):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17149787 original size:44 final size:42
Alignment explanation
Indices: 17149739--17149895 Score: 151
Period size: 44 Copynumber: 3.7 Consensus size: 42
17149729 TATGTGTTAT
* * *
17149739 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATATCTAGGACATTGGCATCGA-TT-TGATTTA
* *
17149783 CGTGTGAGACCATATCTAGGACATCGGCATCGTATTTGATTT-
1 CGTGTAAGACCATATCTAGGACATTGGCATCG-ATTTGATTTA
* *
17149825 CGTGTAAGACCTTATCT--GACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATATCTAGGACATTGGCATCG--ATTTGATTTA
* **
17149866 CATGTAAGACCACGTCTAGGACATTGGCAT
1 CGTGTAAGACCATATCTAGGACATTGGCAT
17149896 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
40 13 0.14
41 20 0.21
42 15 0.16
43 16 0.17
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGACATTGGCATCGATTTGATTTA
Found at i:17168082 original size:30 final size:30
Alignment explanation
Indices: 17168047--17168106 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
17168037 AACATAGAGG
17168047 TGTTGTGTCATGACATCGAGCTAAATTTAT
1 TGTTGTGTCATGACATCGAGCTAAATTTAT
*
17168077 TGTTGTGTCATGACATCGAGCTGAATTTAT
1 TGTTGTGTCATGACATCGAGCTAAATTTAT
17168107 CGATTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (30 bp):
TGTTGTGTCATGACATCGAGCTAAATTTAT
Found at i:17172649 original size:45 final size:45
Alignment explanation
Indices: 17172585--17172674 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
17172575 AAAAAGAATA
*
17172585 ATTAAGAAATTTTTAGGTGATACATAAGATTTTATTTTCTTTATT
1 ATTAAGAAATTTTTAGGTGATACATAAGATTTTATTTTCTGTATT
*
17172630 ATTAAGAAATTTTTAGGTGATACATACGATTTTATTTTCTGTATT
1 ATTAAGAAATTTTTAGGTGATACATAAGATTTTATTTTCTGTATT
17172675 GTTACTAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (45 bp):
ATTAAGAAATTTTTAGGTGATACATAAGATTTTATTTTCTGTATT
Found at i:17175331 original size:20 final size:21
Alignment explanation
Indices: 17175306--17175344 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17175296 GAGTAAAAAC
17175306 AGAGCCA-GTGTCACAACATA
1 AGAGCCATGTGTCACAACATA
17175326 AGAGCCATGTGTCACAACA
1 AGAGCCATGTGTCACAACA
17175345 CCGAGGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (21 bp):
AGAGCCATGTGTCACAACATA
Found at i:17175637 original size:22 final size:21
Alignment explanation
Indices: 17175605--17175655 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
17175595 TATTTACCTA
*
17175605 ATTTTTT-AACCATCAAGACAC
1 ATTTTTTCAACC-TCAAAACAC
*
17175626 CTTTTTTCAACCTCAAAACAC
1 ATTTTTTCAACCTCAAAACAC
17175647 ATTATTTTC
1 ATT-TTTTC
17175656 CTCCTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTTTTCAACCTCAAAACAC
Found at i:17179873 original size:32 final size:32
Alignment explanation
Indices: 17179837--17179901 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
17179827 TGGAAACAAG
17179837 TTAGTTGATAAATGGTTAAATATGCACATGTT
1 TTAGTTGATAAATGGTTAAATATGCACATGTT
17179869 TTAGTTGATAAATGGTTAAATATGCACATGTT
1 TTAGTTGATAAATGGTTAAATATGCACATGTT
17179901 T
1 T
17179902 AGGTATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (32 bp):
TTAGTTGATAAATGGTTAAATATGCACATGTT
Done.