Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 58 of 186
Found at i:18028043 original size:14 final size:15
Alignment explanation
Indices: 18028020--18028060 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
18028010 CTATGTTTGT
18028020 TTTATAGAAAATAGA
1 TTTATAGAAAATAGA
18028035 TTT-TAGAAAAT-GA
1 TTTATAGAAAATAGA
*
18028048 TTTATTGAAAATA
1 TTTATAGAAAATA
18028061 AATTGCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (15 bp):
TTTATAGAAAATAGA
Found at i:18029037 original size:15 final size:15
Alignment explanation
Indices: 18028996--18029040 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
18028986 CAGAGCAAAG
* *
18028996 TAGAGCAAAATAGAA
1 TAGAACAAAGTAGAA
18029011 TAGAACAAAGTAGAA
1 TAGAACAAAGTAGAA
*
18029026 TAGAACAGAGTAGAA
1 TAGAACAAAGTAGAA
18029041 GTTATGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.58, C:0.07, G:0.22, T:0.13
Consensus pattern (15 bp):
TAGAACAAAGTAGAA
Found at i:18052364 original size:18 final size:17
Alignment explanation
Indices: 18052336--18052370 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18052326 ATTATTAAGA
*
18052336 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18052353 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18052371 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18052581 original size:44 final size:45
Alignment explanation
Indices: 18052532--18052626 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
18052522 TTACACCTCT
* *
18052532 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
18052576 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
18052621 ATTACA
1 ATTACA
18052627 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:18052626 original size:16 final size:16
Alignment explanation
Indices: 18052605--18052637 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18052595 TTGATTTGCT
*
18052605 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
18052621 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
18052637 A
1 A
18052638 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18052647 original size:21 final size:21
Alignment explanation
Indices: 18052618--18052660 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18052608 ACACCTCTAT
*
18052618 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
18052639 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
18052660 T
1 T
18052661 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:18056200 original size:12 final size:12
Alignment explanation
Indices: 18056183--18056212 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18056173 CCCCATACAC
18056183 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
18056195 CCGTGTGCTAGG
1 CCGTGTGCCAGG
18056207 CCGTGT
1 CCGTGT
18056213 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:18059735 original size:18 final size:20
Alignment explanation
Indices: 18059693--18059729 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18059683 ATATTTTATG
*
18059693 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
18059712 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
18059730 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:18062282 original size:67 final size:67
Alignment explanation
Indices: 18062200--18062334 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
18062190 GATGAATTTT
18062200 ACTCAAAATGTTCTAATGAATGAATTTTACTCGATTAGAACGTTAGAGGTTAATTGTTTTTTGGT
1 ACTCAAAATGTTCTAATGAATGAATTTTACTCGATTAGAACGTTAGAGGTTAATTGTTTTTTGGT
18062265 TA
66 TA
* * *
18062267 ACTCAAAATTTTCTAATGAATGAATTTTATTCGATTAGAAGGTTAGAGGTTAATTGTTTTTTGGT
1 ACTCAAAATGTTCTAATGAATGAATTTTACTCGATTAGAACGTTAGAGGTTAATTGTTTTTTGGT
18062332 TA
66 TA
18062334 A
1 A
18062335 ACTATACTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (67 bp):
ACTCAAAATGTTCTAATGAATGAATTTTACTCGATTAGAACGTTAGAGGTTAATTGTTTTTTGGT
TA
Found at i:18063070 original size:144 final size:143
Alignment explanation
Indices: 18062874--18063156 Score: 523
Period size: 144 Copynumber: 2.0 Consensus size: 143
18062864 ACAATGCGTA
18062874 TGCAATTCATGTGCTTTGATATAAGTGATGCTTATGCTCTAAAGATGATCGAGGCC-ATAGATGG
1 TGCAATTCATGTGCTTTGATATAAGTGATGCTTATGCTCTAAAGATGATCGA-GCCAATAGATGG
*
18062938 TATGTTGGGTACATGACTTGTGTATGGCATGCCTTTACTAGCAATAGTGCAATTCATAACTCAAT
65 TATGTTGGGTACATGACTTGTGTATGACATGCCTTTACTAGCAATAGTGCAATTCATAACTCAAT
18063003 TAAAGAGTTATGTC
130 TAAAGAGTTATGTC
18063017 TGCAATTCATGTGCTTTGATATAAGTGGATGCTTATGCTCTAAAGATGATCGAGCCAATAGATGG
1 TGCAATTCATGTGCTTTGATATAAGT-GATGCTTATGCTCTAAAGATGATCGAGCCAATAGATGG
*
18063082 TATGTTGGGTACATGACTTGTGTATGACATGCCTTTATTAGCAATAGTGCAATTCATAACTCAAT
65 TATGTTGGGTACATGACTTGTGTATGACATGCCTTTACTAGCAATAGTGCAATTCATAACTCAAT
18063147 TAAAGAGTTA
130 TAAAGAGTTA
18063157 ATGATATCAT
Statistics
Matches: 136, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
143 29 0.21
144 107 0.79
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (143 bp):
TGCAATTCATGTGCTTTGATATAAGTGATGCTTATGCTCTAAAGATGATCGAGCCAATAGATGGT
ATGTTGGGTACATGACTTGTGTATGACATGCCTTTACTAGCAATAGTGCAATTCATAACTCAATT
AAAGAGTTATGTC
Found at i:18065260 original size:17 final size:18
Alignment explanation
Indices: 18065216--18065260 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
18065206 TATCATTTAC
18065216 CATTTATC-GGCATTATT
1 CATTTATCGGGCATTATT
* *
18065233 -ATTGATTGGGCATT-TT
1 CATTTATCGGGCATTATT
18065249 CATTTATCGGGC
1 CATTTATCGGGC
18065261 TATAACGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:18068847 original size:42 final size:41
Alignment explanation
Indices: 18068790--18068891 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 41
18068780 TGAACAGAAG
* * *
18068790 CTCATAAAAGCTGAAC-GAAAACCCAGTAGGGTTAAACTAAAA
1 CTCATAAGAGTTGAACTG-AAACCCAGTAGAGTT-AACTAAAA
* * *
18068832 CTCGTAAGAGTTGAACTGAAACCCATTAGAGTTAACTGAAA
1 CTCATAAGAGTTGAACTGAAACCCAGTAGAGTTAACTAAAA
*
18068873 CTCATATGAGTT-AACTGAA
1 CTCATAAGAGTTGAACTGAA
18068892 GCTCATGTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 7 0.14
41 17 0.33
42 26 0.51
43 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (41 bp):
CTCATAAGAGTTGAACTGAAACCCAGTAGAGTTAACTAAAA
Found at i:18068848 original size:21 final size:21
Alignment explanation
Indices: 18068766--18068897 Score: 65
Period size: 21 Copynumber: 6.4 Consensus size: 21
18068756 GTGCTAACGG
* *
18068766 AAACTCGTAAGGGTTGAAC-A
1 AAACTCATAAGAGTTGAACTA
* * * *
18068786 GAAGCTCATAAAAGCTGAACGA
1 -AAACTCATAAGAGTTGAACTA
* * *
18068808 AAACCCAGT-AGGGTTAAACTA
1 AAACTCA-TAAGAGTTGAACTA
* *
18068829 AAACTCGTAAGAGTTGAACTG
1 AAACTCATAAGAGTTGAACTA
* * *
18068850 AAACCCATTAGAGTT-AACTG
1 AAACTCATAAGAGTTGAACTA
* *
18068870 AAACTCATATGAGTT-AACTG
1 AAACTCATAAGAGTTGAACTA
*
18068890 AAGCTCAT
1 AAACTCAT
18068898 GTGAGATAAA
Statistics
Matches: 84, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
20 30 0.36
21 52 0.62
22 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (21 bp):
AAACTCATAAGAGTTGAACTA
Found at i:18068896 original size:20 final size:20
Alignment explanation
Indices: 18068824--18068902 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
18068814 AGTAGGGTTA
* * *
18068824 AACTAAAACTCGTAAGAGTT
1 AACTGAAACTCATATGAGTT
*
18068844 GAACTGAAACCCAT-TAGAGTT
1 -AACTGAAACTCATAT-GAGTT
18068865 AACTGAAACTCATATGAGTT
1 AACTGAAACTCATATGAGTT
* *
18068885 AACTGAAGCTCATGTGAG
1 AACTGAAACTCATATGAG
18068903 ATAAACAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
20 33 0.67
21 16 0.33
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (20 bp):
AACTGAAACTCATATGAGTT
Found at i:18074516 original size:52 final size:52
Alignment explanation
Indices: 18074434--18074538 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
18074424 AAAAGATTAA
18074434 ATTTTCTAACGAAACTTTAATACTAACTCAATGACACTCCGTAAATATTTAT
1 ATTTTCTAACGAAACTTTAATACTAACTCAATGACACTCCGTAAATATTTAT
* *
18074486 ATTTTCTAACGAAACTTTAATACTAGCTCAATGACACTCTGTAAATATTTAT
1 ATTTTCTAACGAAACTTTAATACTAACTCAATGACACTCCGTAAATATTTAT
18074538 A
1 A
18074539 AAAATATTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (52 bp):
ATTTTCTAACGAAACTTTAATACTAACTCAATGACACTCCGTAAATATTTAT
Found at i:18075387 original size:75 final size:75
Alignment explanation
Indices: 18075298--18075447 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
18075288 ACTAACTTAG
*
18075298 ATTCACTAAATTCAGACCAATACAATGGAGTCTTGCATTTTTTCCCTTAAAGTGCCTCAAATGGT
1 ATTCACTAAATTCAGACCAATACAATGGAGTCTTGCATTTTTTCCCTTAAAGTGCCTCAAATAGT
18075363 GCCATTTTGA
66 GCCATTTTGA
18075373 ATTCACTAAATTCAGACCAATACAATGGAGTCTTGCATTTTTTCCCTTAAAGTGCCTCAAATAGT
1 ATTCACTAAATTCAGACCAATACAATGGAGTCTTGCATTTTTTCCCTTAAAGTGCCTCAAATAGT
18075438 GCCATTTTGA
66 GCCATTTTGA
18075448 TACTAGTTTG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (75 bp):
ATTCACTAAATTCAGACCAATACAATGGAGTCTTGCATTTTTTCCCTTAAAGTGCCTCAAATAGT
GCCATTTTGA
Found at i:18085315 original size:13 final size:13
Alignment explanation
Indices: 18085280--18085315 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
18085270 TTTCAAGATG
* *
18085280 CAAATTGTACAAA
1 CAAATTATATAAA
18085293 CAAATTATATAAA
1 CAAATTATATAAA
18085306 CAAATTATAT
1 CAAATTATAT
18085316 TCTGATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.31
Consensus pattern (13 bp):
CAAATTATATAAA
Found at i:18086806 original size:14 final size:14
Alignment explanation
Indices: 18086768--18086798 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18086758 GAGTTATATC
*
18086768 TAACAATAAAATAG
1 TAACAATATAATAG
18086782 TAACAATATAATAG
1 TAACAATATAATAG
18086796 TAA
1 TAA
18086799 AATGATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (14 bp):
TAACAATATAATAG
Found at i:18087108 original size:15 final size:18
Alignment explanation
Indices: 18087090--18087125 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
18087080 AAATCAATTT
18087090 TAACAAA-A-TAATA-AA
1 TAACAAATATTAATATAA
18087105 TAACAAATATTAATATAA
1 TAACAAATATTAATATAA
18087123 TAA
1 TAA
18087126 TATTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 5 0.28
18 5 0.28
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
TAACAAATATTAATATAA
Found at i:18100759 original size:18 final size:18
Alignment explanation
Indices: 18100736--18100773 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18100726 CAGGTCCATG
18100736 CTTCTCTGTGTTCTAATC
1 CTTCTCTGTGTTCTAATC
18100754 CTTCTCTGTGTTCTAATC
1 CTTCTCTGTGTTCTAATC
18100772 CT
1 CT
18100774 GAGTGAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.29, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTCTCTGTGTTCTAATC
Found at i:18102965 original size:28 final size:28
Alignment explanation
Indices: 18102934--18102990 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
18102924 AGATTTAGTT
* *
18102934 AATTTTTATCGGGTCAGTCTCCTCTATA
1 AATTTTTATAGGGTCAATCTCCTCTATA
*
18102962 AATTTTTATAGGGTCAATCTTCTCTATA
1 AATTTTTATAGGGTCAATCTCCTCTATA
18102990 A
1 A
18102991 CAATCAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (28 bp):
AATTTTTATAGGGTCAATCTCCTCTATA
Found at i:18103361 original size:18 final size:18
Alignment explanation
Indices: 18103338--18103372 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18103328 TTTTTCAACT
18103338 ATAAAAT-TTTAAATTTTA
1 ATAAAATGTTT-AATTTTA
18103356 ATAAAATGTTTAATTTT
1 ATAAAATGTTTAATTTT
18103373 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAAAATGTTTAATTTTA
Found at i:18103379 original size:20 final size:18
Alignment explanation
Indices: 18103337--18103381 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
18103327 ATTTTTCAAC
18103337 TATAAAATTTTAAATTTT
1 TATAAAATTTTAAATTTT
* *
18103355 AATAAAATGTTTAATTTTTT
1 TATAAAAT-TTTAA-ATTTT
18103375 TATAAAA
1 TATAAAA
18103382 AATATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATAAAATTTTAAATTTT
Found at i:18103513 original size:80 final size:82
Alignment explanation
Indices: 18103358--18103506 Score: 239
Period size: 80 Copynumber: 1.8 Consensus size: 82
18103348 AAATTTTAAT
* *
18103358 AAAATGTTTAATTTTTTTATAAAAAATATTAATAATATTTTATTAAATAAAAATAATCTTTAATA
1 AAAATGTTTAAGTTTTATATAAAAAATATTAATAATATTTTATTAAATAAAAATAATCTTTAATA
18103423 AATAACATTATTTCAAC
66 AATAACATTATTTCAAC
** *
18103440 AAAATGTTTAAGTTTTATAT-AAAAA-ATTAATCGTATTTTATTAAATGAAAATAATCTTTAATA
1 AAAATGTTTAAGTTTTATATAAAAAATATTAATAATATTTTATTAAATAAAAATAATCTTTAATA
18103503 AATA
66 AATA
18103507 GAATTATATT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 39 0.63
81 5 0.08
82 18 0.29
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (82 bp):
AAAATGTTTAAGTTTTATATAAAAAATATTAATAATATTTTATTAAATAAAAATAATCTTTAATA
AATAACATTATTTCAAC
Found at i:18104659 original size:18 final size:18
Alignment explanation
Indices: 18104636--18104673 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18104626 ATGCTAGGAC
18104636 TTAGCAAAACCTTCATAT
1 TTAGCAAAACCTTCATAT
18104654 TTAGCAAAACCTTCATAT
1 TTAGCAAAACCTTCATAT
18104672 TT
1 TT
18104674 TATTATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (18 bp):
TTAGCAAAACCTTCATAT
Found at i:18106430 original size:15 final size:15
Alignment explanation
Indices: 18106410--18106443 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18106400 GAACAGAAAT
*
18106410 TAATAATATGTAAAA
1 TAATAATATATAAAA
*
18106425 TAATAATATATAAAT
1 TAATAATATATAAAA
18106440 TAAT
1 TAAT
18106444 TTTATAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATAATATATAAAA
Found at i:18106540 original size:10 final size:11
Alignment explanation
Indices: 18106516--18106564 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
18106506 TCCATCAAAA
18106516 ATAAATAATAT
1 ATAAATAATAT
18106527 ATAAATAA-AT
1 ATAAATAATAT
*
18106537 ATAAATACTTTAGT
1 ATAAATA--ATA-T
18106551 ATAAATAATAT
1 ATAAATAATAT
18106562 ATA
1 ATA
18106565 CAAAAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
12 2 0.06
13 1 0.03
14 8 0.25
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:18108483 original size:177 final size:177
Alignment explanation
Indices: 18108176--18108812 Score: 947
Period size: 177 Copynumber: 3.6 Consensus size: 177
18108166 CAACTTCAGG
** * * * * *
18108176 GAGATAAGGCTAATGGCTTAAATCTGCTCCATTATCGATACATAGAGATAAGATTCGCCGTCTTT
1 GAGATAAGGCTGGTGGCTAAAATCTACTCCATTATCGATACATGGAGATAAGATTCGCCATCTTC
* * * *
18108241 GATCTGCTCCACTACTGCATAGGGAGATAAGATCTGCAATTTTCAGTCTGCCTCCTTGTTACCTC
66 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTTTGCTTCCTTGCTACCTC
18108306 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGA
131 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGA
* * *
18108353 GAGATAAGACTGGTGGCTAAAATCTGCTCCATT-GCTGATACATGGAGATAAGATTCGCCATCTT
1 GAGATAAGGCTGGTGGCTAAAATCTACTCCATTATC-GATACATGGAGATAAGATTCGCCATCTT
*
18108417 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTTTGCTTCCTTGCTACCT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTTTGCTTCCTTGCTACCT
* * *
18108482 CAAGAAGATAAGACTTGTATCTTTAACTTGCTCTCTTGCTACCTTAGA
130 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGA
** * ** *
18108530 GAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCCGACACATGGAGATAAGATTTTCCATCTTT
1 GAGATAAGGCTGGTGGCTAAAATCTACTCCATTATCGATACATGGAGATAAGATTCGCCATCTTC
* *
18108595 GACCTGCTCCACTACT-CTTAGGGAGATAAGATCTGCAATTTTTAGTCTT-CTTCCTTGCTACCT
66 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGT-TTGCTTCCTTGCTACCT
* *
18108658 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCATA
130 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGA
* *
18108706 GAGATAAGGCTGGTAGCTAAAATCTACTCCATTATCAATACATGGAGATAAGATTCGCCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTACTCCATTATCGATACATGGAGATAAGATTCGCCATCTTC
* *
18108771 GATCTGCTTCATTACTGCTTAGGGAGATAAGATCTGCAATTT
66 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
18108813 CACTGATGCC
Statistics
Matches: 414, Mismatches: 42, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
176 156 0.38
177 257 0.62
178 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTAAAATCTACTCCATTATCGATACATGGAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTTTGCTTCCTTGCTACCTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTTAGA
Found at i:18117048 original size:19 final size:19
Alignment explanation
Indices: 18117024--18117069 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18117014 TGTGAAATTC
* *
18117024 AATGCACATG-ATGTGATG
1 AATGCAAATGCATGAGATG
18117042 AAATGCAAATGCATGAGATG
1 -AATGCAAATGCATGAGATG
18117062 AATGCAAA
1 AATGCAAA
18117070 ACTAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAGATG
Found at i:18128427 original size:25 final size:24
Alignment explanation
Indices: 18128387--18128433 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
18128377 GCCAGTCAAC
18128387 TTTCTTTGCAATTTTAATTTTAAT
1 TTTCTTTGCAATTTTAATTTTAAT
*
18128411 TTTCTTTTCTAATTTTAATTTTA
1 TTTCTTTGC-AATTTTAATTTTA
18128434 TTCATTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTCTTTGCAATTTTAATTTTAAT
Found at i:18129008 original size:26 final size:26
Alignment explanation
Indices: 18128972--18129081 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
18128962 TGATACAAAT
18128972 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
18128998 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18129024 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
18129050 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
18129076 TGATAA
1 TGATAA
18129082 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:18139640 original size:29 final size:29
Alignment explanation
Indices: 18139608--18139669 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
18139598 AATATTTTTC
*
18139608 CTATTTTATGATTTCTCTGATCCATTTGA
1 CTATTTCATGATTTCTCTGATCCATTTGA
18139637 CTATTTCATGATTTCTCTGATCCATTTGA
1 CTATTTCATGATTTCTCTGATCCATTTGA
18139666 CTAT
1 CTAT
18139670 CTTAAGTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (29 bp):
CTATTTCATGATTTCTCTGATCCATTTGA
Found at i:18144057 original size:10 final size:10
Alignment explanation
Indices: 18144042--18144073 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
18144032 TCTTAATCAA
18144042 TCCCAAATTT
1 TCCCAAATTT
18144052 TCCCAAATTT
1 TCCCAAATTT
18144062 TCCCAAATTT
1 TCCCAAATTT
18144072 TC
1 TC
18144074 TTTATGTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (10 bp):
TCCCAAATTT
Found at i:18144992 original size:24 final size:24
Alignment explanation
Indices: 18144965--18145013 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
18144955 AATCTTAAAT
18144965 TTTCAACAAAAGGACAGAAAACAA
1 TTTCAACAAAAGGACAGAAAACAA
* *
18144989 TTTCAACAAAAGGATAGAAACCAA
1 TTTCAACAAAAGGACAGAAAACAA
18145013 T
1 T
18145014 CAATTTTACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.16
Consensus pattern (24 bp):
TTTCAACAAAAGGACAGAAAACAA
Found at i:18146237 original size:15 final size:15
Alignment explanation
Indices: 18146212--18146250 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18146202 AATAAGGACA
*
18146212 AAAATTAATAATATGT
1 AAAA-TAATAATATAT
18146228 AAAATAATAATATAT
1 AAAATAATAATATAT
*
18146243 AAATTAAT
1 AAAATAAT
18146251 TTTATAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAATAATAATATAT
Found at i:18148387 original size:15 final size:14
Alignment explanation
Indices: 18148352--18148393 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
18148342 ATCCCACCCC
*
18148352 AAAACAGATACAG-
1 AAAACAGATATAGA
18148365 AAAACAGATATAGA
1 AAAACAGATATAGA
18148379 AATAACAGAT-TAGA
1 AA-AACAGATATAGA
18148393 A
1 A
18148394 TGCTGAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.46
14 7 0.27
15 7 0.27
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAACAGATATAGA
Found at i:18165198 original size:25 final size:25
Alignment explanation
Indices: 18165161--18165219 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
18165151 AGGATAGGAT
*
18165161 TCATCTT-AATTCTGTTTCATTTTC
1 TCATCTTCTATTCTGTTTCATTTTC
*
18165185 TCCTCTTCTATTCTGTTTCATTTTC
1 TCATCTTCTATTCTGTTTCATTTTC
18165210 TCATCTTCTA
1 TCATCTTCTA
18165220 CATCTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.14, C:0.25, G:0.03, T:0.58
Consensus pattern (25 bp):
TCATCTTCTATTCTGTTTCATTTTC
Found at i:18166985 original size:44 final size:44
Alignment explanation
Indices: 18166905--18166995 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
18166895 GTCTGCTGGG
* * * *
18166905 TACTGAAGGTCAAAGCGGTTCATAACAAATGGACATGTCACACT
1 TACTAAAGGTCAAAGCGATTCACAACAAATGAACATGTCACACT
* **
18166949 TACTAAAGGTCAAAGCGATTCACAGCAGGTGAACATGTCACACT
1 TACTAAAGGTCAAAGCGATTCACAACAAATGAACATGTCACACT
18166993 TAC
1 TAC
18166996 GAGCATGGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (44 bp):
TACTAAAGGTCAAAGCGATTCACAACAAATGAACATGTCACACT
Found at i:18169990 original size:41 final size:42
Alignment explanation
Indices: 18169943--18170022 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
18169933 ATCAGATTTA
18169943 ATCTGAACCAATA-AT-ACGACAGATAGTGCCTCATCGAAATT
1 ATCTGAACCAATATATGAC-ACAGATAGTGCCTCATCGAAATT
* *
18169984 ATCTGAAGCAATATTATGACACATATAGTGCCTCATCGA
1 ATCTGAACCAATA-TATGACACAGATAGTGCCTCATCGA
18170023 CTTGAGGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 12 0.35
43 20 0.59
44 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (42 bp):
ATCTGAACCAATATATGACACAGATAGTGCCTCATCGAAATT
Found at i:18170572 original size:13 final size:13
Alignment explanation
Indices: 18170554--18170583 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18170544 TATATATATA
*
18170554 ATAATATAATAGT
1 ATAATATAATAAT
18170567 ATAATATAATAAT
1 ATAATATAATAAT
18170580 ATAA
1 ATAA
18170584 ATTAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:18170589 original size:13 final size:15
Alignment explanation
Indices: 18170547--18170595 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
18170537 TGTTTATTAT
18170547 ATATATAATA-ATATA
1 ATATATAATATA-ATA
18170562 ATAGTATAATATAATA
1 ATA-TATAATATAATA
18170578 ATATA-AAT-TAAT-
1 ATATATAATATAATA
18170590 ATATAT
1 ATATAT
18170596 TACTTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.16
13 4 0.13
14 3 0.10
15 5 0.16
16 13 0.42
17 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
ATATATAATATAATA
Found at i:18173468 original size:48 final size:46
Alignment explanation
Indices: 18173279--18173593 Score: 235
Period size: 47 Copynumber: 6.7 Consensus size: 46
18173269 TTTGTACGCT
* * * *
18173279 AGTGTAAGACATGTTTAGGACATGCTTCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* ** * *
18173325 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATCCA-GACAAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CATTATGAGAGCC
* *
18173373 AGTGTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* * * *
18173419 AGTGTAAGACCATGTCTGGGGCATGGCGTC-GGCACAATTATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGCC
* * * * *
18173467 AGAGTAAGACATGTCTGGGATATGCATCGGCCTCGACA-GA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATTATGAGAGCC
* * * * *
18173514 AGTGTAAGACGTGTTTGGAACATGCATCAGCACGCATATATGAGAGAC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCC
*
18173562 AGTGTAAGACCATGTCTGGGACTTGGCATCAG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG
18173594 TAATATATCC
Statistics
Matches: 206, Mismatches: 45, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
45 3 0.01
46 36 0.17
47 87 0.42
48 57 0.28
49 14 0.07
50 9 0.04
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
Found at i:18173474 original size:94 final size:94
Alignment explanation
Indices: 18173282--18173494 Score: 266
Period size: 94 Copynumber: 2.3 Consensus size: 94
18173272 GTACGCTAGT
* * *
18173282 GTAAGACATGTTTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * *
18173347 ATGGCATCAGCATCCAGACAAGGGCTAGT
66 ATGGCATCAGCATCAAGACAAGGGCCAGA
* *
18173376 GTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGGC
1 GTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * ** *
18173441 ATGGCGTCGGCA-CAATTATGAGTGCCAGA
66 ATGGCATCAGCATCAA-GACAAGGGCCAGA
* *
18173470 GTAAGACATGTCTGGGATATGCATC
1 GTAAGACATGTCTAGGACATGCATC
18173495 GGCCTCGACA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 2 0.02
94 100 0.98
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
GTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCAGCATCAAGACAAGGGCCAGA
Found at i:18173522 original size:141 final size:142
Alignment explanation
Indices: 18173279--18173583 Score: 349
Period size: 141 Copynumber: 2.2 Consensus size: 142
18173269 TTTGTACGCT
* * * *
18173279 AGTGTAAGA-CATGTTTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGCGTCGGCCACATTATGAGAGCCAGAGTAAGACCATGTCTG
* *
18173343 GGACATGGCATCAGCATCCAGACAAGGGCTAGTGTAAGACATGTCTAGG-ACATGCATCAG-C-C
66 GGACATGGCATCAGCATCCAGACAAGAGCCAGTGTAAGACATGT-TAGGAACATGCATCAGACGC
*
18173405 ATATTATGAGAGCC
130 ATA-TATGAGAGAC
* *
18173419 AGTGTAAGACCATGTCTGGGGCATGGCGTCGG-CACAATTATGAGTGCCAGAGTAAGA-CATGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGGCCAC-ATTATGAGAGCCAGAGTAAGACCATGTC
* * * * *
18173482 TGGGATAT-GCATCGGCCT-C-GACAGAGATAGCCAGTGTAAGACGTGTTTGGAACATGCATCAG
64 TGGGACATGGCATCAGCATCCAGACA-AG--AGCCAGTGTAAGACATGTTAGGAACATGCATCAG
18173544 CACGCATATATGAGAGAC
126 -ACGCATATATGAGAGAC
18173562 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGACCATGTCTGGGAC
18173584 TTGGCATCAG
Statistics
Matches: 140, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
138 4 0.03
139 3 0.02
140 20 0.14
141 53 0.38
142 25 0.18
143 31 0.22
144 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (142 bp):
AGTGTAAGACCATGTCTGGGACATGCGTCGGCCACATTATGAGAGCCAGAGTAAGACCATGTCTG
GGACATGGCATCAGCATCCAGACAAGAGCCAGTGTAAGACATGTTAGGAACATGCATCAGACGCA
TATATGAGAGAC
Found at i:18180094 original size:12 final size:12
Alignment explanation
Indices: 18180077--18180101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18180067 ATGTAAGTGA
18180077 TCTTGATGATTT
1 TCTTGATGATTT
18180089 TCTTGATGATTT
1 TCTTGATGATTT
18180101 T
1 T
18180102 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:18180886 original size:46 final size:46
Alignment explanation
Indices: 18180821--18181176 Score: 266
Period size: 47 Copynumber: 7.6 Consensus size: 46
18180811 TTTGTGCGCC
* * * *
18180821 AGTGTAAGACATGTTTGGGACATGCTTCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCT
* *
18180867 AG-GTAAGATCATGTCTGGGACATGGCATCTG-CATCCA-GATGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CATGATGAGAGCT
* * * *
18180914 AGTGTAAGACATGTTTGGGATATGCATCAGCCATATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCT
* * *
18180960 AGTGTAAGACCATGTCTGAGACATGGCATCAG-CACAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACA-TGATGAGAGCT
* * *
18181008 AGAGTAAGACATGTCTGGGACATGCATCAGCCTCGACA-GA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATGATGAGAGCT
* * * * *
18181055 AGTGTAAGACATGTCTAGGACACGCATCAGCTA-A-GA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATG-AGAGCT
* * *
18181099 AGTGTAAGACATGTCTAGGACATGCATCAGCC-CGTAT-ATACGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--ATGAT--GAGAGCT
18181147 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
18181177 GGTAATATAT
Statistics
Matches: 249, Mismatches: 37, Indels: 44
0.75 0.11 0.13
Matches are distributed among these distances:
43 4 0.02
44 33 0.13
45 7 0.03
46 50 0.20
47 86 0.35
48 46 0.18
49 15 0.06
50 8 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCT
Found at i:18181015 original size:94 final size:94
Alignment explanation
Indices: 18180821--18181176 Score: 374
Period size: 94 Copynumber: 3.8 Consensus size: 94
18180811 TTTGTGCGCC
* * * * *
18180821 AGTGTAAGACATGTTTGGGACATGCTTCAGCCACATTATGAGAGCCAG-GTAAGATCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGA
* * *
18180885 GACATGGCATCTGCATC-CAGATGAGGGCT
66 GACATGGCATCAGCA-CAGAGATGAGTGCT
* * *
18180914 AGTGTAAGACATGTTTGGGATATGCATCAGCCATATTATGAGAGCTAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGA
18180979 GACATGGCATCAGCACAGAGATGAGTGCT
66 GACATGGCATCAGCACAGAGATGAGTGCT
* *
18181008 AGAGTAAGACATGTCTGGGACATGCATCAGCC-TCGA-CA-GAGATAGCCAGTGTAAGA-CATGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATTATGAG--AGCCAGTGTAAGACCATGT
* *
18181069 CT-AGGACA-CGCATCAGCTA-AGAG-T-TGTGCT
62 CTGA-GACATGGCATCAGC-ACAGAGATGAGTGCT
* * * *
18181099 AGTGTAAGACATGTCTAGGACATGCATCAGCCCGTATATACGTGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCATAT-TATGAGAGCCAGTGTAAGACCATGTCT
*
18181164 GGGACATGGCATC
64 GAGACATGGCATC
18181177 GGTAATATAT
Statistics
Matches: 225, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
91 34 0.15
92 16 0.07
93 75 0.33
94 87 0.39
95 13 0.06
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGA
GACATGGCATCAGCACAGAGATGAGTGCT
Found at i:18189285 original size:25 final size:28
Alignment explanation
Indices: 18189256--18189322 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
18189246 GTCTCACTAC
18189256 AGTTTTCAGTATA-G-ACTAACTAAAGT
1 AGTTTTCAGTATATGTACTAACTAAAGT
*
18189282 -GTTTTCAGTGTAATGTACTAACTAAAGT
1 AGTTTTCAGTAT-ATGTACTAACTAAAGT
18189310 AGTTTT-AGTATAT
1 AGTTTTCAGTATAT
18189323 TCTAATCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 10 0.29
26 1 0.03
27 3 0.09
28 16 0.46
29 5 0.14
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (28 bp):
AGTTTTCAGTATATGTACTAACTAAAGT
Found at i:18202285 original size:55 final size:54
Alignment explanation
Indices: 18202180--18202289 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 54
18202170 CAAGCCTACC
* * *
18202180 AAAACAACATGGGCGTGCGACACGCCCGTGTAGAAGACCCATGGTTGAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCCATGGTCGAACC-GTT
* * ** *
18202235 AAAACAGCACGGGCGTGTGACACGCCCGTGTCTAACACCCGTGGTCGAACCGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCCATGGTCGAACCGTT
18202289 A
1 A
18202290 GATTGACACA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 4 0.09
55 43 0.91
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.17
Consensus pattern (54 bp):
AAAACAACACGGGCGTGCGACACGCCCGTGTAGAACACCCATGGTCGAACCGTT
Found at i:18209025 original size:41 final size:41
Alignment explanation
Indices: 18208963--18209076 Score: 183
Period size: 41 Copynumber: 2.7 Consensus size: 41
18208953 GGATTTAATC
* * *
18208963 CGAACCAATAATACGACACATAGTGCCTCGTCGAAATTATT
1 CGAAGCAATATTACGACACATAGTGCCTCATCGAAATTATT
18209004 CGAAGCAATATTACGACACATAGTGCCTCATCGAAATTATT
1 CGAAGCAATATTACGACACATAGTGCCTCATCGAAATTATT
18209045 CGAAGCAATATTACGACACATATAGTGCCTCA
1 CGAAGCAATATTACGACAC--ATAGTGCCTCA
18209077 ATGACTCGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 57 0.84
43 11 0.16
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (41 bp):
CGAAGCAATATTACGACACATAGTGCCTCATCGAAATTATT
Found at i:18209462 original size:29 final size:30
Alignment explanation
Indices: 18209415--18209482 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
18209405 TGGCCCAAGA
* *
18209415 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
18209445 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
18209475 GCAAATAT
1 GTAAATAT
18209483 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:18209764 original size:11 final size:11
Alignment explanation
Indices: 18209750--18209775 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18209740 AAATGATATT
18209750 TTATTATTTTA
1 TTATTATTTTA
18209761 TTATTATTTTA
1 TTATTATTTTA
18209772 TTAT
1 TTAT
18209776 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:18216658 original size:16 final size:17
Alignment explanation
Indices: 18216637--18216669 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18216627 ATGATGGAGC
18216637 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
18216653 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
18216670 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:18217549 original size:8 final size:9
Alignment explanation
Indices: 18217533--18217574 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
18217523 TTTTGTTTAT
18217533 TATATATAA
1 TATATATAA
18217542 TA-ATATAA
1 TATATATAA
18217550 TATA-ATAA
1 TATATATAA
*
18217558 TATAAATTAA
1 TATATA-TAA
18217568 TATATAT
1 TATATAT
18217575 TACTTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 16 0.55
9 5 0.17
10 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TATATATAA
Found at i:18217568 original size:13 final size:14
Alignment explanation
Indices: 18217536--18217573 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
18217526 TGTTTATTAT
18217536 ATATAATAATAT-A
1 ATATAATAATATAA
18217549 ATATAATAATATAA
1 ATATAATAATATAA
18217563 AT-TAAT-ATATA
1 ATATAATAATATA
18217574 TTACTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 16 0.67
14 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAATAATATAA
Found at i:18217610 original size:15 final size:15
Alignment explanation
Indices: 18217530--18217620 Score: 50
Period size: 15 Copynumber: 6.0 Consensus size: 15
18217520 TTCTTTTGTT
18217530 TATTAT-ATATAATA
1 TATTATAATATAATA
18217544 -A-TATAATATAATAA
1 TATTATAATATAAT-A
*
18217558 TATAAATTAATAT-ATA
1 TAT-TA-TAATATAATA
*
18217574 TTACTTAT-TTATTAAGTA
1 -TA-TTATAATA-TAA-TA
18217592 -ATTATAATATAATA
1 TATTATAATATAATA
*
18217606 TATTATATTATAATA
1 TATTATAATATAATA
18217621 AAAAATATCT
Statistics
Matches: 59, Mismatches: 5, Indels: 25
0.66 0.06 0.28
Matches are distributed among these distances:
12 3 0.05
13 8 0.14
14 3 0.05
15 23 0.39
16 6 0.10
17 7 0.12
18 9 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
TATTATAATATAATA
Found at i:18224079 original size:24 final size:24
Alignment explanation
Indices: 18224048--18224093 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
18224038 ATGACAATTA
18224048 AATTGTTAAAATATTAATTATATT
1 AATTGTTAAAATATTAATTATATT
18224072 AATTGTTAAAATATTAATTATA
1 AATTGTTAAAATATTAATTATA
18224094 AAAAGTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AATTGTTAAAATATTAATTATATT
Found at i:18224105 original size:24 final size:24
Alignment explanation
Indices: 18224047--18224108 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
18224037 TATGACAATT
* *
18224047 AAATTGTTAAAATATTAATTATAT
1 AAATTGATAAAATATTAATTATAA
* *
18224071 TAATTGTTAAAATATTAATTATAA
1 AAATTGATAAAATATTAATTATAA
18224095 AAAGTT-ATAAAATA
1 AAA-TTGATAAAATA
18224109 ATGTAAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 31 0.94
25 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (24 bp):
AAATTGATAAAATATTAATTATAA
Found at i:18241355 original size:94 final size:95
Alignment explanation
Indices: 18241193--18241381 Score: 344
Period size: 94 Copynumber: 2.0 Consensus size: 95
18241183 TCCCAACCTG
*
18241193 AAACAGACATAAAACAGTAAATTTTAAATATGTATATTATGAAAAAAAGAAAGCCATGTAGACAT
1 AAACAGACATAAAACAGTAAAATTTAAATATGTATATTATGAAAAAAAGAAAGCCATGTAGACAT
18241258 TTACAATCACTGTCCGATAGTTAGCAAAGA
66 TTACAATCACTGTCCGATAGTTAGCAAAGA
* *
18241288 AAACAGACATAGAACAG-AAAATTTAAATATGTATATTATGACAAAAAGAAAGCCATGTAGACAT
1 AAACAGACATAAAACAGTAAAATTTAAATATGTATATTATGAAAAAAAGAAAGCCATGTAGACAT
18241352 TTACAATCACTGTCCGATAGTTAGCAAAGA
66 TTACAATCACTGTCCGATAGTTAGCAAAGA
18241382 TAATAAAAGT
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
94 75 0.82
95 16 0.18
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.24
Consensus pattern (95 bp):
AAACAGACATAAAACAGTAAAATTTAAATATGTATATTATGAAAAAAAGAAAGCCATGTAGACAT
TTACAATCACTGTCCGATAGTTAGCAAAGA
Found at i:18251069 original size:29 final size:29
Alignment explanation
Indices: 18251036--18251093 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
18251026 ACAGCAATTT
18251036 GACATCAAAAATGCCTTTTTACACGGTGA
1 GACATCAAAAATGCCTTTTTACACGGTGA
18251065 GACATCAAAAATGCCTTTTTACACGGTGA
1 GACATCAAAAATGCCTTTTTACACGGTGA
18251094 TCTTGAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (29 bp):
GACATCAAAAATGCCTTTTTACACGGTGA
Found at i:18255497 original size:11 final size:11
Alignment explanation
Indices: 18255473--18255505 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18255463 TAAAATTAGA
18255473 AAAATAAGTAAT
1 AAAATAA-TAAT
18255485 AAAATAATAAT
1 AAAATAATAAT
18255496 AAAAT-ATAAT
1 AAAATAATAAT
18255506 GAGTTTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 9 0.43
12 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:18258823 original size:25 final size:26
Alignment explanation
Indices: 18258784--18258835 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
18258774 AGGGAAATAA
* * *
18258784 AAATGGGAATTGAAATAAGGGTATAT
1 AAATGGGAATGGAAATAAAGATATAT
18258810 AAAT-GGAATGGAAATAAAGATATAT
1 AAATGGGAATGGAAATAAAGATATAT
18258835 A
1 A
18258836 TGATCCTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (26 bp):
AAATGGGAATGGAAATAAAGATATAT
Found at i:18267674 original size:47 final size:47
Alignment explanation
Indices: 18267617--18267967 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
18267607 ATTGATGTAC
* * * * *
18267617 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18267664 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18267713 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18267760 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18267807 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
18267854 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
18267901 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
18267948 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
18267968 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:18271190 original size:22 final size:20
Alignment explanation
Indices: 18271165--18271216 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
18271155 ATGTACTTAG
18271165 TCACATGGGTGTATGCCTCCTT
1 TCACATGGGTGTATG--TCCTT
** *
18271187 TCACACAGGTGTGTGTCCTT
1 TCACATGGGTGTATGTCCTT
*
18271207 CCACATGGGT
1 TCACATGGGT
18271217 ATGTTGACCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 12 0.50
22 12 0.50
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.33
Consensus pattern (20 bp):
TCACATGGGTGTATGTCCTT
Found at i:18273604 original size:22 final size:22
Alignment explanation
Indices: 18273576--18273630 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
18273566 AAAGGAGCCC
18273576 TGTCTCGAGACA-ATCGACAAAT
1 TGTCTCGAGACATAT-GACAAAT
*
18273598 TGTCTCGAGACATATGGCAAAT
1 TGTCTCGAGACATATGACAAAT
*
18273620 TGTCTTGAGAC
1 TGTCTCGAGAC
18273631 TAGCCTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (22 bp):
TGTCTCGAGACATATGACAAAT
Found at i:18280014 original size:52 final size:52
Alignment explanation
Indices: 18279954--18280056 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
18279944 TTCATATTTG
18279954 AAATGTGAATTGGATATTTATATGTGATTGAAAGATGAACCAAAGGTTCATA
1 AAATGTGAATTGGATATTTATATGTGATTGAAAGATGAACCAAAGGTTCATA
*
18280006 AAATGTGAATTGGATATTTATATGTGATTGAGAGATGAACCAAAGGTTCAT
1 AAATGTGAATTGGATATTTATATGTGATTGAAAGATGAACCAAAGGTTCAT
18280057 GAATAGTTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (52 bp):
AAATGTGAATTGGATATTTATATGTGATTGAAAGATGAACCAAAGGTTCATA
Found at i:18281155 original size:23 final size:22
Alignment explanation
Indices: 18281128--18281208 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 22
18281118 ATATGTTGAA
18281128 GGTTGTGTTTGGAGGGTATACTT
1 GGTTGTGTTTGGAGGGTATA-TT
* * *
18281151 GGTTGTGTTCGGATGTTACATATAT
1 GGTTGTGTTTGGAGGGT--ATAT-T
*
18281176 GGTTGTGTTTGGAGGGTAAATTT
1 GGTTGTGTTTGGAGGGTATA-TT
18281199 GGTTGTGTTT
1 GGTTGTGTTT
18281209 AGAAGGTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
23 27 0.57
24 2 0.04
25 18 0.38
ACGTcount: A:0.15, C:0.04, G:0.36, T:0.46
Consensus pattern (22 bp):
GGTTGTGTTTGGAGGGTATATT
Found at i:18281219 original size:48 final size:48
Alignment explanation
Indices: 18281128--18281221 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
18281118 ATATGTTGAA
* * * *
18281128 GGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCGGATGTTACATATAT
1 GGTTGTGTTTGGAGGGTAAACTTGGTTGTGTTCAGAAGGTACATATAT
* *
18281176 GGTTGTGTTTGGAGGGTAAATTTGGTTGTGTTTAGAAGGTACATAT
1 GGTTGTGTTTGGAGGGTAAACTTGGTTGTGTTCAGAAGGTACATAT
18281222 TGTGATATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.19, C:0.04, G:0.34, T:0.43
Consensus pattern (48 bp):
GGTTGTGTTTGGAGGGTAAACTTGGTTGTGTTCAGAAGGTACATATAT
Found at i:18283909 original size:22 final size:23
Alignment explanation
Indices: 18283883--18283943 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
18283873 TAAACTTATA
18283883 GTTGTGTTTGGAGGGTA-AATTG
1 GTTGTGTTTGGAGGGTATAATTG
* * *
18283905 GTTGTGCTTGGAGGCTATGATTG
1 GTTGTGTTTGGAGGGTATAATTG
*
18283928 GTTGTGTTTGGTGGGT
1 GTTGTGTTTGGAGGGT
18283944 GATAGCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.11, C:0.03, G:0.43, T:0.43
Consensus pattern (23 bp):
GTTGTGTTTGGAGGGTATAATTG
Found at i:18283931 original size:23 final size:22
Alignment explanation
Indices: 18283883--18283938 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
18283873 TAAACTTATA
*
18283883 GTTGTGTTTGGAGGGTAAATTG
1 GTTGTGTTTGGAGGCTAAATTG
* *
18283905 GTTGTGCTTGGAGGCTATGATTG
1 GTTGTGTTTGGAGGCTA-AATTG
18283928 GTTGTGTTTGG
1 GTTGTGTTTGG
18283939 TGGGTGATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.43
Consensus pattern (22 bp):
GTTGTGTTTGGAGGCTAAATTG
Found at i:18286895 original size:54 final size:54
Alignment explanation
Indices: 18286836--18286941 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
18286826 CATGGCTGCT
*
18286836 AGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACC
* * * *
18286890 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
18286942 TCAGGACGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
AGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACC
Found at i:18286896 original size:27 final size:26
Alignment explanation
Indices: 18286836--18286941 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
18286826 CATGGCTGCT
* *
18286836 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
18286862 AGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
18286890 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
18286917 AGATCAGATATTTGTGGCATAGCCA
1 AGAACAGATA-ATGTGGCAGAGCCA
18286942 TCAGGACGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.04
27 52 0.72
28 17 0.24
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:18293272 original size:27 final size:27
Alignment explanation
Indices: 18293224--18293328 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
18293214 GCGAGGCTGC
* *
18293224 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
18293251 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
18293277 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
18293304 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
18293329 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:18293734 original size:8 final size:8
Alignment explanation
Indices: 18293718--18293747 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18293708 CTCAAAATAC
18293718 CGGCTTTT
1 CGGCTTTT
*
18293726 CGGCATTT
1 CGGCTTTT
18293734 CGGCTTTT
1 CGGCTTTT
18293742 CGGCTT
1 CGGCTT
18293748 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18296902 original size:61 final size:61
Alignment explanation
Indices: 18296777--18296893 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
18296767 CCAAAATGTA
* * * *
18296777 AAAAAAATCAATAAATTTAACACTCAATGTTTACAAAATTTATCATTTTAGTTCTAATTCT
1 AAAAAAATCAATAAATTTAACACTCAATATTTACAAAATCTAACAATTTAGTTCTAATTCT
* ** * *
18296838 AAAAAATTCAATAAATTTGGCCCTCAATATTTGCAAAATCTAACAATTTAGTTCTA
1 AAAAAAATCAATAAATTTAACACTCAATATTTACAAAATCTAACAATTTAGTTCTA
18296894 GCTTTAAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (61 bp):
AAAAAAATCAATAAATTTAACACTCAATATTTACAAAATCTAACAATTTAGTTCTAATTCT
Found at i:18297371 original size:22 final size:23
Alignment explanation
Indices: 18297333--18297396 Score: 103
Period size: 22 Copynumber: 2.8 Consensus size: 23
18297323 TTATCTTTTT
18297333 ATTTTCTTTTTTCATTTTCCCTC
1 ATTTTCTTTTTTCATTTTCCCTC
18297356 ATTTTCTTTTTT-ATTTTCCCTC
1 ATTTTCTTTTTTCATTTTCCCTC
*
18297378 ATTTTCTTCTTTTCCTTTT
1 ATTTTCTT-TTTTCATTTT
18297397 TCCTACCCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 18 0.47
23 16 0.42
24 4 0.11
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTTCTTTTTTCATTTTCCCTC
Found at i:18308860 original size:14 final size:15
Alignment explanation
Indices: 18308841--18308870 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18308831 TATATTTTAA
18308841 TTTTATAAA-TATTT
1 TTTTATAAATTATTT
18308855 TTTTATAAATTATTT
1 TTTTATAAATTATTT
18308870 T
1 T
18308871 AATTTTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATAAATTATTT
Found at i:18314078 original size:29 final size:29
Alignment explanation
Indices: 18314036--18314093 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
18314026 CAATGAGAAA
18314036 GGATTGTATGAAACATAGATTATCCCTTT
1 GGATTGTATGAAACATAGATTATCCCTTT
18314065 GGATTGTATGAAACATAGATTATCCCTTT
1 GGATTGTATGAAACATAGATTATCCCTTT
18314094 TTCTAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
GGATTGTATGAAACATAGATTATCCCTTT
Found at i:18316338 original size:50 final size:50
Alignment explanation
Indices: 18316263--18316439 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
18316253 CCATGGCAAC
18316263 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
18316313 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATAAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
18316363 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
18316413 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
18316440 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 93 0.80
51 23 0.20
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:18316453 original size:31 final size:31
Alignment explanation
Indices: 18316415--18316501 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
18316405 ACAAATGACA
18316415 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* **
18316446 AGTGAAAAGTTGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
18316477 AGTGAACAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
18316502 AAGTGACAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:18316637 original size:46 final size:47
Alignment explanation
Indices: 18316521--18316641 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 47
18316511 GTGATTTCCA
* * *
18316521 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* *
18316568 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-G
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
18316614 TGTAAGACCATAGCTGGGCTATGGCATC
1 TATAAGACCATATCTGGGATATGGCATC
18316642 TATTAAAGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
Found at i:18323204 original size:42 final size:42
Alignment explanation
Indices: 18323153--18323297 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
18323143 TAGCCCAACT
* *** **
18323153 ATGGTCTTACACGATATCTTGTATCGACT-CCATGTCTTAGAC
1 ATGGTCTTACACGAAATCAAATATCGA-TGCCATGTCCCAGAC
*
18323195 ATGGTCTTACATGAAATCAAATATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATATCGATGCCATGTCCCAGAC
* * * * *
18323237 ATGGTCTTACATGAAATCACATATCGATTCCATATCCCAGAT
1 ATGGTCTTACACGAAATCAAATATCGATGCCATGTCCCAGAC
* *
18323279 ATGCTCTTACACAAAATCA
1 ATGGTCTTACACGAAATCA
18323298 CACATAACCC
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 87 0.99
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCAAATATCGATGCCATGTCCCAGAC
Found at i:18323895 original size:20 final size:20
Alignment explanation
Indices: 18323857--18323895 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18323847 TGTTTCTCCA
*
18323857 ACCATAAACATGCATAATAT
1 ACCATAAACATGCAAAATAT
18323877 ACCATTAAACAT-CAAAATA
1 ACCA-TAAACATGCAAAATA
18323896 CACAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.23
Consensus pattern (20 bp):
ACCATAAACATGCAAAATAT
Found at i:18330759 original size:41 final size:41
Alignment explanation
Indices: 18330702--18330782 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
18330692 TGTGTGAAAG
*
18330702 TTTGTGTGACGAGTCCGGTAATACCTTGTACCCTGTTTCGA
1 TTTGTGTGACGAGTCCGATAATACCTTGTACCCTGTTTCGA
18330743 TTTGTGTGACGAGTCCGATAATACCTTGTACCCTGTTTCG
1 TTTGTGTGACGAGTCCGATAATACCTTGTACCCTGTTTCG
18330783 GCGTCGAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTGTGTGACGAGTCCGATAATACCTTGTACCCTGTTTCGA
Found at i:18331217 original size:29 final size:30
Alignment explanation
Indices: 18331161--18331218 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
18331151 TTAGACTTAT
* *
18331161 TTAATTTATTTTAATAATGTAAAGACTAAA
1 TTAATTTATTTAAATAATGAAAAGACTAAA
18331191 TTAATTTA-TTAAATAAT-AAAAGAACTAA
1 TTAATTTATTTAAATAATGAAAAG-ACTAA
18331219 TTTGATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 13 0.52
30 8 0.32
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (30 bp):
TTAATTTATTTAAATAATGAAAAGACTAAA
Found at i:18333490 original size:93 final size:93
Alignment explanation
Indices: 18333331--18333499 Score: 257
Period size: 93 Copynumber: 1.8 Consensus size: 93
18333321 CTAGGAAGCT
* * * * * * *
18333331 TGAGGCATGGTCTTGACAGACAATTGGTAGAGGTGCCGAGAACCTTGAATGGTAACTTGCCTTAC
1 TGAGGCATAGTCTTGACAGACAAGTGGTAGAGGTGCCAAGAACCATAAATGATAACTTGCATTAC
18333396 ATGCATGAGCACAAGCATGGGCATGCAG
66 ATGCATGAGCACAAGCATGGGCATGCAG
* *
18333424 TGAGGCATAGTCTTGACAGACAAGTGGTAGGGGTGCCAAGAACCATAAATGATAACTTGTATTAC
1 TGAGGCATAGTCTTGACAGACAAGTGGTAGAGGTGCCAAGAACCATAAATGATAACTTGCATTAC
18333489 ATGCATGAGCA
66 ATGCATGAGCA
18333500 TGAAAATAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (93 bp):
TGAGGCATAGTCTTGACAGACAAGTGGTAGAGGTGCCAAGAACCATAAATGATAACTTGCATTAC
ATGCATGAGCACAAGCATGGGCATGCAG
Found at i:18333539 original size:75 final size:75
Alignment explanation
Indices: 18333430--18333574 Score: 227
Period size: 75 Copynumber: 1.9 Consensus size: 75
18333420 GCAGTGAGGC
* * * * *
18333430 ATAGTCTTGACAGACAAGTGGTAGGGGTGCCAAGAACCATAAATGATAACTTGTATTACATGCAT
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCATAAATGATAACTCGTATTACATGCAT
18333495 GAGCATGAAA
66 GAGCATGAAA
* *
18333505 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCATAAATGATAACTCGTATTACATGCAT
18333570 GAGCA
66 GAGCA
18333575 CAAGCCAGCG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (75 bp):
ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCATAAATGATAACTCGTATTACATGCAT
GAGCATGAAA
Found at i:18333649 original size:84 final size:84
Alignment explanation
Indices: 18333505--18333658 Score: 238
Period size: 84 Copynumber: 1.8 Consensus size: 84
18333495 GAGCATGAAA
* *
18333505 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGAACTACATGCAT
18333570 GAGCACAAGCCAGCGAGGC
66 GAGCACAAGCCAGCGAGGC
* * * *
18333589 ATAGTGTTGACAGACAAATGGTAGAGATGCCAAGAGCCTTGAATGGTAACTTC-AACTACATGCA
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAAC-TCGAACTACATGCA
18333653 TGAGCA
65 TGAGCA
18333659 TGAGCATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
84 61 0.97
85 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (84 bp):
ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGAACTACATGCAT
GAGCACAAGCCAGCGAGGC
Found at i:18334044 original size:78 final size:78
Alignment explanation
Indices: 18333955--18334115 Score: 286
Period size: 78 Copynumber: 2.1 Consensus size: 78
18333945 TATCTTTGGT
* * * *
18333955 TGCTTTGCTTTACTTGATGTTTAGTGCCTAATTAATTCTAAATTCATATGATTATTGATTACATC
1 TGCTTTGCTTTACTCGATGCTTAGTGCCTAACTAATTCTAAATTCATATGATTATTGACTACATC
18334020 TAAACAAGTTGCA
66 TAAACAAGTTGCA
18334033 TGCTTTGCTTTACTCGATGCTTAGTGCCTAACTAATTCTAAATTCATATGATTATTGACTACATC
1 TGCTTTGCTTTACTCGATGCTTAGTGCCTAACTAATTCTAAATTCATATGATTATTGACTACATC
18334098 TAAACAAGTTGCA
66 TAAACAAGTTGCA
18334111 TGCTT
1 TGCTT
18334116 ACATGGATAC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (78 bp):
TGCTTTGCTTTACTCGATGCTTAGTGCCTAACTAATTCTAAATTCATATGATTATTGACTACATC
TAAACAAGTTGCA
Found at i:18334473 original size:22 final size:22
Alignment explanation
Indices: 18334445--18334489 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18334435 AATAATGATG
*
18334445 AAAAATTATTTTTTATGAGTAA
1 AAAAATTATTTTTTATGAATAA
18334467 AAAAATTATTTTTTATGAATAA
1 AAAAATTATTTTTTATGAATAA
18334489 A
1 A
18334490 CCATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
AAAAATTATTTTTTATGAATAA
Found at i:18335228 original size:84 final size:83
Alignment explanation
Indices: 18335081--18335500 Score: 361
Period size: 84 Copynumber: 5.0 Consensus size: 83
18335071 GGCAAGTTCA
* ** * * *
18335081 TGCTCATGCTCATCCATGTTGTACAAGTTACCATTCAAGGCTCTTGGCATCTCTACCATTTGTCT
1 TGCTCATGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCTCTACCATTTGTCT
*
18335146 GTCAACACTATGCCTCGC
66 GTCAAGACTATGCCTCGC
** * * *
18335164 TGGCTTGTGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTATCATTTGTC
1 T-GCTCATGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCTCTACCATTTGTC
18335229 TGTCAAGACTAT---T---
65 TGTCAAGACTATGCCTCGC
* * * * *
18335242 T--TCATCCTTATGCATGTAATACGAGTTACCATGTAAGGTTCTTGGCACCTCTACCCTTTGTCT
1 TGCTCATGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCTCTACCATTTGTCT
*
18335305 GTCAAGACTATGCCTTGC
66 GTCAAGACTATGCCTCGC
* * * * * * *
18335323 TTGCTCATGCTCATACGTGTAATACAAGTTATCATTTATGGTTCTTAGCACCCCTACCACTTGTC
1 -TGCTCATGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCTCTACCATTTGTC
18335388 TGTCAAGACTATGCCTCACTCGTTC
65 TGTCAAGACTATG---C-CTCG--C
** * * *
18335413 ATGCTCATGCTTGTGCTCATGCATGTAAGGCAAGTTACCATTCAAGGGTCTCGGCACCTCTACCA
1 -TGCTCA------TGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCTCTACCA
* *
18335478 ATTGTCTGTCAAGACCATGCCTC
59 TTTGTCTGTCAAGACTATGCCTC
18335501 AAGCTTCCTA
Statistics
Matches: 270, Mismatches: 45, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
75 65 0.24
78 2 0.01
81 1 0.00
82 1 0.00
83 1 0.00
84 127 0.47
87 1 0.00
88 3 0.01
90 7 0.03
92 3 0.01
93 1 0.00
96 58 0.21
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (83 bp):
TGCTCATGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCTCTACCATTTGTCT
GTCAAGACTATGCCTCGC
Found at i:18335302 original size:75 final size:75
Alignment explanation
Indices: 18335176--18335315 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 75
18335166 GCTTGTGCTC
* * *
18335176 ATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTATCATTTGTCTGTCAAGACTAT
1 ATGCATGTAATACGAGTTACCATGTAAGGTTCTTGGCACCTCTACCATTTGTCTGTCAAGACTAT
18335241 TTTCATCCTT
66 TTTCATCCTT
*
18335251 ATGCATGTAATACGAGTTACCATGTAAGGTTCTTGGCACCTCTACCCTTTGTCTGTCAAGACTAT
1 ATGCATGTAATACGAGTTACCATGTAAGGTTCTTGGCACCTCTACCATTTGTCTGTCAAGACTAT
18335316 GCCTTGCTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.38
Consensus pattern (75 bp):
ATGCATGTAATACGAGTTACCATGTAAGGTTCTTGGCACCTCTACCATTTGTCTGTCAAGACTAT
TTTCATCCTT
Found at i:18335339 original size:75 final size:74
Alignment explanation
Indices: 18335106--18335339 Score: 229
Period size: 75 Copynumber: 3.0 Consensus size: 74
18335096 ATGTTGTACA
* *
18335106 AGTTACCATTCAAGGCTCTTGGCATCTCTACCATTTGTCTGTCAACACTATGCCTCGCTGGCTTG
1 AGTTACCATT-AAGGTTCTTGGCATCTCTACCATTTGTCTGTCAAGACTATGCCT---T-GC-T-
18335171 TGCTCATGCATGTAATACG
59 TGCTCATGC---TAATACG
* ** * * *
18335190 AGTTACCATTTAAGGTTCTTGGCATCTCTATCATTTGTCTGTCAAGACTATTTTCATCCTT-ATG
1 AGTTACCA-TTAAGGTTCTTGGCATCTCTACCATTTGTCTGTCAAGACTA-TGCCTTGCTTGCT-
18335254 CATG-TAATACG
63 CATGCTAATACG
* *
18335265 AGTTACCATGTAAGGTTCTTGGCACCTCTACCCTTTGTCTGTCAAGACTATGCCTTGCTTGCTCA
1 AGTTACCAT-TAAGGTTCTTGGCATCTCTACCATTTGTCTGTCAAGACTATGCCTTGCTTGCTCA
*
18335330 TGCTCATACG
65 TGCTAATACG
18335340 TGTAATACAA
Statistics
Matches: 127, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
74 11 0.09
75 59 0.46
78 1 0.01
79 5 0.04
80 1 0.01
81 1 0.01
82 1 0.01
84 44 0.35
85 4 0.03
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (74 bp):
AGTTACCATTAAGGTTCTTGGCATCTCTACCATTTGTCTGTCAAGACTATGCCTTGCTTGCTCAT
GCTAATACG
Found at i:18335387 original size:159 final size:159
Alignment explanation
Indices: 18335106--18335399 Score: 410
Period size: 159 Copynumber: 1.8 Consensus size: 159
18335096 ATGTTGTACA
* **
18335106 AGTTACCATTCAAGGCTCTTGGCATCTCTACCATTTGTCTGTCAACACTATGCCTCGCTGGCTTG
1 AGTTACCATTCAAGGCTCTTGGCACCTCTACCATTTGTCTGTCAACACTATGCCTCGCTGGCTCA
* * * * * * *
18335171 TGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTATCATTTGTCTGTCAAG
66 TGCTCATACATGTAATACAAGTTACCATTTAAGGTTCTTAGCACCCCTACCACTTGTCTGTCAAG
18335236 ACTATTTTCATCCTTATGCATGTAATACG
131 ACTATTTTCATCCTTATGCATGTAATACG
* * * * *
18335265 AGTTACCATGT-AAGGTTCTTGGCACCTCTACCCTTTGTCTGTCAAGACTATGCCTTGCTTGCTC
1 AGTTACCAT-TCAAGGCTCTTGGCACCTCTACCATTTGTCTGTCAACACTATGCCTCGCTGGCTC
* * *
18335329 ATGCTCATACGTGTAATACAAGTTATCATTTATGGTTCTTAGCACCCCTACCACTTGTCTGTCAA
65 ATGCTCATACATGTAATACAAGTTACCATTTAAGGTTCTTAGCACCCCTACCACTTGTCTGTCAA
18335394 GACTAT
130 GACTAT
18335400 GCCTCACTCG
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
159 115 0.99
160 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (159 bp):
AGTTACCATTCAAGGCTCTTGGCACCTCTACCATTTGTCTGTCAACACTATGCCTCGCTGGCTCA
TGCTCATACATGTAATACAAGTTACCATTTAAGGTTCTTAGCACCCCTACCACTTGTCTGTCAAG
ACTATTTTCATCCTTATGCATGTAATACG
Found at i:18337962 original size:6 final size:7
Alignment explanation
Indices: 18337944--18337968 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18337934 TAAATATATT
18337944 ATTTTTA
1 ATTTTTA
18337951 ATTTTTA
1 ATTTTTA
18337958 ATTTTTA
1 ATTTTTA
18337965 ATTT
1 ATTT
18337969 ATCTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:18337975 original size:13 final size:14
Alignment explanation
Indices: 18337944--18337985 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
18337934 TAAATATATT
*
18337944 ATTTTTAATTTTTA
1 ATTTTTAATTTATA
18337958 ATTTTTAATTTAT-
1 ATTTTTAATTTATA
* *
18337971 CTTTTTAATTAATA
1 ATTTTTAATTTATA
18337985 A
1 A
18337986 CTCTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTAATTTATA
Found at i:18339260 original size:6 final size:7
Alignment explanation
Indices: 18339242--18339266 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18339232 TAAATATATT
18339242 ATTTTTA
1 ATTTTTA
18339249 ATTTTTA
1 ATTTTTA
18339256 ATTTTTA
1 ATTTTTA
18339263 ATTT
1 ATTT
18339267 ATCTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:18339273 original size:13 final size:14
Alignment explanation
Indices: 18339242--18339283 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
18339232 TAAATATATT
*
18339242 ATTTTTAATTTTTA
1 ATTTTTAATTTATA
18339256 ATTTTTAATTTAT-
1 ATTTTTAATTTATA
* *
18339269 CTTTTTAATTAATA
1 ATTTTTAATTTATA
18339283 A
1 A
18339284 CTCTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTAATTTATA
Found at i:18341763 original size:45 final size:45
Alignment explanation
Indices: 18341691--18342084 Score: 434
Period size: 45 Copynumber: 8.9 Consensus size: 45
18341681 CCGGAAGGAT
* * * *
18341691 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
18341736 TCTTGGATCTATTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
18341781 TCTTGGACCTACTCCCCGTCCATTATAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
18341826 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATAGGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
18341871 TCTTGGATCTACTCCCCGTCCATTCCAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * * *
18341916 TCTTGGATCTGC-CCCCTGTCTATTACAGAGAGATAAGATCCGCCA
1 TCTTGGATCTACTCCCC-GTCCATTACAGAGAGATAAGATCTGTCA
* * * *
18341961 TCTTAGATCT--GCCCCG---A-T---GA-AGGTCAGATCTG-CTA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTC-A
* * * *
18341996 TGTCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
1 --TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * * *
18342043 TCTTGGATCTGCTCCCCATCTATTACAGAGAAATAAGATCTG
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTG
18342085 CTATCTTCAA
Statistics
Matches: 300, Mismatches: 33, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.00
35 10 0.03
36 2 0.01
37 9 0.03
39 6 0.02
40 1 0.00
42 1 0.00
43 2 0.01
44 8 0.03
45 246 0.82
46 2 0.01
47 11 0.04
48 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
Found at i:18343057 original size:13 final size:12
Alignment explanation
Indices: 18343041--18343091 Score: 66
Period size: 13 Copynumber: 4.1 Consensus size: 12
18343031 CTTTTTCCAA
18343041 TTTCTTTTTTTCT
1 TTTCTTTTTTT-T
*
18343054 TTTCTTTTCTTAT
1 TTTCTTTT-TTTT
*
18343067 TTTCTTTTTCTT
1 TTTCTTTTTTTT
18343079 TTTCTTTTTTTT
1 TTTCTTTTTTTT
18343091 T
1 T
18343092 GAAATGGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 14 0.42
13 17 0.52
14 2 0.06
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:18345094 original size:200 final size:200
Alignment explanation
Indices: 18344751--18345150 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
18344741 GGCACAAAAG
*
18344751 AATATACAAGGAATAAATGAATTCAAGAATAACTATTTACGTTATGAATGAAGAAAAAATGAGGG
1 AATATACAAGGAATAAATAAATTCAAGAATAACTATTTACGTTATGAATGAAGAAAAAATGAGGG
18344816 AACAATTGCTCAAATTAATCATGAAAGATATGTTTTATTGAAACAACAATGTCCAAACATGAGCC
66 AACAATTGCTCAAATTAATCATGAAAGATATGTTTTATTGAAACAACAATGTCCAAACATGAGCC
18344881 TATTTCACAAATGAAATCTTATTGTTTCTAGGCTTTAAAACAACAAGTGTGTTCTGAACATTACT
131 TATTTCACAAATGAAATCTTATTGTTTCTAGGCTTTAAAACAACAAGTGTGTTCTGAACATTACT
18344946 CTAAA
196 CTAAA
18344951 AATATACAAGGAATAAATAAATTCAAGAATAACTATTTACGTTATGAATGAAGAAAAAATGAGGG
1 AATATACAAGGAATAAATAAATTCAAGAATAACTATTTACGTTATGAATGAAGAAAAAATGAGGG
18345016 AACAATTGCTCAAATTAATCATGAAAGATATGTTTTATTGAAACAACAATGTCCAAACATGAGCC
66 AACAATTGCTCAAATTAATCATGAAAGATATGTTTTATTGAAACAACAATGTCCAAACATGAGCC
18345081 TATTTCACAAATGAAATCTTATTGTTTCTAGGCTTTAAAACAACAAGTGTGTTCTGAACATTACT
131 TATTTCACAAATGAAATCTTATTGTTTCTAGGCTTTAAAACAACAAGTGTGTTCTGAACATTACT
18345146 CTAAA
196 CTAAA
18345151 TTAACTTTAA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (200 bp):
AATATACAAGGAATAAATAAATTCAAGAATAACTATTTACGTTATGAATGAAGAAAAAATGAGGG
AACAATTGCTCAAATTAATCATGAAAGATATGTTTTATTGAAACAACAATGTCCAAACATGAGCC
TATTTCACAAATGAAATCTTATTGTTTCTAGGCTTTAAAACAACAAGTGTGTTCTGAACATTACT
CTAAA
Found at i:18345706 original size:40 final size:40
Alignment explanation
Indices: 18345662--18345923 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
18345652 GCTCCTCGTT
* *
18345662 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18345702 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18345742 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18345781 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18345820 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18345859 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
18345900 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18345924 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18350798 original size:92 final size:92
Alignment explanation
Indices: 18350641--18350823 Score: 357
Period size: 92 Copynumber: 2.0 Consensus size: 92
18350631 AATAACATCA
18350641 AATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCTAGGGGACA
1 AATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCTAGGGGACA
18350706 TTTCTTACACACTTTGTCGACAAGCAC
66 TTTCTTACACACTTTGTCGACAAGCAC
*
18350733 AATTCATCAAACGGCAAAAGCATCAAGTTCGCCGGAAAACAGGAACCTCGAATTTCTAGGGGACA
1 AATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCTAGGGGACA
18350798 TTTCTTACACACTTTGTCGACAAGCA
66 TTTCTTACACACTTTGTCGACAAGCA
18350824 TGTAACGACC
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (92 bp):
AATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCTAGGGGACA
TTTCTTACACACTTTGTCGACAAGCAC
Found at i:18353866 original size:79 final size:81
Alignment explanation
Indices: 18353764--18353947 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
18353754 GCTCCTCGTT
* *
18353764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
18353826 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
18353844 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
18353908 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
18353924 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18353948 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:18353881 original size:39 final size:41
Alignment explanation
Indices: 18353764--18353947 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
18353754 GCTCCTCGTT
* *
18353764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
18353804 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
18353844 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
18353883 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
18353924 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18353948 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:18361413 original size:40 final size:40
Alignment explanation
Indices: 18361369--18361630 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
18361359 GCTCCTCGTT
* *
18361369 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18361409 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18361449 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18361488 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18361527 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18361566 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
18361607 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18361631 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18371072 original size:55 final size:50
Alignment explanation
Indices: 18370988--18371154 Score: 181
Period size: 50 Copynumber: 3.2 Consensus size: 50
18370978 GGGAACGAGA
**
18370988 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCTCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGG--CACCGAG---ATGAGAGG
* *
18371043 TCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
18371093 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
18371143 TCCCATGTAAGA
1 TCCCATGTAAGA
18371155 TCATATTTGG
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 59 0.61
53 5 0.05
55 33 0.34
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:18371153 original size:50 final size:50
Alignment explanation
Indices: 18370988--18371218 Score: 162
Period size: 50 Copynumber: 4.5 Consensus size: 50
18370978 GGGAACGAGA
* * ** * **
18370988 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCTCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGG-GCA--CCGA-TATGAAAAC
* * * * * **
18371043 TCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAAC
**
18371093 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAAC
* * * * * * *
18371143 TCCCATGTAAGATCATATTTGGGATATGACATTGGCA--G-TACAGAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATA-TGAAAAC
*
18371191 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
18371219 AGCTTTGTCA
Statistics
Matches: 144, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
47 2 0.01
48 7 0.05
49 22 0.15
50 78 0.54
51 2 0.01
53 2 0.01
54 2 0.01
55 29 0.20
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAAC
Found at i:18382925 original size:28 final size:27
Alignment explanation
Indices: 18382894--18382953 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
18382884 GTCTAAGAAA
*
18382894 ATAAAAATAAAACAACTAAAAAC-AAAAC
1 ATAAAAATAAAA-AAAT-AAAACTAAAAC
18382922 ATAAAAATAAAAAAATAAAACTAAAAC
1 ATAAAAATAAAAAAATAAAACTAAAAC
18382949 -TAAAA
1 ATAAAA
18382954 TGAAAAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 10 0.33
27 8 0.27
28 12 0.40
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (27 bp):
ATAAAAATAAAAAAATAAAACTAAAAC
Found at i:18382934 original size:20 final size:20
Alignment explanation
Indices: 18382911--18382953 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18382901 TAAAACAACT
18382911 AAAAACAAAACATAAAAATAA
1 AAAAACAAAAC-TAAAAATAA
* *
18382932 AAAAATAAAACTAAAACTAA
1 AAAAACAAAACTAAAAATAA
18382952 AA
1 AA
18382954 TGAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (20 bp):
AAAAACAAAACTAAAAATAA
Found at i:18382970 original size:33 final size:33
Alignment explanation
Indices: 18382907--18382970 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 33
18382897 AAAATAAAAC
*
18382907 AACTAAAAACAAAACATAAAAATAAAAAAATAA
1 AACTAAAAACAAAACATAAAAACAAAAAAATAA
*
18382940 AACT-AAAACTAAA-ATGAAAAACAAATAAAAT
1 AACTAAAAACAAAACAT-AAAAACAAA-AAAAT
18382971 CAATGATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 2 0.07
32 16 0.59
33 9 0.33
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (33 bp):
AACTAAAAACAAAACATAAAAACAAAAAAATAA
Found at i:18382984 original size:3 final size:3
Alignment explanation
Indices: 18382963--18383024 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
18382953 ATGAAAAACA
* * * *
18382963 AAT AA- AAT CAAT GAT AAT AAT AAT AAT AAT AAT AGT AAT AGT AGT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18383008 AAT GAA- AAT AAT AAT AA
1 AAT -AAT AAT AAT AAT AA
18383025 AAATGACAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:18383120 original size:27 final size:28
Alignment explanation
Indices: 18383081--18383140 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
18383071 CATGGAAAAC
* * * *
18383081 AATAAATATAATAATAACACTAAAAGTA
1 AATAAATAGAATAATAAAACAAAAAATA
18383109 AATAAAT-GAATAATAAAACAAAAAATA
1 AATAAATAGAATAATAAAACAAAAAATA
18383136 AATAA
1 AATAA
18383141 GAAAACAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (28 bp):
AATAAATAGAATAATAAAACAAAAAATA
Found at i:18383171 original size:10 final size:10
Alignment explanation
Indices: 18383156--18383222 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
18383146 CAGATCAGTA
18383156 AAATAAAAAT
1 AAATAAAAAT
*
18383166 AAATAATATAAC
1 AAATAA-A-AAT
*
18383178 AAATAATAAT
1 AAATAAAAAT
18383188 AAAT--AAAT
1 AAATAAAAAT
18383196 AAAT-AAAAT
1 AAATAAAAAT
18383205 AAA-ATAAAAT
1 AAATA-AAAAT
18383215 AGAATAAA
1 A-AATAAA
18383223 GAAAAGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
8 7 0.15
9 7 0.15
10 18 0.39
11 5 0.11
12 9 0.20
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:18383188 original size:22 final size:21
Alignment explanation
Indices: 18383156--18383197 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
18383146 CAGATCAGTA
18383156 AAATAAAAATAAATAATATAAC
1 AAATAAAAATAAATAA-ATAAC
*
18383178 AAATAATAATAAATAAATAA
1 AAATAAAAATAAATAAATAA
18383198 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAATAAATAAATAAC
Found at i:18383199 original size:18 final size:18
Alignment explanation
Indices: 18383156--18383212 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
18383146 CAGATCAGTA
18383156 AAATAAA-AATAA-ATAAT
1 AAATAAATAATAATA-AAT
*
18383173 ATAACAAATAATAATAAAT
1 A-AATAAATAATAATAAAT
18383192 AAATAAATAA-AATAAAAT
1 AAATAAATAATAAT-AAAT
18383210 AAA
1 AAA
18383213 ATAGAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.12
18 20 0.59
19 9 0.26
20 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAATAATAATAAAT
Found at i:18383214 original size:15 final size:15
Alignment explanation
Indices: 18383154--18383222 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
18383144 AACAGATCAG
18383154 TAAAATAAAA-ATAAA
1 TAAAATAAAATA-AAA
*
18383169 TAATATAACAAATAATAA
1 TAAAAT-A-AAATAA-AA
18383187 T-AAAT-AAAT-AAA
1 TAAAATAAAATAAAA
18383199 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
*
18383214 TAGAATAAA
1 TAAAATAAA
18383223 GAAAAGGGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
12 3 0.07
13 5 0.11
14 8 0.18
15 16 0.36
16 1 0.02
17 7 0.16
18 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (15 bp):
TAAAATAAAATAAAA
Found at i:18396716 original size:23 final size:24
Alignment explanation
Indices: 18396670--18396717 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
18396660 ATAAACTTAG
* *
18396670 GACATATTTAAAAGGCTCAGATTAT
1 GACATATTT-AAAGACTCAAATTAT
18396695 GACATATTT-AAGACTCAAATTAT
1 GACATATTTAAAGACTCAAATTAT
18396718 TGATGTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
GACATATTTAAAGACTCAAATTAT
Found at i:18399967 original size:20 final size:20
Alignment explanation
Indices: 18399941--18400039 Score: 110
Period size: 20 Copynumber: 5.0 Consensus size: 20
18399931 TTATGCATAA
*
18399941 CAGAGGCACCAAAGTGTAGAT
1 CAGAGGCACCAAAGTGCA-AT
* *
18399962 -AGAGGCACGAATGTGCAAT
1 CAGAGGCACCAAAGTGCAAT
* *
18399981 CAGAGGCACCGAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAT
** *
18400001 CAGAGGCATGAATGTGCAAT
1 CAGAGGCACCAAAGTGCAAT
18400021 CAGAGGCACCAAAGTGCAA
1 CAGAGGCACCAAAGTGCAA
18400040 ACCCTATTGG
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
19 2 0.03
20 60 0.97
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.12
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAT
Found at i:18399985 original size:40 final size:40
Alignment explanation
Indices: 18399941--18400041 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
18399931 TTATGCATAA
* * *
18399941 CAGAGGCACCAAAGTGTAGATAGAGGCACGAATGTGCAAT
1 CAGAGGCACCAAAGTGCAAACAGAGGCACGAATGTGCAAT
* *
18399981 CAGAGGCACCGAAGTGCAAACAGAGGCATGAATGTGCAAT
1 CAGAGGCACCAAAGTGCAAACAGAGGCACGAATGTGCAAT
18400021 CAGAGGCACCAAAGTGCAAAC
1 CAGAGGCACCAAAGTGCAAAC
18400042 CCTATTGGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.39, C:0.21, G:0.29, T:0.12
Consensus pattern (40 bp):
CAGAGGCACCAAAGTGCAAACAGAGGCACGAATGTGCAAT
Done.