Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 139 of 333
Found at i:45559348 original size:43 final size:42
Alignment explanation
Indices: 45559284--45559450 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
45559274 TAGGATTCCG
* *
45559284 ATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATC
1 ATATGTGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
45559326 AATTTGTGATTTAGTGTAAGACCATGTCTGGGACATTGGCATC
1 -ATATGTGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * * *
45559369 GTATATGAGTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATC
1 ATATGTGATTTAGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC
* *
45559411 GATATGTGA-TTACATGTAAGACCATGTCTGGGACGTTGGC
1 -ATATGTGATTTA-GTGTAAGACCACGTCTGGGACGTTGGC
45559451 GTTGTACGAG
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 35 0.35
43 64 0.65
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (42 bp):
ATATGTGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:45559419 original size:85 final size:85
Alignment explanation
Indices: 45559293--45559450 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 85
45559283 GATATGTGAT
* * * *
45559293 TTCGTGTAAGACCACGTTTGGGACGTTGGCATCAATTTGTGATTTA-GTGTAAGACCATGTCTGG
1 TTCGTGTAAGACCACGTCTGGGAAGTTGGCATCAATATGTGA-TTACATGTAAGACCATGTCTGG
45559357 GACATTGGCATCGTATATGAG
65 GACATTGGCATCGTATATGAG
*
45559378 TTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATGTGATTACATGTAAGACCATGTCTG
1 TTCGTGTAAGACCAC-GTCTGGGA-AGTTGGCATCAATATGTGATTACATGTAAGACCATGTCTG
*
45559441 GGACGTTGGC
64 GGACATTGGC
45559451 GTTGTACGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
84 4 0.06
85 59 0.92
86 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (85 bp):
TTCGTGTAAGACCACGTCTGGGAAGTTGGCATCAATATGTGATTACATGTAAGACCATGTCTGGG
ACATTGGCATCGTATATGAG
Found at i:45564002 original size:37 final size:37
Alignment explanation
Indices: 45563958--45564031 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
45563948 TCATGAGATA
45563958 GAATTTTTATTATAGACTTAATTAAATAATGCATGAT
1 GAATTTTTATTATAGACTTAATTAAATAATGCATGAT
*
45563995 GAATTTTTATTATAGACTTAATTATATAATGCATGAT
1 GAATTTTTATTATAGACTTAATTAAATAATGCATGAT
45564032 AATGAACTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (37 bp):
GAATTTTTATTATAGACTTAATTAAATAATGCATGAT
Found at i:45565066 original size:26 final size:26
Alignment explanation
Indices: 45565023--45565085 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
45565013 TCTCATCCTT
* *
45565023 ATTTTACTCCCAGAAAAA-ATTTCACG
1 ATTTTAC-CCCAGAAAAATATTTAACA
* *
45565049 ATTTTACCCTCAGTAAAATTTTTAACA
1 ATTTTACCC-CAGAAAAATATTTAACA
45565076 ATTTTACCCC
1 ATTTTACCCC
45565086 TGGTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 15 0.48
27 14 0.45
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.37
Consensus pattern (26 bp):
ATTTTACCCCAGAAAAATATTTAACA
Found at i:45567276 original size:46 final size:45
Alignment explanation
Indices: 45567239--45567462 Score: 205
Period size: 46 Copynumber: 5.0 Consensus size: 45
45567229 TTTCTGTCAT
45567239 GTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTT-TTCATTTCATATCAC
* * *
45567285 GTTGCCATGGTATCTTTCAACCATAGTC-TTACACGTTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTTTCA--TTTCATATCAC
**
45567331 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-
1 GTTGCCATGGTATCTTTCAACCATGGTCTT-TTCATTTCATATCAC
** * *
45567376 GAGAGCACACATGGTATCTTTCAACCATGGTC--TT-A---CACA-CAG
1 G-TTG--C-CATGGTATCTTTCAACCATGGTCTTTTCATTTCATATCAC
**
45567418 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTT-TTCATTTCATATCA
45567463 GAGAGCACAC
Statistics
Matches: 146, Mismatches: 15, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
38 23 0.16
39 1 0.01
41 3 0.02
42 5 0.03
44 3 0.02
45 6 0.04
46 77 0.53
47 1 0.01
48 4 0.03
49 23 0.16
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (45 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTTTCATTTCATATCAC
Found at i:45573253 original size:40 final size:40
Alignment explanation
Indices: 45573209--45573512 Score: 415
Period size: 40 Copynumber: 7.7 Consensus size: 40
45573199 GCTCCTCGTT
* * * *
45573209 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
45573249 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
45573289 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
45573329 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
45573369 CAAATGCCTTCGGCACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
45573409 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
45573448 CAAATGCCTTC-GGATCTTAGA-CCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTA-ACCCGGAT-TTAGTAAC-TCGCA
*
45573489 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
45573513 CAGCATTCAA
Statistics
Matches: 241, Mismatches: 15, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.20
40 182 0.76
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:45574607 original size:13 final size:13
Alignment explanation
Indices: 45574589--45574613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45574579 AGGATGAGCA
45574589 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
45574602 TTTTTTTTCTTT
1 TTTTTTTTCTTT
45574614 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:45575760 original size:46 final size:46
Alignment explanation
Indices: 45575700--45575965 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
45575690 TTTGACATGA
* * * * * *
45575700 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
45575746 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45575792 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
45575838 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45575884 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45575922 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
45575966 AGAGCACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 150 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:45575935 original size:38 final size:38
Alignment explanation
Indices: 45575879--45575954 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
45575869 CATTTCATAT
45575879 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
45575917 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
45575955 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (38 bp):
CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:45580222 original size:9 final size:9
Alignment explanation
Indices: 45580206--45580284 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
45580196 GGTATTTTTC
45580206 GGTAATTCG
1 GGTAATTCG
*
45580215 GTTAATTCG
1 GGTAATTCG
*
45580224 GTTAATTCG
1 GGTAATTCG
*
45580233 GTTAATTCG
1 GGTAATTCG
45580242 GGTAATTCG
1 GGTAATTCG
45580251 GGTAATTCG
1 GGTAATTCG
45580260 GGTAATTCG
1 GGTAATTCG
45580269 GGTAATTCG
1 GGTAATTCG
45580278 GGTAATT
1 GGTAATT
45580285 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:45581540 original size:39 final size:40
Alignment explanation
Indices: 45581484--45581573 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
45581474 ACAAGTATTT
* * *
45581484 TTTTTTTGTTAATAATA-TGCTTAATATAAAATTTTGATA
1 TTTTATTGTTAAAAATATTACTTAATATAAAATTTTGATA
* *
45581523 TTTTATTGTTAAAAATATTTATTTAATTTAAAATTTTGATA
1 TTTTATTGTTAAAAATA-TTACTTAATATAAAATTTTGATA
45581564 TTGTTATTGT
1 TT-TTATTGT
45581574 CGATAACGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.35
41 21 0.49
42 7 0.16
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (40 bp):
TTTTATTGTTAAAAATATTACTTAATATAAAATTTTGATA
Found at i:45581591 original size:41 final size:41
Alignment explanation
Indices: 45581505--45581599 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
45581495 ATAATATGCT
* * * *
45581505 TAATATAAAATTTTGATATTTTATTGTTAAAAATATTTATT
1 TAATTTAAAATTTTGATATTTTATTGTCAAAAATAGTTATC
* * *
45581546 TAATTTAAAATTTTGATATTGTTATTGTCGATAA-CGTTATC
1 TAATTTAAAATTTTGATATT-TTATTGTCAAAAATAGTTATC
*
45581587 TAATTTAACATTT
1 TAATTTAAAATTT
45581600 ATGGGATAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 35 0.78
42 10 0.22
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (41 bp):
TAATTTAAAATTTTGATATTTTATTGTCAAAAATAGTTATC
Found at i:45582902 original size:14 final size:14
Alignment explanation
Indices: 45582883--45582916 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
45582873 ACGCCACACG
45582883 CGTGTGTGGTTGGC
1 CGTGTGTGGTTGGC
45582897 C--GTGTGGTTGGC
1 CGTGTGTGGTTGGC
45582909 CGTGTGTG
1 CGTGTGTG
45582917 AGACACGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (14 bp):
CGTGTGTGGTTGGC
Found at i:45582903 original size:12 final size:12
Alignment explanation
Indices: 45582886--45582914 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45582876 CCACACGCGT
45582886 GTGTGGTTGGCC
1 GTGTGGTTGGCC
45582898 GTGTGGTTGGCC
1 GTGTGGTTGGCC
45582910 GTGTG
1 GTGTG
45582915 TGAGACACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.52, T:0.34
Consensus pattern (12 bp):
GTGTGGTTGGCC
Found at i:45583846 original size:24 final size:24
Alignment explanation
Indices: 45583818--45583865 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
45583808 TTGGAATTTA
* *
45583818 TTCTTCATTTTGAACCTATAGGGG
1 TTCTTCATTTCGAACCTACAGGGG
45583842 TTCTTCATTTCGAACCTACAGGGG
1 TTCTTCATTTCGAACCTACAGGGG
45583866 CTTTCACACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
TTCTTCATTTCGAACCTACAGGGG
Found at i:45583923 original size:28 final size:29
Alignment explanation
Indices: 45583869--45583923 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
45583859 ACAGGGGCTT
*
45583869 TCACACGGCCGAGCACACACCGGTGTCCC
1 TCACACGGCCGAGCACACACCCGTGTCCC
* *
45583898 TCACACGGCCTAG-ACACGCCCGTGTC
1 TCACACGGCCGAGCACACACCCGTGTC
45583924 ATAGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.20, C:0.44, G:0.24, T:0.13
Consensus pattern (29 bp):
TCACACGGCCGAGCACACACCCGTGTCCC
Found at i:45590746 original size:42 final size:42
Alignment explanation
Indices: 45590699--45590812 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
45590689 ATTAAGATTA
*
45590699 CGTGTAAGACCATATCTAGGATATGGCATCGATAAGAGACTT
1 CGTGTAAGACCATATCTAGGATATGGCATCAATAAGAGACTT
* * * * * * *
45590741 CGTGTAAGACCATAGCTGGGCTATTGCCATTAATATGAGATTT
1 CGTGTAAGACCATATCTAGGATA-TGGCATCAATAAGAGACTT
* *
45590784 CATGTAAGACCATATCTAGGATACGGCAT
1 CGTGTAAGACCATATCTAGGATATGGCAT
45590813 TGGTATGGTA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGATATGGCATCAATAAGAGACTT
Found at i:45595378 original size:16 final size:16
Alignment explanation
Indices: 45595357--45595390 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45595347 CTGACACAAA
*
45595357 TGTGTATTTGCTTTGG
1 TGTGTATTTACTTTGG
45595373 TGTGTATTTACTTTGG
1 TGTGTATTTACTTTGG
45595389 TG
1 TG
45595391 GTTAAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.06, G:0.29, T:0.56
Consensus pattern (16 bp):
TGTGTATTTACTTTGG
Found at i:45598095 original size:21 final size:20
Alignment explanation
Indices: 45598067--45598116 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
45598057 TTTTTTAAAA
45598067 TATA-AAATTCATAAA-ATAT
1 TATAGAAATTCATAAATA-AT
*
45598086 TAATAGAAATTTATAAATAAT
1 T-ATAGAAATTCATAAATAAT
45598107 TATAGAAATT
1 TATAGAAATT
45598117 ATAGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.44
21 13 0.48
22 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
TATAGAAATTCATAAATAAT
Found at i:45598125 original size:10 final size:10
Alignment explanation
Indices: 45598070--45598184 Score: 69
Period size: 10 Copynumber: 11.4 Consensus size: 10
45598060 TTTAAAATAT
45598070 AAAATTCATA-
1 AAAATT-ATAG
45598080 AAATATTAATAG
1 AAA-ATT-ATAG
*
45598092 AAATTTATA-
1 AAAATTATAG
45598101 AATAATTATAG
1 AA-AATTATAG
45598112 -AAATTATAG
1 AAAATTATAG
*
45598121 AAAATTTTTA-
1 AAAA-TTATAG
** *
45598131 AATGTTATAA
1 AAAATTATAG
*
45598141 AAAAAT-TAG
1 AAAATTATAG
*
45598150 AAAAATATAG
1 AAAATTATAG
*
45598160 AAAAATTATAA
1 -AAAATTATAG
45598171 AAAATTATAG
1 AAAATTATAG
45598181 AAAA
1 AAAA
45598185 AAGTATAGAA
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
9 22 0.27
10 37 0.45
11 20 0.24
12 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (10 bp):
AAAATTATAG
Found at i:45598157 original size:72 final size:71
Alignment explanation
Indices: 45598079--45598240 Score: 181
Period size: 72 Copynumber: 2.3 Consensus size: 71
45598069 TAAAATTCAT
* * *
45598079 AAAATATTAATAGAAATTTATAAATAATTATAG-AAATTATAGAAA-ATTTTTAAATGTTATAAA
1 AAAATA-TAATA-AAATTTATAAAAAATTATAGAAAAGTATAGAAAGA-TCTTAAATGTTATAAA
45598142 AAAATTAGA
63 AAAATTAGA
45598151 AAAATATAGA-AAAA-TTATAAAAAATTATAGAAAAAAGTATAGAAAGATCTTAAATGTTATAAA
1 AAAATATA-ATAAAATTTATAAAAAATTATAG--AAAAGTATAGAAAGATCTTAAATGTTATAAA
* *
45598214 AAACTTATA
63 AAAATTAGA
*
45598223 ATAATAT-ATAAAATTTAT
1 AAAATATAATAAAATTTAT
45598241 TCAAATTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
69 15 0.19
70 4 0.05
71 7 0.09
72 50 0.65
73 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (71 bp):
AAAATATAATAAAATTTATAAAAAATTATAGAAAAGTATAGAAAGATCTTAAATGTTATAAAAAA
ATTAGA
Found at i:45598163 original size:21 final size:22
Alignment explanation
Indices: 45598139--45598195 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 22
45598129 TAAATGTTAT
45598139 AAAAAAATTAGAAAAA-TATAG
1 AAAAAAATTAGAAAAATTATAG
*
45598160 --AAAAATTATAAAAAATTATAG
1 AAAAAAATTA-GAAAAATTATAG
*
45598181 AAAAAAGTATAGAAA
1 AAAAAAAT-TAGAAA
45598196 GATCTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 8 0.29
20 5 0.18
21 5 0.18
23 8 0.29
24 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (22 bp):
AAAAAAATTAGAAAAATTATAG
Found at i:45598164 original size:11 final size:11
Alignment explanation
Indices: 45598136--45598195 Score: 65
Period size: 10 Copynumber: 5.7 Consensus size: 11
45598126 TTTTAAATGT
45598136 TATA-AAAAAA
1 TATAGAAAAAA
45598146 T-TAG-AAAAA
1 TATAGAAAAAA
*
45598155 TATAGAAAAAT
1 TATAGAAAAAA
*
45598166 TATA-AAAAAT
1 TATAGAAAAAA
45598176 TATAGAAAAAA
1 TATAGAAAAAA
45598187 GTATAGAAA
1 -TATAGAAA
45598196 GATCTTAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 8 0.19
10 14 0.33
11 13 0.30
12 8 0.19
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (11 bp):
TATAGAAAAAA
Found at i:45601871 original size:39 final size:39
Alignment explanation
Indices: 45601817--45601940 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
45601807 ATTTGATGTG
*
45601817 TATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
45601856 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
45601895 TATCCGGACTTACGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
45601934 TGTCCGG
1 TATCCGG
45601941 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:45607866 original size:20 final size:20
Alignment explanation
Indices: 45607838--45607878 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
45607828 ATATATCTTG
*
45607838 ATTTTATTTGATTCTAATCA
1 ATTTGATTTGATTCTAATCA
*
45607858 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
45607878 A
1 A
45607879 ATTAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:45607886 original size:20 final size:20
Alignment explanation
Indices: 45607843--45607886 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
45607833 TCTTGATTTT
* *
45607843 ATTTGATTCTAATCAATTTG
1 ATTTGATTCTAATCAAATTA
*
45607863 ATTTGATTTTAATCAAATTA
1 ATTTGATTCTAATCAAATTA
45607883 ATTT
1 ATTT
45607887 AATTGCCCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTGATTCTAATCAAATTA
Found at i:45632268 original size:56 final size:56
Alignment explanation
Indices: 45632183--45632343 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
45632173 AGTCTACAAG
**
45632183 GACTATTC--CATGTAAGAGT-TCACATGGACTATCATTCAAACAAGAGTCTGCATA
1 GACTATTCTTCATGTAAGAGTCT-ACATGGACTATCATTCAAACAAGAGTCCCCATA
* * * *
45632237 GACTATTCTTCATGTTAGAGTCTACAAGGACTATCATTCCAACAAGAGTCCCCATG
1 GACTATTCTTCATGTAAGAGTCTACATGGACTATCATTCAAACAAGAGTCCCCATA
* * * * * **
45632293 GACTATCCTTCAGGCAAGAGTCCACATGGACTATCTTTCAAGTAAGAGTCC
1 GACTATTCTTCATGTAAGAGTCTACATGGACTATCATTCAAACAAGAGTCC
45632344 ACATGAACTA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 8 0.09
56 79 0.90
57 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
GACTATTCTTCATGTAAGAGTCTACATGGACTATCATTCAAACAAGAGTCCCCATA
Found at i:45632348 original size:28 final size:28
Alignment explanation
Indices: 45632196--45632353 Score: 131
Period size: 28 Copynumber: 5.6 Consensus size: 28
45632186 TATTCCATGT
* * *
45632196 AAGAGTTCACATGGACTATCATTCAAAC
1 AAGAGTCCACATGGACTATCTTTCAAGC
** * * *
45632224 AAGAGTCTGCATAGACTAT-TCTTCATGT
1 AAGAGTCCACATGGACTATCT-TTCAAGC
* * * *
45632252 TAGAGTCTACAAGGACTATCATTCCAA-C
1 AAGAGTCCACATGGACTATC-TTTCAAGC
* * *
45632280 AAGAGTCCCCATGGACTATCCTTCAGGC
1 AAGAGTCCACATGGACTATCTTTCAAGC
*
45632308 AAGAGTCCACATGGACTATCTTTCAAGT
1 AAGAGTCCACATGGACTATCTTTCAAGC
*
45632336 AAGAGTCCACATGAACTA
1 AAGAGTCCACATGGACTA
45632354 ATTAATGAGT
Statistics
Matches: 99, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 3 0.03
28 92 0.93
29 3 0.03
30 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGAGTCCACATGGACTATCTTTCAAGC
Found at i:45633334 original size:30 final size:31
Alignment explanation
Indices: 45633279--45633346 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
45633269 GACCCCCAAA
*
45633279 AAGTTTAAGTACCAACTTAAGAAAAAGTGCC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGCC
* * *
45633310 GAGTTTAGGTACCAAATT-AGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGCC
45633340 AAGTTTA
1 AAGTTTA
45633347 CGTATCAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGCC
Found at i:45635648 original size:45 final size:47
Alignment explanation
Indices: 45635595--45635695 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 47
45635585 TCTATATAGA
* * *
45635595 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTTAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGGTTTTTCAACCTT
*
45635640 ATTACACTTCATCTATTTGATATTGATTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGGTTTTTCAACCTT
45635689 ACTACAC
1 ACTACAC
45635696 CCCTTCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 15 0.32
47 4 0.09
49 28 0.60
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.47
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGGTTTTTCAACCTT
Found at i:45637458 original size:27 final size:27
Alignment explanation
Indices: 45637420--45637578 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
45637410 GCGAGGCTGC
*
45637420 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGACAG-AGCCACCAGATA
45637447 CAGATATTGTGACAGAGCCACCAGA-A
1 CAGATATTGTGACAGAGCCACCAGATA
*
45637473 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
* * *
45637500 CAGATAATTGTGGCACAGCCACCAG-GA
1 CAGAT-ATTGTGACAGAGCCACCAGATA
* *
45637527 CAGATATATATGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGACAGAGCCACCAGATA
* * *
45637554 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGACAGAGCCACCAG
45637579 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:45637579 original size:54 final size:54
Alignment explanation
Indices: 45637438--45637581 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
45637428 GTGACGAAGT
* * * *
45637438 CACCAGATACAGAT-ATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
45637492 CACCAGATCAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
1 CACCAGATCAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
* *
45637546 CACCAGATCAGATAATTATGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCACAGCCACCAGGAC
45637582 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCACAGCCACCAGGACAGATATATATGGCAGAGC
Found at i:45639204 original size:26 final size:26
Alignment explanation
Indices: 45639173--45639254 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
45639163 TGAAATGCCC
*
45639173 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45639199 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
45639225 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45639251 ATCA
1 ATCA
45639255 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45643324 original size:23 final size:23
Alignment explanation
Indices: 45643289--45643336 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
45643279 TGGTAAGGAG
**
45643289 TTAGCTTGTTGGAGGACCTGTGT
1 TTAGCTTACTGGAGGACCTGTGT
45643312 TTAGCTTACTGGAGGACCTGTGT
1 TTAGCTTACTGGAGGACCTGTGT
45643335 TT
1 TT
45643337 GAATTCCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.40
Consensus pattern (23 bp):
TTAGCTTACTGGAGGACCTGTGT
Found at i:45645843 original size:17 final size:18
Alignment explanation
Indices: 45645821--45645855 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45645811 CTGAATGTAC
45645821 TTTTCATATACA-CATAT
1 TTTTCATATACATCATAT
*
45645838 TTTTCATTTACATCATAT
1 TTTTCATATACATCATAT
45645856 ATGAATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTCATATACATCATAT
Found at i:45653496 original size:41 final size:43
Alignment explanation
Indices: 45653393--45653496 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 43
45653383 CAATGTTTAC
* * * *
45653393 GTCCCAGACGTGGTCTTACATGCTATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGCAATCAAATATCGATACCACT
* *
45653436 ATCCCAGACA-GAGTATTACACG-AATCAAATA-CGATACCGA-T
1 GTCCCAGACATG-GTCTTACACGCAATCAAATATCGATACC-ACT
45653477 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
45653497 TGTAGCCACA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
41 23 0.46
42 11 0.22
43 16 0.32
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGCAATCAAATATCGATACCACT
Found at i:45659515 original size:31 final size:31
Alignment explanation
Indices: 45659471--45659541 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 31
45659461 AAAATTTAAT
45659471 TGTATACAACTGAACCACAATCAAAGTTT-TA
1 TGTATA-AACTGAACCACAATCAAAGTTTATA
*
45659502 TGTATAAATCTGAACTACAATCAAAGTTTCATA
1 TGTATAAA-CTGAACCACAATCAAAGTTT-ATA
45659535 TGTATAA
1 TGTATAA
45659542 TTGGACCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 2 0.06
31 25 0.69
33 9 0.25
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (31 bp):
TGTATAAACTGAACCACAATCAAAGTTTATA
Found at i:45660483 original size:18 final size:18
Alignment explanation
Indices: 45660444--45660502 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
45660434 ACCACAGGTG
45660444 AAAAA-GATAATATCT-TT
1 AAAAATGATAATAT-TATT
*
45660461 TAAAATGATAATATTATT
1 AAAAATGATAATATTATT
* *
45660479 AAAAATAATAATTTTATT
1 AAAAATGATAATATTATT
45660497 AAAAAT
1 AAAAAT
45660503 AATTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 5 0.14
18 31 0.86
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAATGATAATATTATT
Found at i:45660488 original size:15 final size:16
Alignment explanation
Indices: 45660445--45660511 Score: 57
Period size: 18 Copynumber: 4.0 Consensus size: 16
45660435 CCACAGGTGA
*
45660445 AAAAGATAATATCTTTT
1 AAAAGATAATAT-TATT
45660462 AAAATGATAATATTATT
1 AAAA-GATAATATTATT
45660479 AAAA-ATAATAATTTTATT
1 AAAAGATAAT-A--TTATT
*
45660497 AAAA-ATAATTTTATT
1 AAAAGATAATATTATT
45660512 TTGAAATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
15 10 0.23
16 1 0.02
17 11 0.25
18 22 0.50
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (16 bp):
AAAAGATAATATTATT
Found at i:45660503 original size:18 final size:18
Alignment explanation
Indices: 45660462--45660505 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
45660452 AATATCTTTT
*
45660462 AAAATGATAATATTATTA
1 AAAATAATAATATTATTA
*
45660480 AAAATAATAATTTTATTA
1 AAAATAATAATATTATTA
45660498 AAAATAAT
1 AAAATAAT
45660506 TTTATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATAATAATATTATTA
Found at i:45660664 original size:35 final size:35
Alignment explanation
Indices: 45660625--45660694 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
45660615 TATTGAGCTG
45660625 GTAGCTTTTTACACGTATATATCAATTAAAATATA
1 GTAGCTTTTTACACGTATATATCAATTAAAATATA
45660660 GTAGCTTTTTACACGTATATATCAATTAAAATATA
1 GTAGCTTTTTACACGTATATATCAATTAAAATATA
45660695 ATATACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (35 bp):
GTAGCTTTTTACACGTATATATCAATTAAAATATA
Found at i:45663405 original size:15 final size:16
Alignment explanation
Indices: 45663387--45663416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45663377 AATTGTTTTA
45663387 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
45663402 TTACATAATTTCACT
1 TTACATAATTTCACT
45663417 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:45663744 original size:50 final size:50
Alignment explanation
Indices: 45663626--45663905 Score: 240
Period size: 50 Copynumber: 5.6 Consensus size: 50
45663616 ATTCGGTACG
* * * * ***
45663626 CATAGTAGCCTGTACTTAGTACTACACATGCGACC-AACAATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
** * *
45663675 TGTAGTACCCTGCACTTAGTACTACACACGTGGCCTAACCATCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
* * * *** *** *
45663725 CATAGTAGCATGCACTTAGTACTACACACGTGATCAAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTAATACA
* * * * *
45663776 CATAGTAGCCTGCACTTAGTACTACATATGCGACCTAACTATCTAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
* * *
45663826 CGTAGTAACCTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAA-ACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATC-TAATACA
*
45663878 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
45663906 TGTGTTCTCA
Statistics
Matches: 181, Mismatches: 45, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
49 28 0.15
50 80 0.44
51 37 0.20
52 34 0.19
53 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACA
Found at i:45663799 original size:101 final size:101
Alignment explanation
Indices: 45663677--45663858 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
45663667 CCGGTACATG
* * *
45663677 TAGTACCCTGCACTTAGTACTACACACGTGGCCTAACCATCTAATACACATAGTAGCATGCACTT
1 TAGTACCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATACACATAGTAACATGCACTT
45663742 AGTACTACACACGTGATCAAAGTTGTCGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTGTCGGGTACGCA
* * * * * * *
45663778 TAGTAGCCTGCACTTAGTACTACATATGCGACCTAACTATCTAGTACACGTAGTAACCTGCACTT
1 TAGTACCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATACACATAGTAACATGCACTT
*
45663843 AGTACTACACATGTGA
66 AGTACTACACACGTGA
45663859 CCTAAAACCA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTACCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATACACATAGTAACATGCACTT
AGTACTACACACGTGATCAAAGTTGTCGGGTACGCA
Found at i:45668443 original size:12 final size:14
Alignment explanation
Indices: 45668426--45668457 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45668416 AACTCATATT
45668426 TTAAAAT-A-AAAA
1 TTAAAATAACAAAA
45668438 TTAAAATAACAAAA
1 TTAAAATAACAAAA
45668452 TTAAAA
1 TTAAAA
45668458 ATACCACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
TTAAAATAACAAAA
Found at i:45671766 original size:47 final size:48
Alignment explanation
Indices: 45671709--45671818 Score: 152
Period size: 49 Copynumber: 2.3 Consensus size: 48
45671699 GCCATATCCT
* *
45671709 AGACATGGTCTTACACTGACTCATC-CATCAAG-TCGATGCCAAGTCCC
1 AGACATGGTCTTACACTGACT-ATCAAATCAAGACCGATGCCAAGTCCC
* *
45671756 AGACATGGTCTTACACTGACTATCAAAATCGAGACCGATGCCATGTCCC
1 AGACATGGTCTTACACTGACTATC-AAATCAAGACCGATGCCAAGTCCC
45671805 AGACATGGTCTTAC
1 AGACATGGTCTTAC
45671819 GCTAGCTCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 3 0.05
47 21 0.38
48 5 0.09
49 27 0.48
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (48 bp):
AGACATGGTCTTACACTGACTATCAAATCAAGACCGATGCCAAGTCCC
Found at i:45671925 original size:46 final size:48
Alignment explanation
Indices: 45671691--45672011 Score: 220
Period size: 46 Copynumber: 6.8 Consensus size: 48
45671681 ATAGGGTATA
* * *
45671691 ATGCCAATGCCATATCCTAGACATGGTCTTACACT-GAC-T-CATC-CAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTC-T
* * * ** *
45671737 CAAGTCGATGCCAAGTCCCAGACATGGTCTTACACT-GAC-TATCAAAATCG
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-C-ATCTCT
* *
45671787 A-GACCGATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCACATATCT
1 ATG-CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCTCT
* ** * *
45671837 ATGCCGATGCCATGTCCTAGTTATGGTCTTAAACTAAC--ACATCTCGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTC-T
* *
45671884 A-GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTTACATCTCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCT
* * * * * * *
45671929 AGGCCGATG-CATGTCCAAGAAAT-GTCTTACACTAGCTTTCGTTTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCT
*
45671975 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTAG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
45672012 TGCACAAATA
Statistics
Matches: 222, Mismatches: 36, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.05
45 13 0.06
46 65 0.29
47 47 0.21
48 13 0.06
49 32 0.14
50 36 0.16
51 4 0.02
52 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCT
Found at i:45677048 original size:2 final size:2
Alignment explanation
Indices: 45677043--45677068 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45677033 TAAATATATA
45677043 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
45677069 AATGAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:45677242 original size:15 final size:15
Alignment explanation
Indices: 45677224--45677280 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
45677214 TATCTGTTTT
45677224 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
45677239 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
45677254 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
45677269 ATGGAA-TTATAT
1 ATTGAATTTATAT
45677281 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:45677259 original size:30 final size:28
Alignment explanation
Indices: 45677195--45677278 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 28
45677185 GATAAGTTTA
* *
45677195 TATTGAATTGAT-TT-ATGAATATCTGTTT
1 TATTGAATTTATATTGATGAA-AT-TATTT
45677223 TATTGAATTTATATTGATTGAAATTATTT
1 TATTGAATTTATATTGA-TGAAATTATTT
*
45677252 TGATTGAATTTATATTGATGGAATTAT
1 T-ATTGAATTTATATTGATGAAATTAT
45677279 ATAATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 11 0.22
29 15 0.31
30 19 0.39
31 4 0.08
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.52
Consensus pattern (28 bp):
TATTGAATTTATATTGATGAAATTATTT
Found at i:45677701 original size:20 final size:20
Alignment explanation
Indices: 45677676--45677713 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45677666 GTGTCGTATT
*
45677676 TCAGGCACCTCGTGTGTCTA
1 TCAGGCACATCGTGTGTCTA
45677696 TCAGGCACATCGTGTGTC
1 TCAGGCACATCGTGTGTC
45677714 GTTTTAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.29
Consensus pattern (20 bp):
TCAGGCACATCGTGTGTCTA
Found at i:45680528 original size:102 final size:101
Alignment explanation
Indices: 45680378--45680657 Score: 305
Period size: 101 Copynumber: 2.7 Consensus size: 101
45680368 CTTTTTGGCC
* * * *
45680378 AAGTATTGATATTTTTTTGAATTATCGATA-CCCTCTCTTAAAAATGATACCAAAGTGGCATTAT
1 AAGTATTGATA-ATTTTTGAATTATTGATACCCCT-TCTT-AAAATGATACCAAAATGACATTAT
* * *
45680442 GTTTTCACAAACCCTAATAAGTGTCGATACCTTTTGATT
63 GTTTTCACAAACCCTAATAAGTATCAATACCATTTGATT
* * * *
45680481 AAGTATTGATAATTTTTGAAATATTAATACCCCTTCTTAAAAGTGATATCAAAATGACATTTTGT
1 AAGTATTGATAATTTTTGAATTATTGATACCCCTTCTTAAAA-TGATACCAAAATGACATTATGT
* *
45680546 TTT-TCAAACCCTAATAATTATCAATACCATTTGATT
65 TTTCACAAACCCTAATAAGTATCAATACCATTTGATT
* ** * *
45680582 ATGTATCAAT-ATTTTCTGAATTATTGATACCCCTTCTTAAATATGATACTAAAAATAACATTAT
1 AAGTATTGATAATTTT-TGAATTATTGATACCCCTTCTTAAA-ATGATAC-CAAAATGACATTAT
45680646 GTTTCTCACAAA
63 GTTT-TCACAAA
45680658 ACTTACAAAG
Statistics
Matches: 147, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
100 5 0.03
101 67 0.46
102 55 0.37
103 16 0.11
104 4 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (101 bp):
AAGTATTGATAATTTTTGAATTATTGATACCCCTTCTTAAAATGATACCAAAATGACATTATGTT
TTCACAAACCCTAATAAGTATCAATACCATTTGATT
Found at i:45681983 original size:36 final size:36
Alignment explanation
Indices: 45681943--45682051 Score: 99
Period size: 36 Copynumber: 3.2 Consensus size: 36
45681933 CATGATCATA
45681943 TAATAATATTGATAAATTATTATTCTGATGCTAATT
1 TAATAATATTGATAAATTATTATTCTGATGCTAATT
* * * ** *
45681979 TAATAATA-TAATTAA-CA--ATAAT-AT-C--ATA
1 TAATAATATTGATAAATTATTATTCTGATGCTAATT
*
45682007 TAATAATATTGATAAATTATTATTCTGATGTTAATT
1 TAATAATATTGATAAATTATTATTCTGATGCTAATT
45682043 TAATAATAT
1 TAATAATAT
45682052 AATTAACAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 16
0.64 0.16 0.20
Matches are distributed among these distances:
28 10 0.19
29 5 0.10
30 2 0.04
31 2 0.04
32 6 0.12
33 2 0.04
34 1 0.02
35 5 0.10
36 19 0.37
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (36 bp):
TAATAATATTGATAAATTATTATTCTGATGCTAATT
Found at i:45681987 original size:64 final size:64
Alignment explanation
Indices: 45681937--45682065 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
45681927 TTTAATCATG
45681937 ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATA-TAATTAACAATAAT
1 ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATATTAATT-ACAATAAT
*
45682001 ATCATATAATAATATTGATAAATTATTATTCTGATGTTAATTTAATAATA-TAATTAACAATAAT
1 ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATATTAATT-ACAATAAT
45682065 A
1 A
45682066 GATATTCTCT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (64 bp):
ATCATATAATAATATTGATAAATTATTATTCTGATGCTAATTTAATAATATTAATTACAATAAT
Found at i:45682180 original size:22 final size:23
Alignment explanation
Indices: 45682138--45682180 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
45682128 ATAAATTTAG
*
45682138 ATTATAAATTATACATAAATACT
1 ATTATAAATAATACATAAATACT
*
45682161 ATTATAAA-AATATATAAATA
1 ATTATAAATAATACATAAATA
45682181 GCAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTATAAATAATACATAAATACT
Found at i:45682514 original size:42 final size:43
Alignment explanation
Indices: 45682467--45682565 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 43
45682457 TTTCTTAAAA
45682467 ATATATTTATATTATTTTTA-ATTTA-ATAT-TTAATAATTTTAT
1 ATATATTTATATTATTTTTATATTTAGATATCTTAAT-ATTTT-T
* *
45682509 ATATATTTAT-TAAATTTTTATATTTAGTTATCTTAATATTTTT
1 ATATATTTATAT-TATTTTTATATTTAGATATCTTAATATTTTT
*
45682552 A-ATTTTTATATTAT
1 ATATATTTATATTAT
45682566 AGTAATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
41 1 0.02
42 26 0.54
43 8 0.17
44 8 0.17
45 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (43 bp):
ATATATTTATATTATTTTTATATTTAGATATCTTAATATTTTT
Found at i:45682516 original size:19 final size:19
Alignment explanation
Indices: 45682488--45682531 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45682478 TTATTTTTAA
45682488 TTTA-ATATTTAAT-AATT
1 TTTATATATTTAATAAATT
*
45682505 TTATATATATTTATTAAATT
1 TT-TATATATTTAATAAATT
45682525 TTTATAT
1 TTTATAT
45682532 TTAGTTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 2 0.09
19 13 0.57
20 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATATTTAATAAATT
Found at i:45682519 original size:23 final size:23
Alignment explanation
Indices: 45682493--45682591 Score: 66
Period size: 21 Copynumber: 4.3 Consensus size: 23
45682483 TTTAATTTAA
45682493 TATTTAATAATTTTATATATATT
1 TATTTAATAATTTTATATATATT
* * *
45682516 TA-TTAA-ATTTTTATATTTAGT
1 TATTTAATAATTTTATATATATT
*
45682537 TATCTTAAT-ATTTT-TA-ATTTT
1 TAT-TTAATAATTTTATATATATT
*
45682558 TATATTATAGTAATATTATATATTATT
1 TAT-TTA-A-TAATTTTATATA-TATT
45682585 T-TTTAAT
1 TATTTAAT
45682592 TTTTATGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
21 22 0.39
22 7 0.12
23 12 0.21
24 5 0.09
25 5 0.09
26 2 0.04
27 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTAATAATTTTATATATATT
Found at i:45682532 original size:36 final size:34
Alignment explanation
Indices: 45682472--45682597 Score: 127
Period size: 32 Copynumber: 3.7 Consensus size: 34
45682462 TAAAAATATA
* *
45682472 TTTATAT-TATTTTTAA-TTTAATATTTAATAAT
1 TTTATATATATTTTTAATTTTTATATTTAGTAAT
*
45682504 TTTATATATATTTATTAAATTTTTATATTTAGTTA-
1 TTTATATATATTT-TT-AATTTTTATATTTAGTAAT
*
45682539 TCT-TA-ATATTTTTAATTTTTATATTATAGTAAT
1 TTTATATATATTTTTAATTTTTATATT-TAGTAAT
*
45682572 ATTATATATTATTTTTTAATTTTTAT
1 TTTATATA-TA-TTTTTAATTTTTAT
45682598 GTATTATAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
31 12 0.16
32 14 0.18
33 12 0.16
34 6 0.08
35 5 0.06
36 14 0.18
37 14 0.18
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (34 bp):
TTTATATATATTTTTAATTTTTATATTTAGTAAT
Found at i:45682539 original size:21 final size:23
Alignment explanation
Indices: 45682479--45682556 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 23
45682469 ATATTTATAT
* *
45682479 TATTTTTA-ATTTA-ATATTTAA
1 TATTTTTATATTTAGTTACTTAA
* * *
45682500 TAATTTTATATATATTTA-TTAA
1 TATTTTTATATTTAGTTACTTAA
45682522 -ATTTTTATATTTAGTTATCTTAA
1 TATTTTTATATTTAGTTA-CTTAA
45682545 TATTTTTA-ATTT
1 TATTTTTATATTT
45682557 TTATATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 21 0.46
22 8 0.17
23 10 0.22
24 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (23 bp):
TATTTTTATATTTAGTTACTTAA
Found at i:45694381 original size:42 final size:42
Alignment explanation
Indices: 45694335--45694456 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
45694325 TACCATACCA
* * * *
45694335 ATGCCATATCTCAGATATGGTCTTACATG-GGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * *
45694377 ATGCCAATAGCCCAGCTATAGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
45694420 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
45694457 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.46
43 35 0.52
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:45701326 original size:49 final size:50
Alignment explanation
Indices: 45701250--45701380 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 50
45701240 GTATTATTCC
*
45701250 GATGCCATGTCCCA-ACATGGTTTTACACTGACTATCA-AAATC-GAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCTG-GGCT
* * * * *
45701298 GATGTCATGTCCCAGAGATGGTCTTACACT-AGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCACAAATCTGGGCT
* *
45701348 GATGCCATGTCCCAGACAGGGTCTTATACTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC
45701381 ACATCTTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
48 14 0.21
49 18 0.26
50 34 0.50
51 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCTGGGCT
Found at i:45701453 original size:46 final size:46
Alignment explanation
Indices: 45701391--45701561 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
45701381 ACATCTTATA
45701391 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
* * * * * * * *
45701437 GCCGATGTATATCCCAGACATGTCTCACACTAGCTTATGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
* * * * * *
45701483 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCACGAG
45701531 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
45701562 AGCACACAAA
Statistics
Matches: 98, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 54 0.55
47 24 0.24
48 19 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCACGAG
Found at i:45716483 original size:79 final size:80
Alignment explanation
Indices: 45716323--45716547 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
45716313 TTGAATGATG
* * * * * *
45716323 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
45716386 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
45716403 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
45716464 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
45716482 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
45716547 G
66 G
45716548 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 46 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:45716511 original size:40 final size:40
Alignment explanation
Indices: 45716323--45716547 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
45716313 TTGAATGATG
* * * *
45716323 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45716363 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
45716403 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
45716443 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45716482 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45716523 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45716548 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45716539 original size:119 final size:120
Alignment explanation
Indices: 45716323--45716547 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
45716313 TTGAATGATG
*
45716323 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
45716388 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
45716443 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
45716505 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
45716548 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 69 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:45716569 original size:79 final size:78
Alignment explanation
Indices: 45716330--45716580 Score: 244
Period size: 79 Copynumber: 3.2 Consensus size: 78
45716320 ATGTCCGGGC
* * * *
45716330 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
45716393 AGATACTAAATCCGGAC
64 AG-GACTAAATCCGG-T
45716410 TAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC
1 TAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
45716471 GAGTTACTAAATCCGGGT
63 GAG-GACTAAATCC-GGT
* * **
45716489 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
45716554 GAGCTATATCCGGT
66 GA-CTAAATCCGGT
* *
45716568 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
45716581 TACGTGATTT
Statistics
Matches: 146, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
78 2 0.01
79 81 0.55
80 53 0.36
81 9 0.06
82 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAAATCCGGT
Found at i:45727514 original size:20 final size:20
Alignment explanation
Indices: 45727486--45727529 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
45727476 TACCAACTTG
*
45727486 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
45727506 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
45727526 CAAC
1 CAAC
45727530 TTAAACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:45727736 original size:42 final size:41
Alignment explanation
Indices: 45727615--45727736 Score: 111
Period size: 43 Copynumber: 2.9 Consensus size: 41
45727605 TACCATACCA
* * **
45727615 ATGCCATATCTCAGATATAGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGATATAGTCTTACAT-GAATCTCATATCC
* * *
45727657 ATGCCA-ATTGCCCAGTTATTGTTTTACATGAAGTCTCATATCC
1 ATGCCATA-T-CCCAGATATAGTCTTACATGAA-TCTCATATCC
* *
45727700 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATAGTCTTACATG-AATCTCA
45727737 ACTAACCCTA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.47
43 32 0.50
44 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (41 bp):
ATGCCATATCCCAGATATAGTCTTACATGAATCTCATATCC
Found at i:45730320 original size:17 final size:17
Alignment explanation
Indices: 45730298--45730332 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45730288 CCAAAATGAC
45730298 CATAAATCCTATACATG
1 CATAAATCCTATACATG
*
45730315 CATAAATCTTATACATG
1 CATAAATCCTATACATG
45730332 C
1 C
45730333 CATATAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (17 bp):
CATAAATCCTATACATG
Found at i:45741722 original size:8 final size:8
Alignment explanation
Indices: 45741701--45741734 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
45741691 TACTTATTAA
45741701 ATAATAA-
1 ATAATAAT
45741708 ATAATAAT
1 ATAATAAT
*
45741716 TTAATAAT
1 ATAATAAT
45741724 ATAATAAT
1 ATAATAAT
45741732 ATA
1 ATA
45741735 TATGTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:45741779 original size:19 final size:19
Alignment explanation
Indices: 45741755--45741792 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
45741745 TAAAGTAATT
45741755 AAATAAAAGAAATA-AAAGA
1 AAAT-AAAGAAATAGAAAGA
45741774 AAATAAAGAAATAGAAAGA
1 AAATAAAGAAATAGAAAGA
45741793 GGATAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAATAAAGAAATAGAAAGA
Found at i:45741791 original size:10 final size:9
Alignment explanation
Indices: 45741755--45741792 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
45741745 TAAAGTAATT
45741755 AAATAAAAG
1 AAATAAAAG
45741764 AAATAAAAG
1 AAATAAAAG
45741773 AAA-ATAAAG
1 AAATA-AAAG
45741782 AAATAGAAAG
1 AAATA-AAAG
45741792 A
1 A
45741793 GGATAGAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 1 0.04
9 19 0.73
10 6 0.23
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (9 bp):
AAATAAAAG
Found at i:45742897 original size:21 final size:20
Alignment explanation
Indices: 45742873--45742914 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
45742863 TACGATGTTG
45742873 AAAGACATTAAA-TGATATGTA
1 AAAGACA-TAAATTGA-ATGTA
*
45742894 AAAGATATAAATTGAATGTA
1 AAAGACATAAATTGAATGTA
45742914 A
1 A
45742915 GAGATGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.29
Consensus pattern (20 bp):
AAAGACATAAATTGAATGTA
Found at i:45747574 original size:18 final size:17
Alignment explanation
Indices: 45747547--45747581 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
45747537 ATTTGGGGCT
45747547 AGAGAAAAAGAAGAAGA
1 AGAGAAAAAGAAGAAGA
45747564 AGAGAAAAAAGAAGAAGA
1 AGAG-AAAAAGAAGAAGA
45747582 GGAAGAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAGAAGAAGA
Found at i:45747577 original size:15 final size:15
Alignment explanation
Indices: 45747547--45747596 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
45747537 ATTTGGGGCT
45747547 AGAGAAAAAGAAGAAGA
1 AGAG-AAAA-AAGAAGA
45747564 AGAGAAAAAAGAAGA
1 AGAGAAAAAAGAAGA
* * *
45747579 AGAGGAAGAAGAGGA
1 AGAGAAAAAAGAAGA
45747594 AGA
1 AGA
45747597 TGCCTAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 22 0.73
16 4 0.13
17 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AGAGAAAAAAGAAGA
Found at i:45747954 original size:36 final size:36
Alignment explanation
Indices: 45747914--45748052 Score: 181
Period size: 36 Copynumber: 3.9 Consensus size: 36
45747904 CTAAAAACCA
* * *
45747914 GCTTATGTTTTGTA-ATATTGTTGTTGGTATACTGTT
1 GCTTATGTTTT-TATACATGGTTGTTGGTATATTGTT
*
45747950 GCTTATGTTGTTATACATGGTTGTTGGTATATTGTT
1 GCTTATGTTTTTATACATGGTTGTTGGTATATTGTT
* *
45747986 GCTTATGTTTTTATACATGGCTGCTGGTATATTGTT
1 GCTTATGTTTTTATACATGGTTGTTGGTATATTGTT
* * *
45748022 GCTTATGTTGTTATACATGGCTGCTGGTATA
1 GCTTATGTTTTTATACATGGTTGTTGGTATA
45748053 CATGGCTAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 2 0.02
36 92 0.98
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (36 bp):
GCTTATGTTTTTATACATGGTTGTTGGTATATTGTT
Found at i:45747964 original size:20 final size:20
Alignment explanation
Indices: 45747935--45747994 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
45747925 GTAATATTGT
45747935 TGTTGGTATACTGTTGCTTA
1 TGTTGGTATACTGTTGCTTA
*
45747955 TGTTGTTATACATG--G--T-
1 TGTTGGTATAC-TGTTGCTTA
*
45747971 TGTTGGTATATTGTTGCTTA
1 TGTTGGTATACTGTTGCTTA
45747991 TGTT
1 TGTT
45747995 TTTATACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 12
0.67 0.07 0.26
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 2 0.06
19 2 0.06
20 14 0.45
21 2 0.06
ACGTcount: A:0.15, C:0.07, G:0.25, T:0.53
Consensus pattern (20 bp):
TGTTGGTATACTGTTGCTTA
Found at i:45748301 original size:23 final size:24
Alignment explanation
Indices: 45748256--45748301 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
45748246 AAAAATAGAA
* *
45748256 ACATTTGTATTTCTTAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
45748280 ACATTTGT-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
45748302 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:45749604 original size:2 final size:2
Alignment explanation
Indices: 45749599--45749701 Score: 170
Period size: 2 Copynumber: 51.5 Consensus size: 2
45749589 CACCAACAAT
45749599 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* * * *
45749641 CA CA CA CA CA CA CA CA CA CA CA AA CA CA CA CA CA CC CC CC CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45749683 CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA C
45749702 CTAAAAAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45751674 original size:62 final size:62
Alignment explanation
Indices: 45751597--45751734 Score: 222
Period size: 62 Copynumber: 2.2 Consensus size: 62
45751587 CCATTTCTGT
*
45751597 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGA
* * * *
45751659 CAGACAACAACCAATACAAAAATAATTTAATACAAGCACAACCATTTTTGTCATGCACATGA
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGA
*
45751721 CAGATAATAACCAA
1 CAGACAATAACCAA
45751735 ACACTTTAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.21
Consensus pattern (62 bp):
CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGA
Found at i:45752056 original size:6 final size:6
Alignment explanation
Indices: 45752047--45752122 Score: 98
Period size: 6 Copynumber: 12.7 Consensus size: 6
45752037 AAATAATCCT
* * * *
45752047 AAATCG AAATCG AAATCG AAATCA AAATCA AAATTA AAATCA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
**
45752095 AAATCA AAATCA AAATTG AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAAT
45752123 AACCCTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:45752844 original size:48 final size:50
Alignment explanation
Indices: 45752783--45752881 Score: 159
Period size: 49 Copynumber: 2.0 Consensus size: 50
45752773 TAAAAATAAC
45752783 TTAATAAAAAATAATAAATAATTTAATCA-TA-TTTTAATATAATTATTAT
1 TTAATAAAAAATAATAAATAATTTAAT-AGTATTTTTAATATAATTATTAT
*
45752832 TTAAT-AAAAATAATATATAATTTAATAGTATTTTTAATATAATTATTAT
1 TTAATAAAAAATAATAAATAATTTAATAGTATTTTTAATATAATTATTAT
45752881 T
1 T
45752882 ATATTAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 1 0.02
48 22 0.47
49 24 0.51
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (50 bp):
TTAATAAAAAATAATAAATAATTTAATAGTATTTTTAATATAATTATTAT
Found at i:45756853 original size:84 final size:85
Alignment explanation
Indices: 45756726--45756895 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 85
45756716 ATTTCTGCTA
*
45756726 TTTGAGCTTAGGTTCAACACAAGCTCAACGAATGCAAACCAGCTGACATCAGTATCTAGTGATGT
1 TTTGAGCTTAGGTT-AACACAAGCTCAACGAATGCAAACCAGCTGACATCAATATCTAGTGATGT
45756791 ATACTCATCATGATTTTTCGG
65 ATACTCATCATGATTTTTCGG
*
45756812 TTTGAGCTTAGG-T-ACACAAGCTCCACGACATGCAAACCAGCTGACATCAATATCTAGTGATGT
1 TTTGAGCTTAGGTTAACACAAGCTCAACGA-ATGCAAACCAGCTGACATCAATATCTAGTGATGT
* *
45756875 ATACTCATCCTGGTTTTTCGG
65 ATACTCATCATGATTTTTCGG
45756896 CAATGGGCCA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
83 14 0.18
84 52 0.66
85 1 0.01
86 12 0.15
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (85 bp):
TTTGAGCTTAGGTTAACACAAGCTCAACGAATGCAAACCAGCTGACATCAATATCTAGTGATGTA
TACTCATCATGATTTTTCGG
Found at i:45758288 original size:18 final size:18
Alignment explanation
Indices: 45758261--45758327 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
45758251 TACATAGAAT
45758261 ATTA-TACAATTATATAA
1 ATTATTACAATTATATAA
*
45758278 ATTATTACAATTTTCATAA
1 ATTATTACAATTAT-ATAA
* *
45758297 TGTTTTATACAATTAT-TCAA
1 -ATTAT-TACAATTATAT-AA
45758317 ATTATTACAAT
1 ATTATTACAAT
45758328 ATTTGTAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.10
18 14 0.36
19 8 0.21
20 5 0.13
21 8 0.21
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (18 bp):
ATTATTACAATTATATAA
Found at i:45765684 original size:47 final size:47
Alignment explanation
Indices: 45765565--45765693 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 47
45765555 AGGATATTTG
*
45765565 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAA
* * *
45765613 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--A
45765658 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
45765694 CGTTAGAAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAA
Found at i:45766825 original size:39 final size:40
Alignment explanation
Indices: 45766771--45766985 Score: 262
Period size: 39 Copynumber: 5.5 Consensus size: 40
45766761 AAACCAAGTA
* * * *
45766771 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
45766810 CCTTCGGGACTTAGCCCGGTTATAGTAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45766850 CCTTCGGGA-TTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45766889 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
45766928 CCTTTGGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45766967 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45766986 TTATCATCCA
Statistics
Matches: 154, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
37 3 0.02
38 17 0.11
39 75 0.49
40 58 0.38
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45766848 original size:40 final size:40
Alignment explanation
Indices: 45766804--45766989 Score: 263
Period size: 39 Copynumber: 4.7 Consensus size: 40
45766794 GCTACTTGCT
*
45766804 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
45766844 CAAATGCCTTCGGGA-TTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
45766883 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** * *
45766923 -AAATGCCTTTGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
45766961 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
45766990 CATCCAAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
37 3 0.02
38 17 0.13
39 62 0.48
40 46 0.35
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:45779228 original size:39 final size:39
Alignment explanation
Indices: 45779127--45779242 Score: 133
Period size: 39 Copynumber: 3.0 Consensus size: 39
45779117 ACAGGAAATC
*
45779127 TTATTCAGTATAATCAGTGGATAATGCTTGTTTGAGCAA
1 TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAA
** * * * * *
45779166 GCATTTAATATAATTAATGGATATTGCTTGTTTGAGTAA
1 TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAA
* * *
45779205 TTATTCAGTAAAATCAGTAGATATTGCTCGTTTGAGCA
1 TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCA
45779243 CCTCAGTAGA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (39 bp):
TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAA
Found at i:45779304 original size:37 final size:37
Alignment explanation
Indices: 45779211--45779734 Score: 469
Period size: 37 Copynumber: 14.4 Consensus size: 37
45779201 GTAATTATTC
* * *
45779211 AGTAAAATCAGTAGATATTGCTCGTTTGAGCAC-CTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* *
45779247 AGTAGAATCAGTAGACATTGCTCGTTTGAGCACGTTA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * *
45779284 AGTAGGATCAATAGATATTGCTCG-TTGAGCACTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * * *
45779320 AGTAGAATTAGTAGACATTGCTCGTTTGAGCACATTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* ** *
45779357 AGTAGGATTTGTAGATATTGCTC-ATTGAGCACTTTA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * * *
45779393 AGTAGAATAAATAGATATTCCTCGTTTGAGCACTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * ** *
45779430 AGTAAAATCAGTAGACATTGCTTATTTGAGCACATTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTA
** * *
45779468 A-TAGGGTCGGTAGATATTGCTC-CTTGAGCACTTTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-A
*
45779504 A-TAGTATCAGTAGATATTGCTCGTTTGAGCACTTTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-A
* * * * *
45779541 A-TATAATCAGTAGATATTGCTTGTTTGACCATTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * * *
45779577 GGTAGAATCAATTGACATTGCTCGTTTGAGCACATTT-
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTA
* * * * * *
45779614 AGCAGCAT-TGTAGATATTGCTTGTTTGAGCATTTTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
*
45779650 AGTAGAATCAGTAGATATTGCTCGTTTGAACACTTTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-A
* * *
45779688 A-TAGAACCAATAGATATTGCTCG-TTGAGCAC-TTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
*
45779722 AGTAGAATTAGTA
1 AGTAGAATCAGTA
45779735 TTCCATTTTT
Statistics
Matches: 390, Mismatches: 86, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.00
35 15 0.04
36 148 0.38
37 219 0.56
38 7 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (37 bp):
AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
Found at i:45779307 original size:73 final size:74
Alignment explanation
Indices: 45779185--45779734 Score: 522
Period size: 73 Copynumber: 7.5 Consensus size: 74
45779175 ATAATTAATG
* * * * *
45779185 GATATTGCTTGTTTGAGTAATTATTCAGTAAAATCAGTAGATATTGCTCGTTTGAGCAC-CTCAG
1 GATATTGCTCGTTTGAG-CACT-TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAG
45779249 TAGAATCAGTA
64 TAGAATCAGTA
* * * * * *
45779260 GACATTGCTCGTTTGAGCACGTTAAGTAGGATCAATAGATATTGCTCG-TTGAGCACTTTTAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
45779324 GAATTAGTA
66 GAATCAGTA
* * * ** * *
45779333 GACATTGCTCGTTTGAGCACATTCAGTAGGATTTGTAGATATTGCTC-ATTGAGCACTTTAAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
* *
45779397 GAATAAATA
66 GAATCAGTA
* * * * ** * *
45779406 GATATTCCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTTATTTGAGCACATTCAATA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
** *
45779471 GGGTCGGTA
66 GAATCAGTA
* * * *
45779480 GATATTGCTC-CTTGAGCACTTTCAATAGTATCAGTAGATATTGCTCGTTTGAGCACTTTCAATA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
45779544 TAATCAGTA
66 GAATCAGTA
* * * ** * * * *
45779553 GATATTGCTTGTTTGACCATTTTTGGTAGAATCAATTGACATTGCTCGTTTGAGCACATTT-AGC
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTCAGT
* *
45779617 AGCAT-TGTA
65 AGAATCAGTA
* * * *
45779626 GATATTGCTTGTTTGAGCATTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAACACTTTCAATA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
* *
45779691 GAACCAATA
66 GAATCAGTA
*
45779700 GATATTGCTCG-TTGAGCAC-TTCAGTAGAATTAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTA
45779735 TTCCATTTTT
Statistics
Matches: 383, Mismatches: 85, Indels: 17
0.79 0.18 0.04
Matches are distributed among these distances:
72 26 0.07
73 260 0.68
74 79 0.21
75 18 0.05
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (74 bp):
GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
GAATCAGTA
Found at i:45779447 original size:110 final size:110
Alignment explanation
Indices: 45779185--45779729 Score: 492
Period size: 110 Copynumber: 5.0 Consensus size: 110
45779175 ATAATTAATG
* * * * *
45779185 GATATTGCTTGTTTGAGTAATTATTCAGTAAAATCAGTAGATATTGCTCGTTTGAGCAC-CTCAG
1 GATATTGCTCGTTTGAGCACTT-TT-AGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAG
* * * * *
45779249 TAGAATCAGTAGACATTGCTCGTTTGAGCACGTTAAGTAGGATCAATA
64 TAGGATCAGTAGATATTGCTC-ATTGAGCACTTTAAGTAGAATCAATA
* *
45779297 GATATTGCTCG-TTGAGCACTTTTAGTAGAATTAGTAGACATTGCTCGTTTGAGCACATTCAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
** *
45779361 GGATTTGTAGATATTGCTCATTGAGCACTTTAAGTAGAATAAATA
66 GGATCAGTAGATATTGCTCATTGAGCACTTTAAGTAGAATCAATA
* ** *
45779406 GATATTCCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTTATTTGAGCACATTCAATA
1 GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * *
45779471 GGGTCGGTAGATATTGCTCCTTGAGCACTTTCAA-TAGTATCAGTA
66 GGATCAGTAGATATTGCTCATTGAGCACTTT-AAGTAGAATCAATA
* * * * * * ** **
45779516 GATATTGCTCGTTTGAGCACTTTCAATATAATCAGTAGATATTGCTTGTTTGACCATTTTTGGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * * * * **
45779581 GAATCAATTGACATTGCTCGTTTGAGCACATTT-AGCAGCAT-TGTA
66 GGATCAGTAGATATTGCTC-ATTGAGCAC-TTTAAGTAGAATCAATA
* * * * * *
45779626 GATATTGCTTGTTTGAGCA-TTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAACACTTTCAAT
1 GATATTGCTCGTTTGAGCACTTTT-AGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGT
* * * * *
45779690 AGAACCAATAGATATTGCTCGTTGAGCAC-TTCAGTAGAAT
65 AGGATCAGTAGATATTGCTCATTGAGCACTTTAAGTAGAAT
45779730 TAGTATTCCA
Statistics
Matches: 359, Mismatches: 66, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
107 2 0.01
108 6 0.02
109 73 0.20
110 243 0.68
111 22 0.06
112 13 0.04
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (110 bp):
GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
GGATCAGTAGATATTGCTCATTGAGCACTTTAAGTAGAATCAATA
Found at i:45781371 original size:15 final size:15
Alignment explanation
Indices: 45781351--45781379 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45781341 AGGAGAAGAA
45781351 ATGAAATTAATGATG
1 ATGAAATTAATGATG
45781366 ATGAAATTAATGAT
1 ATGAAATTAATGAT
45781380 ATTATTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (15 bp):
ATGAAATTAATGATG
Found at i:45788249 original size:54 final size:54
Alignment explanation
Indices: 45788167--45788271 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
45788157 GGGTTACGAA
45788167 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTTAG
1 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTTAG
45788221 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACT
1 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACT
45788272 AAGTTCAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (54 bp):
ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTTAG
Found at i:45796263 original size:16 final size:16
Alignment explanation
Indices: 45796242--45796272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45796232 ACCAAGTACT
*
45796242 TGATCTGTGTAGACTG
1 TGATCTATGTAGACTG
45796258 TGATCTATGTAGACT
1 TGATCTATGTAGACT
45796273 ATGACCTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (16 bp):
TGATCTATGTAGACTG
Found at i:45799006 original size:12 final size:11
Alignment explanation
Indices: 45798988--45799018 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
45798978 AATAAAATAA
45798988 AAATTGAATTG
1 AAATTGAATTG
45798999 AAAGTTGAATTG
1 AAA-TTGAATTG
45799011 AAATTGAA
1 AAATTGAA
45799019 AAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (11 bp):
AAATTGAATTG
Found at i:45799049 original size:23 final size:22
Alignment explanation
Indices: 45799006--45799053 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
45798996 TTGAAAGTTG
*
45799006 AATTGAAATTGAAAAATTAAATA
1 AATTGAAATGGAAAAATTAAA-A
*
45799029 AATTGAAATGG-AGAATATAAAA
1 AATTGAAATGGAAAAAT-TAAAA
45799051 AAT
1 AAT
45799054 AAGCAGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (22 bp):
AATTGAAATGGAAAAATTAAAA
Found at i:45799772 original size:20 final size:19
Alignment explanation
Indices: 45799748--45799807 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 19
45799738 TTAAATTCTA
45799748 AAAGATAAATACAAATAAA-
1 AAAGATAAATA-AAATAAAT
*
45799767 ATAAGATAATTAAAGATAAAT
1 A-AAGATAAATAAA-ATAAAT
45799788 AAAGATAAATAAAATTAAAT
1 AAAGATAAATAAAA-TAAAT
45799808 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 4 0.11
20 30 0.86
21 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:45799775 original size:10 final size:10
Alignment explanation
Indices: 45799748--45799800 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
45799738 TTAAATTCTA
45799748 AAAGATAAAT
1 AAAGATAAAT
45799758 ACAA-ATAAA-
1 A-AAGATAAAT
*
45799767 ATAAGATAATT
1 A-AAGATAAAT
45799778 AAAGATAAAT
1 AAAGATAAAT
45799788 AAAGATAAAT
1 AAAGATAAAT
45799798 AAA
1 AAA
45799801 ATTAAATCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.08
10 31 0.84
11 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:45799780 original size:24 final size:24
Alignment explanation
Indices: 45799753--45799799 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45799743 TTCTAAAAGA
*
45799753 TAAATACAAATAAA-ATAAGATAAT
1 TAAAGACAAATAAAGATAA-ATAAT
*
45799777 TAAAGATAAATAAAGATAAATAA
1 TAAAGACAAATAAAGATAAATAA
45799800 AATTAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (24 bp):
TAAAGACAAATAAAGATAAATAAT
Found at i:45802739 original size:46 final size:46
Alignment explanation
Indices: 45802689--45802864 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
45802679 TGGTTGAGCA
*
45802689 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
45802735 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
45802782 TCCGAACTCGTGGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45802828 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45802865 GCGAGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45802845 original size:93 final size:93
Alignment explanation
Indices: 45802686--45802857 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45802676 GGATGGTTGA
* * * *
45802686 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
45802751 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45802779 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
45802844 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45802858 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45822775 original size:62 final size:62
Alignment explanation
Indices: 45822698--45822819 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
45822688 ATTTCAAGTT
*
45822698 GATGACAAGGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAATC
1 GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAATC
45822760 GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAA
1 GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAA
45822820 GGGAAATTGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (62 bp):
GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAATC
Found at i:45823598 original size:13 final size:14
Alignment explanation
Indices: 45823555--45823599 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
45823545 ACTAAATTGG
45823555 AAAG-TGATAAAATT
1 AAAGATGAT-AAATT
45823569 AAAGATGATAAAATT
1 AAAGATGAT-AAATT
45823584 AAAGATGAT-AATT
1 AAAGATGATAAATT
45823597 AAA
1 AAA
45823600 TTAAATAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 19 0.63
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (14 bp):
AAAGATGATAAATT
Found at i:45823604 original size:18 final size:15
Alignment explanation
Indices: 45823555--45823594 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
45823545 ACTAAATTGG
45823555 AAAG-TGATAAAATT
1 AAAGATGATAAAATT
45823569 AAAGATGATAAAATT
1 AAAGATGATAAAATT
45823584 AAAGATGATAA
1 AAAGATGATAA
45823595 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (15 bp):
AAAGATGATAAAATT
Found at i:45824595 original size:58 final size:57
Alignment explanation
Indices: 45824505--45824620 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
45824495 CTATTGACCT
** *
45824505 TATTATAGAAAAGATTTAGCTTAGACTGGTAATCCTGATATAAGC-CTTCTTGAGCATA
1 TATTATAGAAAAGATTTAGCCCAGACTGGTAATCCTGAT-TAAGCTCTT-ATGAGCATA
* *
45824563 TATTATAGATAGGATTTAGCCCAGA-TGGGTAATCCTGATTAAGCTCTTATGAGCATA
1 TATTATAGAAAAGATTTAGCCCAGACT-GGTAATCCTGATTAAGCTCTTATGAGCATA
45824620 T
1 T
45824621 GTTGGAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
57 15 0.29
58 36 0.71
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (57 bp):
TATTATAGAAAAGATTTAGCCCAGACTGGTAATCCTGATTAAGCTCTTATGAGCATA
Found at i:45827356 original size:43 final size:43
Alignment explanation
Indices: 45827268--45827372 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
45827258 GATGTGATTA
* * *
45827268 TGTAAGATCATGTCTGGGACATTGGCATTGTATTGTGGTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACG
*
45827311 TGTAAGACCATGTCTGGGACATTGGCATTGTTATT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGCGATTACG
* *
45827354 TGTAAGACCCTGTTTGGGA
1 TGTAAGACCATGTCTGGGA
45827373 TAGTGACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 51 0.93
44 4 0.07
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACG
Found at i:45827501 original size:63 final size:63
Alignment explanation
Indices: 45827402--45827526 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
45827392 TAACATGTAA
45827402 GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTC
1 GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTC
* *
45827465 GACCATATTTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTT
1 GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTT
45827527 TGAATGGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (63 bp):
GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTC
Found at i:45837040 original size:22 final size:21
Alignment explanation
Indices: 45837015--45837069 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
45837005 TTAGGGTTTT
*
45837015 TTAGGATTTAATT-GATTTAGGG
1 TTAGGATTT--TTAGATTTAAGG
45837037 TTAGGATTTTTAAGATTTAAGG
1 TTAGGATTTTT-AGATTTAAGG
45837059 TTAGGATTTTT
1 TTAGGATTTTT
45837070 TAGAGTTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
22 28 0.93
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
TTAGGATTTTTAGATTTAAGG
Found at i:45837228 original size:15 final size:16
Alignment explanation
Indices: 45837195--45837228 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45837185 GGATTAATTG
45837195 ATTAAATTAGAGATTA
1 ATTAAATTAGAGATTA
*
45837211 ATTAAATTA-AGGTTA
1 ATTAAATTAGAGATTA
45837226 ATT
1 ATT
45837229 GATTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
ATTAAATTAGAGATTA
Found at i:45837235 original size:19 final size:19
Alignment explanation
Indices: 45837188--45837270 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 19
45837178 GGTATTTGGA
*
45837188 TTAATTGATTAAATTAGAG
1 TTAATTGATTAAATTAGGG
* *
45837207 ---ATTAATTAAATTAAGG
1 TTAATTGATTAAATTAGGG
45837223 TTAATTGATTAAATTTAGGG
1 TTAATTGATTAAA-TTAGGG
*
45837243 TTAATTGATTAATTTAGGG
1 TTAATTGATTAAATTAGGG
45837262 TTAATTGAT
1 TTAATTGAT
45837271 ACATAATCGT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
16 13 0.24
19 24 0.44
20 17 0.31
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.45
Consensus pattern (19 bp):
TTAATTGATTAAATTAGGG
Found at i:45837654 original size:7 final size:7
Alignment explanation
Indices: 45837644--45837676 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
45837634 CTATTAATTT
45837644 TAAATAC
1 TAAATAC
45837651 TAAATAC
1 TAAATAC
45837658 TAAATAC
1 TAAATAC
45837665 TAAATAC
1 TAAATAC
45837672 TAAAT
1 TAAAT
45837677 TAGAGTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAATAC
Found at i:45838045 original size:126 final size:126
Alignment explanation
Indices: 45837817--45838244 Score: 678
Period size: 126 Copynumber: 3.4 Consensus size: 126
45837807 TTTTTGCAAG
*
45837817 AATAATTTTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
45837882 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * *
45837943 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
45838008 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * *
45838069 AATAATTTTGAGTAGACGTTTCTAAATAAATAGTGTCCAAAACGCTTCAAGCAAGATGCACTGTT
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
45838134 AGCAAAATTTCT-AACAAAAGCTCCTACGTGGACGCTATTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAA-AAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
45838195 AATAATTCTGAGTAAACGTTTTTGAACAAATAGTGTCGAAAACGCTTCAA
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAA
45838245 ACGTTTTATG
Statistics
Matches: 276, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 2 0.01
126 274 0.99
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:45840802 original size:18 final size:18
Alignment explanation
Indices: 45840776--45840816 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45840766 GACTAGGAAA
* *
45840776 AGGAAACATATAAAGGTT
1 AGGATACATATAAAGGCT
*
45840794 AGGATACATATAAGGGCT
1 AGGATACATATAAAGGCT
45840812 AGGAT
1 AGGAT
45840817 TCGCACCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:45842521 original size:48 final size:47
Alignment explanation
Indices: 45842410--45842544 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 47
45842400 ATGCAAACAT
* *
45842410 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAATTA
1 CATAAATGAAAAAAATATCAAGTAGTATTGAAA-TTTAATTATAATTA
* *
45842458 CATAAATGAATAAAATATCAAGTAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATGAAAAAAATATCAAGTAGTATTG-AAATTTAATTATAA-TTA
* *
45842506 CATAAATTAAAAAAATATCGAA-TAGAATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AAGTAGTATTG-AAATTTAA
45842545 AATTATCAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.03
48 69 0.91
49 5 0.07
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAGTAGTATTGAAATTTAATTATAATTA
Found at i:45842745 original size:20 final size:19
Alignment explanation
Indices: 45842713--45842751 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
45842703 AATTTCAATG
* *
45842713 AAATTTGATAGAATTTTGA
1 AAATTTGAAAGAATGTTGA
45842732 AAATATTGAAAGAATGTTGA
1 AAAT-TTGAAAGAATGTTGA
45842752 GAGTTATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (19 bp):
AAATTTGAAAGAATGTTGA
Found at i:45843685 original size:18 final size:18
Alignment explanation
Indices: 45843648--45843685 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45843638 AAAAAATCAC
*
45843648 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
45843666 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
45843684 AT
1 AT
45843686 ATGGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:45846595 original size:13 final size:13
Alignment explanation
Indices: 45846577--45846658 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 13
45846567 GCCGTGTGTC
*
45846577 ACACACGGCCTAG
1 ACACACGCCCTAG
*
45846590 ACACACGCCCGTGTG
1 ACACACGCCC-T-AG
*
45846605 TCACACACGGCCTAG
1 --ACACACGCCCTAG
*
45846620 ACACACGCCCGTGTTG
1 ACACACGCCC---TAG
*
45846636 ACACACGACCTAG
1 ACACACGCCCTAG
45846649 ACACACGCCC
1 ACACACGCCC
45846659 GTGTGCCTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
13 29 0.55
14 1 0.02
15 2 0.04
16 12 0.23
17 9 0.17
ACGTcount: A:0.27, C:0.41, G:0.21, T:0.11
Consensus pattern (13 bp):
ACACACGCCCTAG
Found at i:45846649 original size:29 final size:30
Alignment explanation
Indices: 45846568--45846663 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
45846558 ATGGGGCAGG
45846568 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
45846598 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
* *
45846628 CCGTGT-TGACACACGACCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
45846657 CCGTGTG
1 CCGTGTG
45846664 CCTACTCGTG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 27 0.43
30 36 0.57
ACGTcount: A:0.23, C:0.39, G:0.24, T:0.15
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACACGC
Found at i:45847418 original size:47 final size:47
Alignment explanation
Indices: 45847357--45847521 Score: 194
Period size: 47 Copynumber: 3.5 Consensus size: 47
45847347 CTGCCAATGC
* * * *
45847357 CATGTCCCAGACATGGTTTTACATTGACTATCATCTCGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATCTCGTAGCCGATG
* *
45847404 CATGTCCCAGACAT-GTCTTACACT-AGCTCTCATCTCATTGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTCTCATCTCGTAGCCGATG
* * *
45847450 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTCTCAT-CTCGTAGCCGATG
45847498 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
45847522 AGCCCACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 34 0.33
47 42 0.41
48 25 0.24
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGACTCTCATCTCGTAGCCGATG
Done.