Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 56 of 213
Found at i:15242523 original size:32 final size:32
Alignment explanation
Indices: 15242478--15242546 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
15242468 GGTGAGACGA
15242478 CTTAATTCCATTATATAAAAACCTAGTTAACT
1 CTTAATTCCATTATATAAAAACCTAGTTAACT
*
15242510 CTTAATTCTATTATATAAAAACCTAGTTAACT
1 CTTAATTCCATTATATAAAAACCTAGTTAACT
15242542 CTTAA
1 CTTAA
15242547 AAGCAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (32 bp):
CTTAATTCCATTATATAAAAACCTAGTTAACT
Found at i:15253808 original size:20 final size:20
Alignment explanation
Indices: 15253785--15253831 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
15253775 GGGTTAAGAC
*
15253785 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
15253805 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
15253825 TGAGCTG
1 TGAGCTG
15253832 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:15255037 original size:51 final size:53
Alignment explanation
Indices: 15254973--15255080 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 53
15254963 AGCAATTAAC
15254973 AAATCAACCGACCATTATTTTATCA-TTACATTGTCTAAAGCAATAGGGAA-G
1 AAATCAACCGACCATTATTTTATCATTTACATTGTCTAAAGCAATAGGGAAGG
* * * *
15255024 AAATCAACTGACCATTGTTTTATCATTTATATTGTCTAAAGTAATAGGGAAGG
1 AAATCAACCGACCATTATTTTATCATTTACATTGTCTAAAGCAATAGGGAAGG
15255077 AAAT
1 AAAT
15255081 TAGATTAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 23 0.45
52 23 0.45
53 5 0.10
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (53 bp):
AAATCAACCGACCATTATTTTATCATTTACATTGTCTAAAGCAATAGGGAAGG
Found at i:15256127 original size:37 final size:37
Alignment explanation
Indices: 15256064--15256150 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
15256054 AAAATGAATA
* *
15256064 ATTCCCTGGCAAAAGAAGATAGAGATGAATAGGAGTG
1 ATTCCCTGCCAAAAGAAGATAGAGATGAACAGGAGTG
* * *
15256101 ATTCTCTGCCAAAAGAA-ATCGAAGATGAACATGAGTG
1 ATTCCCTGCCAAAAGAAGATAG-AGATGAACAGGAGTG
15256138 ATTCCCTGCCAAA
1 ATTCCCTGCCAAA
15256151 TGCGGACGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 3 0.07
37 40 0.93
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (37 bp):
ATTCCCTGCCAAAAGAAGATAGAGATGAACAGGAGTG
Found at i:15256390 original size:22 final size:23
Alignment explanation
Indices: 15256359--15256409 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
15256349 CACATCGACC
15256359 AACAAATCAAATTTAA-ATTCAA
1 AACAAATCAAATTTAACATTCAA
* *
15256381 AACAATTCAAATTTAACTTTCAA
1 AACAAATCAAATTTAACATTCAA
15256404 AA-AAAT
1 AACAAAT
15256410 AATTTTCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (23 bp):
AACAAATCAAATTTAACATTCAA
Found at i:15256445 original size:15 final size:15
Alignment explanation
Indices: 15256425--15256460 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15256415 TCAACAAATC
* *
15256425 AAATTTAATTTTTAA
1 AAATTTAATGTTCAA
15256440 AAATTTAATGTTCAA
1 AAATTTAATGTTCAA
15256455 AAATTT
1 AAATTT
15256461 TCTTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
AAATTTAATGTTCAA
Found at i:15256454 original size:36 final size:36
Alignment explanation
Indices: 15256381--15256458 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
15256371 TTAAATTCAA
* *
15256381 AACAATTCAAATTTAACTTTCAAAAAAATAATTTTC
1 AACAAATCAAATTTAACTTTCAAAAAAATAATGTTC
* * **
15256417 AACAAATCAAATTTAATTTTTAAAAATTTAATGTTC
1 AACAAATCAAATTTAACTTTCAAAAAAATAATGTTC
15256453 AA-AAAT
1 AACAAAT
15256459 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 4 0.11
36 32 0.89
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.37
Consensus pattern (36 bp):
AACAAATCAAATTTAACTTTCAAAAAAATAATGTTC
Found at i:15257916 original size:58 final size:58
Alignment explanation
Indices: 15257853--15257978 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 58
15257843 TTTTAATAAG
* *
15257853 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
15257911 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
15257969 ATTATTATTA
1 ATTATTATTA
15257979 TATGAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.36
58 39 0.64
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:15257998 original size:57 final size:56
Alignment explanation
Indices: 15257840--15258005 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 56
15257830 TATTGTTATT
* * * *
15257840 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAACATA-ATTATTATT-AATATAATTTAAT-AAAATAATATATAATTTAACA
* *
15257898 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAATAAAATAATATATAATTTAACA
*
15257955 AAATTCTTAATATAATTATTATT-ATATGAA-TTAA-AAATCATAATATATAAT
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAATAAA--ATAATATATAAT
15258006 ACTATAAAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
55 3 0.03
56 8 0.08
57 36 0.38
58 47 0.49
59 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAATAAAATAATATATAATTTAACA
Found at i:15258016 original size:58 final size:57
Alignment explanation
Indices: 15257853--15258014 Score: 154
Period size: 57 Copynumber: 2.8 Consensus size: 57
15257843 TTTTAATAAG
* * * ** *
15257853 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATT-AATATAATTTAAT-AAAATAATATATAATCTAATAAAATTCTTAACATA
* *
15257911 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATT-AATATAATTTAATAAAATAATATATAATCTAATAAAATTCTTAACATA
15257969 ATTATTATT-ATATGAA-TTAA-AAATCATAATATATAATACT-ATAAAA
1 ATTATTATTAATAT-AATTTAATAAA--ATAATATATAAT-CTAATAAAA
15258015 ATAATATATA
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
55 3 0.03
56 8 0.09
57 42 0.46
58 39 0.42
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (57 bp):
ATTATTATTAATATAATTTAATAAAATAATATATAATCTAATAAAATTCTTAACATA
Found at i:15261952 original size:47 final size:47
Alignment explanation
Indices: 15261901--15261996 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
15261891 TATTGTAATG
* *
15261901 TTAATTACAATTTTTAATCAAACAATATAAGTAATGTAAAACATTGT
1 TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
*
15261948 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
15261995 TT
1 TT
15261997 GAAGATCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (47 bp):
TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:15273592 original size:22 final size:23
Alignment explanation
Indices: 15273561--15273612 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
15273551 CACATCGACC
15273561 AACAAATCAAATTTAA-ATTCAA
1 AACAAATCAAATTTAACATTCAA
* *
15273583 AACAATTCAAATTTAACTTTCAA
1 AACAAATCAAATTTAACATTCAA
*
15273606 AAAAAAT
1 AACAAAT
15273613 AATTTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (23 bp):
AACAAATCAAATTTAACATTCAA
Found at i:15273658 original size:37 final size:37
Alignment explanation
Indices: 15273583--15273662 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
15273573 TTAAATTCAA
* *
15273583 AACAATTCAAATTTAACTTTCAAAAAAAATAATTTTC
1 AACAAATCAAATTTAACTTTCAAAAAAAATAATGTTC
* ** **
15273620 AACAAATCAAATTTAATTTTTTAAAAATTTAATGTTC
1 AACAAATCAAATTTAACTTTCAAAAAAAATAATGTTC
15273657 AA-AAAT
1 AACAAAT
15273663 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (37 bp):
AACAAATCAAATTTAACTTTCAAAAAAAATAATGTTC
Found at i:15275086 original size:57 final size:57
Alignment explanation
Indices: 15275023--15275144 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 57
15275013 TTTAATAAGA
*
15275023 TATTATTAAA-ATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATAAT
1 TATTATTAAATATAATTTAAT-AAAATAATAAATAATTTAA-CAAATTCTTAACATAAT
* * *
15275080 TATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAATTCTTAATATAAT
1 TATTATTAAATATAATTTAATAAAATAATAAATAATTTAACAAATTCTTAACATAAT
15275137 TATTATTA
1 TATTATTA
15275145 TATGAATTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
56 4 0.07
57 45 0.76
58 10 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
TATTATTAAATATAATTTAATAAAATAATAAATAATTTAACAAATTCTTAACATAAT
Found at i:15279121 original size:47 final size:47
Alignment explanation
Indices: 15279070--15279165 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
15279060 TATTGTAATG
* *
15279070 TTAATTACAATTTTTAATCAAACAATATAAGTAATGTAAAACATTGT
1 TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
*
15279117 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
15279164 TT
1 TT
15279166 GAAGATCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (47 bp):
TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:15281296 original size:25 final size:25
Alignment explanation
Indices: 15281267--15281317 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15281257 TTACATCAAG
15281267 AAAGCTTAAATGCATCCAAAATCTA
1 AAAGCTTAAATGCATCCAAAATCTA
15281292 AAAGCTTAAATGCATCCAAAATCTA
1 AAAGCTTAAATGCATCCAAAATCTA
15281317 A
1 A
15281318 CAATATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.24
Consensus pattern (25 bp):
AAAGCTTAAATGCATCCAAAATCTA
Found at i:15282420 original size:21 final size:21
Alignment explanation
Indices: 15282394--15282437 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
15282384 AAAAAAAAGA
15282394 TTAAAAAATCTTTATTCTAGG
1 TTAAAAAATCTTTATTCTAGG
*
15282415 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTAGG
15282436 TT
1 TT
15282438 TTCGTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
TTAAAAAATCTTTATTCTAGG
Found at i:15284412 original size:16 final size:18
Alignment explanation
Indices: 15284379--15284416 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15284369 ATCCTTATTT
15284379 AAATAAAATATAATAGTA
1 AAATAAAATATAATAGTA
15284397 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
15284413 AAAT
1 AAAT
15284417 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:15288722 original size:20 final size:20
Alignment explanation
Indices: 15288699--15288736 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15288689 ACCAAAATTT
15288699 ATGAGAGAA-TACCAAAAAAA
1 ATGAGA-AAGTACCAAAAAAA
15288719 ATGAGAAAGTACCAAAAA
1 ATGAGAAAGTACCAAAAA
15288737 TTATAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.63, C:0.11, G:0.16, T:0.11
Consensus pattern (20 bp):
ATGAGAAAGTACCAAAAAAA
Found at i:15289088 original size:3 final size:3
Alignment explanation
Indices: 15289080--15289109 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15289070 CACCCTTTTT
15289080 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15289110 CTCCATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15295980 original size:17 final size:17
Alignment explanation
Indices: 15295958--15296021 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
15295948 AATCTTAGAG
15295958 TTCTAATTGTACACAGC
1 TTCTAATTGTACACAGC
* *
15295975 TTCTAATTGTGTCTTAGAG-
1 TTCTAATTGT-AC--ACAGC
*
15295994 TTCTAATTGTATACAGC
1 TTCTAATTGTACACAGC
*
15296011 TTTTAATTGTA
1 TTCTAATTGTA
15296022 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.54
18 1 0.03
19 10 0.27
20 3 0.08
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
TTCTAATTGTACACAGC
Found at i:15295997 original size:36 final size:36
Alignment explanation
Indices: 15295950--15296020 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
15295940 GATTATGTAA
15295950 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
* *
15295986 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGT
15296021 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
Found at i:15295999 original size:19 final size:18
Alignment explanation
Indices: 15295950--15296003 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
15295940 GATTATGTAA
15295950 TCTTAGAGTTCTAATTGT
1 TCTTAGAGTTCTAATTGT
* *
15295968 AC--ACAGCTTCTAATTGT
1 TCTTAGAG-TTCTAATTGT
15295985 GTCTTAGAGTTCTAATTGT
1 -TCTTAGAGTTCTAATTGT
15296004 ATACAGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.11
17 10 0.36
18 2 0.07
19 10 0.36
20 3 0.11
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTGT
Found at i:15300590 original size:13 final size:13
Alignment explanation
Indices: 15300572--15300596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15300562 AATTTTAATA
15300572 TTATTTTGTGTGT
1 TTATTTTGTGTGT
15300585 TTATTTTGTGTG
1 TTATTTTGTGTG
15300597 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:15301813 original size:115 final size:114
Alignment explanation
Indices: 15301572--15301904 Score: 551
Period size: 114 Copynumber: 2.9 Consensus size: 114
15301562 TTAAATCAGC
* * * * * * **
15301572 ATATATATATTTATTTTATATTTGATGAGCTATAATTAAAAATATATGAATTTTTAATTAGTTAA
1 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATAT-AAATTGAAATTAGTTAA
15301637 GTATGAATGTTATATATAT-CATAAATGAAGTTCGAATATATGTAAATAT
65 GTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
*
15301686 ATATGCATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAT
1 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAA-
*
15301751 GTGTGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
65 GTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
15301801 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAG
1 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAG
15301866 TATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
15301905 GTATATATGA
Statistics
Matches: 205, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
113 14 0.07
114 98 0.48
115 93 0.45
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.42
Consensus pattern (114 bp):
ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAG
TATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
Found at i:15302086 original size:17 final size:15
Alignment explanation
Indices: 15302055--15302085 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15302045 TGCATATGTG
15302055 TGAGGTTCGAATATA
1 TGAGGTTCGAATATA
15302070 TGAGGTTCGAATATA
1 TGAGGTTCGAATATA
15302085 T
1 T
15302086 AGTTATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (15 bp):
TGAGGTTCGAATATA
Found at i:15302457 original size:41 final size:40
Alignment explanation
Indices: 15302403--15302511 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 40
15302393 TTTCGGACTT
*
15302403 TAAGTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAG-CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
15302444 TAAAGCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
1 T-AAGCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
*
15302485 TAAGCTTAGCAGGTTAAGTGCCGGTGA
1 TAAGC-TAGCAGGCTAAGTGCCGGTGA
15302512 ATATGTTAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 4 0.06
41 57 0.89
42 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (40 bp):
TAAGCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
Found at i:15303892 original size:36 final size:36
Alignment explanation
Indices: 15303845--15303915 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
15303835 GATTATGTAA
15303845 TCTTAGAGTTCTAATTGTACACAACTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTACACAACTTCTAATTGTG
* * *
15303881 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTACACAACTTCTAATTGT
15303916 AGCCTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTACACAACTTCTAATTGTG
Found at i:15304911 original size:37 final size:37
Alignment explanation
Indices: 15304869--15304939 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
15304859 TTGTACTTTC
*
15304869 AAATTTAACAATATT-TACAATTTAGTCCTTAAAATCT
1 AAATTT-ACAATATTCTACAATTTAATCCTTAAAATCT
* * *
15304906 AAATTTTCACTATTCTATAATTTAATCCTTAAAA
1 AAATTTACAATATTCTACAATTTAATCCTTAAAA
15304940 ACAGAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 6 0.21
37 23 0.79
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.42
Consensus pattern (37 bp):
AAATTTACAATATTCTACAATTTAATCCTTAAAATCT
Found at i:15305415 original size:24 final size:25
Alignment explanation
Indices: 15305373--15305422 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
15305363 TCTTACTTTC
15305373 AATTATTCACATAAAATCATCCACCA
1 AATTATT-ACATAAAATCATCCACCA
* *
15305399 AATTATT-CATAATATCATTCACCA
1 AATTATTACATAAAATCATCCACCA
15305423 TTCACTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
26 7 0.32
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (25 bp):
AATTATTACATAAAATCATCCACCA
Found at i:15307357 original size:16 final size:17
Alignment explanation
Indices: 15307321--15307357 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
15307311 CAATTTTATT
15307321 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
15307338 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
15307353 TAATA
1 TAATA
15307358 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:15314745 original size:9 final size:9
Alignment explanation
Indices: 15314719--15314942 Score: 196
Period size: 9 Copynumber: 24.3 Consensus size: 9
15314709 ATTTGCACAG
15314719 GTAAGTTAT
1 GTAAGTTAT
* *
15314728 TTAATTTAT
1 GTAAGTTAT
15314737 GTAAGTTAT
1 GTAAGTTAT
15314746 GTAAGTTAT
1 GTAAGTTAT
* *
15314755 TTAATTTAT
1 GTAAGTTAT
*
15314764 GTAGGTTAT
1 GTAAGTTAT
*
15314773 GTAAGTCCAT
1 GTAAGT-TAT
* *
15314783 GAAATTTAT
1 GTAAGTTAT
*
15314792 GTAAGTTGT
1 GTAAGTTAT
15314801 GTAAGTTAT
1 GTAAGTTAT
* *
15314810 TTAATTTAT
1 GTAAGTTAT
15314819 GTAAGTTAT
1 GTAAGTTAT
15314828 GTAAGTTAT
1 GTAAGTTAT
* *
15314837 TTAATTTAT
1 GTAAGTTAT
*
15314846 GTAGGTTAT
1 GTAAGTTAT
15314855 GTAAGTTAT
1 GTAAGTTAT
*
15314864 GTATGTTAT
1 GTAAGTTAT
* **
15314873 TTATTTTAT
1 GTAAGTTAT
*
15314882 GCAAGTTTAT
1 GTAAG-TTAT
15314892 GTAAGTTAT
1 GTAAGTTAT
* *
15314901 TTAATTTAT
1 GTAAGTTAT
15314910 GTAAGTTAT
1 GTAAGTTAT
*
15314919 GCAAGCTTAT
1 GTAAG-TTAT
*
15314929 ATACAAGTTAT
1 GT--AAGTTAT
15314940 GTA
1 GTA
15314943 TTATAACATA
Statistics
Matches: 166, Mismatches: 44, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
9 140 0.84
10 18 0.11
11 5 0.03
12 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:15314757 original size:27 final size:27
Alignment explanation
Indices: 15314719--15314918 Score: 231
Period size: 27 Copynumber: 7.3 Consensus size: 27
15314709 ATTTGCACAG
15314719 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
15314746 GTAAGTTATTTAATTTATGTAGGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
* ** *
15314773 GTAAGTCCATGAAATTTATGTAAGTTGT
1 GTAAGT-TATTTAATTTATGTAAGTTAT
15314801 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
15314828 GTAAGTTATTTAATTTATGTAGGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
* * **
15314855 GTAAGTTATGT-ATGTTATTTATTTTAT
1 GTAAGTTATTTAAT-TTATGTAAGTTAT
* * * * *
15314882 GCAAGTTTATGTAAGTTATTTAATTTAT
1 GTAAG-TTATTTAATTTATGTAAGTTAT
15314910 GTAAGTTAT
1 GTAAGTTAT
15314919 GCAAGCTTAT
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 103 0.69
28 44 0.29
29 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (27 bp):
GTAAGTTATTTAATTTATGTAAGTTAT
Found at i:15315172 original size:16 final size:16
Alignment explanation
Indices: 15315147--15315184 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15315137 GAAAACGAAG
*
15315147 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
15315162 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
15315178 TAAATTT
1 TAAATTT
15315185 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:15315199 original size:13 final size:13
Alignment explanation
Indices: 15315181--15315208 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15315171 ATACAAATAA
15315181 ATTTAGAAAACTT
1 ATTTAGAAAACTT
15315194 ATTTAGAAAACTT
1 ATTTAGAAAACTT
15315207 AT
1 AT
15315209 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:15315216 original size:17 final size:17
Alignment explanation
Indices: 15315177--15315226 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
15315167 TTTAATACAA
15315177 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
15315193 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
15315207 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
15315224 ATA
1 ATA
15315227 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:15316262 original size:27 final size:29
Alignment explanation
Indices: 15316208--15316262 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
15316198 TAATTATCAC
*
15316208 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
15316238 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
15316263 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:15318722 original size:14 final size:15
Alignment explanation
Indices: 15318689--15318737 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
15318679 ATTAACTATA
15318689 AACCCCTAAACCCAT
1 AACCCCTAAACCCAT
15318704 AACCCCT-AACTCC-T
1 AACCCCTAAAC-CCAT
15318718 AA-CCCTAAACCCAT
1 AACCCCTAAACCCAT
15318732 GAACCC
1 -AACCC
15318738 TTAACCCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.21
14 10 0.34
15 11 0.38
16 2 0.07
ACGTcount: A:0.37, C:0.47, G:0.02, T:0.14
Consensus pattern (15 bp):
AACCCCTAAACCCAT
Found at i:15318738 original size:15 final size:14
Alignment explanation
Indices: 15318692--15318761 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 14
15318682 AACTATAAAC
15318692 CCCTAAACCCATAA
1 CCCTAAACCCATAA
15318706 CCCCT-AACTCC-TAA
1 -CCCTAAAC-CCATAA
15318720 CCCTAAACCCATGAA
1 CCCTAAACCCAT-AA
* *
15318735 CCCTTAACCC-CAA
1 CCCTAAACCCATAA
15318748 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
15318762 TCCATAAGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 13 0.29
14 15 0.33
15 17 0.38
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCATAA
Found at i:15318755 original size:29 final size:28
Alignment explanation
Indices: 15318692--15318761 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
15318682 AACTATAAAC
*
15318692 CCCTAAACCCATAACCCCTAACTCCTAA
1 CCCTAAACCCATAACCCCTAACTCCCAA
*
15318720 CCCTAAACCCATGAACCCTTAAC-CCCAA
1 CCCTAAACCCAT-AACCCCTAACTCCCAA
15318748 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
15318762 TCCATAAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 23 0.61
29 13 0.34
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (28 bp):
CCCTAAACCCATAACCCCTAACTCCCAA
Found at i:15318942 original size:7 final size:7
Alignment explanation
Indices: 15318922--15318984 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
15318912 ATTAACTATA
15318922 AACCCCT
1 AACCCCT
15318929 AAACCCCT
1 -AACCCCT
15318937 AACCCC-
1 AACCCCT
*
15318943 AACCCTT
1 AACCCCT
*
15318950 AACCCTT
1 AACCCCT
15318957 AA-CCCT
1 AACCCCT
15318963 AAACCCCT
1 -AACCCCT
*
15318971 AAACCCTT
1 -AACCCCT
15318979 AACCCC
1 AACCCC
15318985 AATCATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 8 0.17
7 22 0.46
8 18 0.38
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:15318962 original size:14 final size:14
Alignment explanation
Indices: 15318925--15318983 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
15318915 AACTATAAAC
*
15318925 CCCTAAACCCCTAA
1 CCCTAAACCCTTAA
*
15318939 CCC-CAACCCTTAA
1 CCCTAAACCCTTAA
* *
15318952 CCCTTAACCCTAAA
1 CCCTAAACCCTTAA
15318966 CCCCTAAACCCTTAA
1 -CCCTAAACCCTTAA
15318981 CCC
1 CCC
15318984 CAATCATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 11 0.30
14 14 0.38
15 12 0.32
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCTTAA
Found at i:15318966 original size:42 final size:42
Alignment explanation
Indices: 15318901--15319014 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
15318891 AAACATATTG
* *
15318901 AACCA-TAAAACATTAACTATAAACCCCTAAACCCCTAACCCC
1 AACCATTAAACCA-TAACCATAAACCCCTAAACCCCTAACCCC
* * * * *
15318943 AACCCTTAACCCTTAACCCTAAACCCCTAAACCCTTAACCCC
1 AACCATTAAACCATAACCATAAACCCCTAAACCCCTAACCCC
* *
15318985 AATCATTAAACCATATCCATAAACCCCTAA
1 AACCATTAAACCATAACCATAAACCCCTAA
15319015 CCCATATCCC
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.19
Consensus pattern (42 bp):
AACCATTAAACCATAACCATAAACCCCTAAACCCCTAACCCC
Found at i:15319901 original size:114 final size:114
Alignment explanation
Indices: 15319666--15319951 Score: 287
Period size: 114 Copynumber: 2.5 Consensus size: 114
15319656 ATTTTTAGAC
* * * * *
15319666 AAGCGCCACTAAAGTCTATAAAACCTAAATTG-AAAACGACATCATTTTCTTAACAGTTTTGCAG
1 AAGCGCCACTAAAGTCT-CAAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTCTTGCAG
* *
15319730 CACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTACGACGTTTTCTGAA
65 CACTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGACGTTTTCTCAA
* * ** *
15319780 AATCGCCACTAACGTCTCGAAAAGATAAA-TGAAAAACGACAACGTTTTCTTAACAGTCTTGCGG
1 AAGCGCCACTAAAGTCTC-AAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTCTTGCAG
* * ** * *
15319844 CGCTTATGATAAAGCGCCGCTAATTCTT-GACTA-TAGCGGCGTTTT-TCATT
65 CACTTATGATAAAGCGCCACTAAAGCTTCG-CTACTA-CGACGTTTTCTCA-A
* *
15319894 AAGCGCCACTAAAGTCCTCAAAACCTAAACT-AAAAACGGCAGCGTTTTTCTTAACAGT
1 AAGCGCCACTAAAGT-CTCAAAACCTAAACTGAAAAACGACAACG-TTTTCTTAACAGT
15319952 TTTTCCGACG
Statistics
Matches: 141, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
113 7 0.05
114 117 0.83
115 17 0.12
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (114 bp):
AAGCGCCACTAAAGTCTCAAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTCTTGCAGC
ACTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGACGTTTTCTCAA
Found at i:15320985 original size:87 final size:87
Alignment explanation
Indices: 15320836--15321017 Score: 346
Period size: 87 Copynumber: 2.1 Consensus size: 87
15320826 ATAGGTTCAA
*
15320836 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATTCCATCAAGTTAGAATTTTTTATTTAT
1 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATTCCATCAAGTTAGAATTTTCTATTTAT
15320901 AATTGTTCTTGAAGTTGAAAAT
66 AATTGTTCTTGAAGTTGAAAAT
15320923 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATTCCATCAAGTTAGAATTTTCTATTTAT
1 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATTCCATCAAGTTAGAATTTTCTATTTAT
*
15320988 AATTGTTCTTGAAGTTGAAGAT
66 AATTGTTCTTGAAGTTGAAAAT
15321010 GTTCTATT
1 GTTCTATT
15321018 TAGTCTTCAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 93 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (87 bp):
GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATTCCATCAAGTTAGAATTTTCTATTTAT
AATTGTTCTTGAAGTTGAAAAT
Found at i:15323647 original size:16 final size:16
Alignment explanation
Indices: 15323613--15323652 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15323603 GTTTTAACCG
* *
15323613 AAAGAAAAGAAGAACA
1 AAAGAAAAGAAAAAAA
*
15323629 AAATAAAAGAAAAAAA
1 AAAGAAAAGAAAAAAA
15323645 AAAGAAAA
1 AAAGAAAA
15323653 TCCCCCCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAGAAAAGAAAAAAA
Found at i:15323652 original size:21 final size:21
Alignment explanation
Indices: 15323613--15323653 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15323603 GTTTTAACCG
* *
15323613 AAAGAAAAGAAGAACAAAATA
1 AAAGAAAAAAAAAACAAAATA
*
15323634 AAAGAAAAAAAAAAGAAAAT
1 AAAGAAAAAAAAAACAAAAT
15323654 CCCCCCTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAGAAAAAAAAAACAAAATA
Found at i:15324588 original size:3 final size:3
Alignment explanation
Indices: 15324582--15324624 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
15324572 GTATTCTTTG
* *
15324582 TTA TTA TTA TTA TAA TTA TTA TAA TTA -TA TTA TATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
15324625 ACCTACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:15324602 original size:15 final size:15
Alignment explanation
Indices: 15324582--15324625 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
15324572 GTATTCTTTG
15324582 TTATTATTATTATAA
1 TTATTATTATTATAA
*
15324597 TTATTATAATTAT-A
1 TTATTATTATTATAA
15324611 TTATATATTATTATA
1 TTAT-TATTATTATA
15324626 CCTACATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATTATTATAA
Found at i:15324798 original size:26 final size:28
Alignment explanation
Indices: 15324769--15324841 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 28
15324759 ATATACATTT
*
15324769 ATATTTTATAATATTTATACGTTT-T-C
1 ATATTTTATAATATATATACGTTTATAC
* * *
15324795 ATATGTTATAATGTATATATGTTTATAC
1 ATATTTTATAATATATATACGTTTATAC
*
15324823 ATTTTTTATAATATATATA
1 ATATTTTATAATATATATA
15324842 TACATACACT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 20 0.53
27 1 0.03
28 17 0.45
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (28 bp):
ATATTTTATAATATATATACGTTTATAC
Found at i:15324955 original size:13 final size:13
Alignment explanation
Indices: 15324921--15324969 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
15324911 ATTTTCATAA
* *
15324921 TTTATTAATATCT
1 TTTATTTATATTT
*
15324934 TTTACTTATATTT
1 TTTATTTATATTT
*
15324947 TTTATTTATGTATT
1 TTTATTTATAT-TT
15324961 TTTATTTAT
1 TTTATTTAT
15324970 TTATATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTATTTATATTT
Found at i:15324968 original size:4 final size:4
Alignment explanation
Indices: 15324942--15324988 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
15324932 CTTTTACTTA
* *
15324942 TATT T-TT TATT TATG TA-T T-TT TATT TATT TATA TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
15324987 TA
1 TA
15324989 GATACCTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:15324980 original size:16 final size:17
Alignment explanation
Indices: 15324940--15324989 Score: 68
Period size: 16 Copynumber: 3.0 Consensus size: 17
15324930 ATCTTTTACT
15324940 TATATTT-TTTATTTATG
1 TATATTTATTTATTTA-G
*
15324957 TATTTTTATTTATTTA-
1 TATATTTATTTATTTAG
15324973 TATATTTATTTATTTAG
1 TATATTTATTTATTTAG
15324990 ATACCTATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 15 0.52
17 6 0.21
18 8 0.28
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (17 bp):
TATATTTATTTATTTAG
Found at i:15325195 original size:29 final size:28
Alignment explanation
Indices: 15325134--15325195 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
15325124 AAAAGCCCTT
*
15325134 TTTTTTTAAAATTTACCGAAATGGGCTA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
* * *
15325162 ATTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTTAA-AATTTACCGAAATGGGCCA
15325191 TTTTT
1 TTTTT
15325196 CGTGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:15325640 original size:125 final size:124
Alignment explanation
Indices: 15325413--15325693 Score: 408
Period size: 125 Copynumber: 2.3 Consensus size: 124
15325403 TTATTTCGAG
*
15325413 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCACCTGGATGCTATCAAAGAAGAAATTGTG
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCACCAGGATGCTATCAAAGAAGAAATTGTG
* * *
15325477 AAATCGTGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATT-TTTT
65 AAATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
*
15325536 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGAT-ACCAGGATGCTAT-ATGAGAAGAAATT
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCT--TCACCAGGATGCTATCA-AAGAAGAAATT
*
15325599 GTGAAATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
62 GTGAAATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
* * *
15325662 TTGATGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
15325694 ACCCTGGTGG
Statistics
Matches: 143, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
123 6 0.04
124 26 0.18
125 101 0.71
126 10 0.07
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCACCAGGATGCTATCAAAGAAGAAATTGTGA
AATCGCGCCCTCGTGGACACGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:15327010 original size:29 final size:29
Alignment explanation
Indices: 15326974--15327737 Score: 996
Period size: 29 Copynumber: 25.9 Consensus size: 29
15326964 TCAAAATGGG
* *
15326974 TTAGGGTTAGGGTTTTTACTTAAATTAAG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15327003 TTAAGGTTTAGGG-TTTTAATTAAATTAAA
1 TT-AGGGTTAGGGTTTTTAATTAAATTAAA
*
15327032 CTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* **
15327061 CTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327090 TTAGGGTTTAGGGTTTTTAATTAAATTAAA
1 TTAGGG-TTAGGGTTTTTAATTAAATTAAA
15327120 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* * * **
15327149 CTCGGGTTAGGGTTTTTAATTAAAATGGA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327178 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15327207 TTAGGGTTAAGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* *
15327236 TTAAACTAGGGTTAGGGTTTTTATTTAAATTAAG
1 -T----TAGGGTTAGGGTTTTTAATTAAATTAAA
*
15327270 TTAGGGTTTAAGG-TTTTAATTAAATTAAA
1 TTAGGG-TTAGGGTTTTTAATTAAATTAAA
15327299 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* * ***
15327328 CTAGGGTTAGGGTTTTTAATTAAAATGGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327357 TTAGGGTTAGGGTTTTTAATTAAATTAAATTAAA
1 TTAGGGTTAGGG--TTT--TT-AATTAAATTAAA
* * *
15327391 TTAAATTAGGGTTAGGATTTTTAATTAAATTAAA
1 TT--A--GGGTT-AGGGTTTTTAATTAAATTAAA
15327425 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* **
15327454 TTAGGGTTAGGGTTTTTAATTAAAATGGA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327483 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327512 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327541 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* * ***
15327570 CTAGGGTTAGGGTTTTTAATTAAAATGGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15327599 TTAAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15327628 TTAGGGTTAGGGTTTTTAATTAAATTAAG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15327657 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* *
15327686 TTA-AGTTTGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* *
15327714 TTA-GGTTAGAGTTTTTAATCAAAT
1 TTAGGGTTAGGGTTTTTAATTAAAT
15327738 AATATCAAAA
Statistics
Matches: 645, Mismatches: 70, Indels: 41
0.85 0.09 0.05
Matches are distributed among these distances:
28 57 0.09
29 475 0.74
30 45 0.07
31 3 0.00
32 1 0.00
33 3 0.00
34 49 0.08
35 2 0.00
36 1 0.00
37 3 0.00
38 3 0.00
39 3 0.00
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.44
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAAA
Found at i:15327384 original size:5 final size:5
Alignment explanation
Indices: 15327374--15327398 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15327364 TAGGGTTTTT
15327374 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
15327399 GGGTTAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:15328910 original size:7 final size:7
Alignment explanation
Indices: 15328900--15328938 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
15328890 TTATATACAT
15328900 AATACTA
1 AATACTA
15328907 AATACTA
1 AATACTA
15328914 AATACTA
1 AATACTA
15328921 AATACTA
1 AATACTA
15328928 AATACTA
1 AATACTA
15328935 AATA
1 AATA
15328939 TCAATCCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:15329913 original size:14 final size:15
Alignment explanation
Indices: 15329896--15329928 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15329886 AATAATTATC
15329896 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
15329910 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
15329925 TAAA
1 TAAA
15329929 TTTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:15330060 original size:28 final size:29
Alignment explanation
Indices: 15330027--15330082 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
15330017 TTGAAAATAT
15330027 TAAAAAT-TTTAAAATTATT-TTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
15330055 TAAAAATATTTAAAATTTTCTTAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAA
15330083 TGAAATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:15330143 original size:22 final size:21
Alignment explanation
Indices: 15330115--15330167 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
15330105 TTAAATATGG
*
15330115 ATTTGAGAGATTTTTTGAAGGA
1 ATTTGAGAGA-TTTTGGAAGGA
15330137 ATTTGAGAGGATTTTGGAAGGA
1 ATTTGAGA-GATTTTGGAAGGA
15330159 ATTTGAGAG
1 ATTTGAGAG
15330168 TTTAAGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 1 0.03
22 26 0.90
23 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (21 bp):
ATTTGAGAGATTTTGGAAGGA
Found at i:15330187 original size:52 final size:52
Alignment explanation
Indices: 15330120--15330219 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
15330110 TATGGATTTG
* * * * *
15330120 AGAGATTTTTTGAAGGAATTTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
15330172 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
15330220 AATATTTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:15330236 original size:24 final size:22
Alignment explanation
Indices: 15330172--15330227 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
15330162 TGAGAGTTTA
15330172 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
15330194 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
15330216 AGAGAATATTTG
1 AGAGAAT-TTTG
15330228 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:15334118 original size:17 final size:17
Alignment explanation
Indices: 15334096--15334148 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
15334086 ATTTCAAAAA
15334096 AATAATATAATAATTTT
1 AATAATATAATAATTTT
* * *
15334113 AATAATTTTAT-ATTTC
1 AATAATATAATAATTTT
*
15334129 AA-AAAATAATAATTTT
1 AATAATATAATAATTTT
15334145 AATA
1 AATA
15334149 GTTTTAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 5 0.19
16 12 0.44
17 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAATATAATAATTTT
Found at i:15334142 original size:32 final size:35
Alignment explanation
Indices: 15334072--15334154 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 35
15334062 ATCATATGCA
15334072 TTTAATAATTTTATATTTCAAAAAAATAATATAATAAT
1 TTTAATAATTTTATATTTC---AAAATAATATAATAAT
15334110 TTTAATAATTTTATATTTC-AAA-AA-ATAATAAT
1 TTTAATAATTTTATATTTCAAAATAATATAATAAT
*
15334142 TTTAATAGTTTTA
1 TTTAATAATTTTA
15334155 AAATCATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
32 20 0.45
33 2 0.05
34 3 0.07
38 19 0.43
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (35 bp):
TTTAATAATTTTATATTTCAAAATAATATAATAAT
Found at i:15337794 original size:41 final size:40
Alignment explanation
Indices: 15337747--15337870 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 40
15337737 GTGAAATTAT
*
15337747 TCGGACTATTCGTCTAGCAGGCTAAGTGTCGGTGAACTGAA
1 TCGGACTATT-GTCTAGCAGGCTAAGTGCCGGTGAACTGAA
15337788 TCGGACTATATGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCGGACTAT-TGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
15337829 TCAGG-CTATAGGCCTAGCAGGCTAAGTGCCGGTGAACGGAA
1 TC-GGACTAT-TGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
15337870 T
1 T
15337871 TAGACTATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
41 74 0.96
42 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (40 bp):
TCGGACTATTGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:15337879 original size:41 final size:41
Alignment explanation
Indices: 15337760--15337885 Score: 180
Period size: 41 Copynumber: 3.1 Consensus size: 41
15337750 GACTATTCGT
* * * *
15337760 CTAGCAGGCTAAGTGTCGGTGAACTGAATCGGACTATATGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
* *
15337801 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
* *
15337842 CTAGCAGGCTAAGTGCCGGTGAACGGAATTAGACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
15337883 CTA
1 CTA
15337886 TCAAGTGAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
Found at i:15350624 original size:35 final size:35
Alignment explanation
Indices: 15350578--15350649 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
15350568 ACAGTCAAAA
15350578 CATAATTTGTAACTAGAGGTGCTCATCGGTCGAGC
1 CATAATTTGTAACTAGAGGTGCTCATCGGTCGAGC
15350613 CATAATTTGTAACTAGAGGTGCTCATCGGTCGAGC
1 CATAATTTGTAACTAGAGGTGCTCATCGGTCGAGC
15350648 CA
1 CA
15350650 GGCCCAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (35 bp):
CATAATTTGTAACTAGAGGTGCTCATCGGTCGAGC
Found at i:15351043 original size:21 final size:22
Alignment explanation
Indices: 15351006--15351046 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15350996 AAATAGGGAG
*
15351006 AAAACAACATGAAAATAGCATT
1 AAAACAACATAAAAATAGCATT
15351028 AAAACAACA-AAAAATAGCA
1 AAAACAACATAAAAATAGCA
15351047 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.15, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAACAACATAAAAATAGCATT
Found at i:15360260 original size:7 final size:7
Alignment explanation
Indices: 15360248--15360281 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
15360238 AAGGGATATT
15360248 AAAGGTG
1 AAAGGTG
15360255 AAAGGTG
1 AAAGGTG
15360262 AAAGGTG
1 AAAGGTG
15360269 AAAGGTG
1 AAAGGTG
15360276 AAAGGT
1 AAAGGT
15360282 TGAACATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (7 bp):
AAAGGTG
Found at i:15363297 original size:15 final size:15
Alignment explanation
Indices: 15363273--15363302 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15363263 GGGTTAACTT
15363273 CCTTTCTATAAACCA
1 CCTTTCTATAAACCA
*
15363288 CCTTTGTATAAACCA
1 CCTTTCTATAAACCA
15363303 AACACAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (15 bp):
CCTTTCTATAAACCA
Found at i:15364770 original size:49 final size:49
Alignment explanation
Indices: 15364713--15364817 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 49
15364703 TCATGTGTTA
* * *
15364713 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTAATTCATGATATTAAACTTAATTT
*
15364762 TAATTTTATAAAGTGTTTACCTTTTAATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTAATTCATGATATTAAACTTAATTT
15364811 TAATTTT
1 TAATTTT
15364818 TTTTCTTAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGACCTTTTAATTCATGATATTAAACTTAATTT
Found at i:15370446 original size:24 final size:24
Alignment explanation
Indices: 15370398--15370465 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
15370388 AAGGGGTTAC
* *
15370398 AAGAAGATGAAAGGTTAAAGGTTA
1 AAGAAGATGAAAGGTGAAAGATTA
* *
15370422 AAGAAGATGAAATGTGGAAGATTA
1 AAGAAGATGAAAGGTGAAAGATTA
* * *
15370446 AGGGAGATGAAAAGTGAAAG
1 AAGAAGATGAAAGGTGAAAG
15370466 GTTGAACATC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (24 bp):
AAGAAGATGAAAGGTGAAAGATTA
Found at i:15370694 original size:39 final size:40
Alignment explanation
Indices: 15370650--15370731 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 40
15370640 AAAGCAAATA
*
15370650 TGATCAGAACCTATAATGAGATTGTTAAAAAAA-AGGAAG
1 TGATCAGAACCTATAATGAGATTGCTAAAAAAAGAGGAAG
*
15370689 TGATCAGAACCTATAATGAGATTGCTAAAAAAAGAGTAAG
1 TGATCAGAACCTATAATGAGATTGCTAAAAAAAGAGGAAG
15370729 TGA
1 TGA
15370732 ATCATATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 32 0.80
40 8 0.20
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.23
Consensus pattern (40 bp):
TGATCAGAACCTATAATGAGATTGCTAAAAAAAGAGGAAG
Found at i:15382617 original size:20 final size:19
Alignment explanation
Indices: 15382592--15382631 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
15382582 TTCAAATAAT
*
15382592 TTAATTTGATATAATAAAAA
1 TTAATTTGAAAT-ATAAAAA
*
15382612 TTAATTTTAAATATAAAAA
1 TTAATTTGAAATATAAAAA
15382631 T
1 T
15382632 CTTGTACGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAATTTGAAATATAAAAA
Found at i:15384074 original size:15 final size:15
Alignment explanation
Indices: 15384054--15384083 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15384044 GATAGGAGTA
15384054 AATAATAATAATACT
1 AATAATAATAATACT
15384069 AATAATAATAATACT
1 AATAATAATAATACT
15384084 TTTAAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:15384261 original size:17 final size:14
Alignment explanation
Indices: 15384225--15384260 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
15384215 AAGAAAGAAA
15384225 AATAATAAAACAAT
1 AATAATAAAACAAT
15384239 AATAATAAAACAAT
1 AATAATAAAACAAT
15384253 AATAATAA
1 AATAATAA
15384261 TGAAAATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAATAAAACAAT
Found at i:15385932 original size:44 final size:44
Alignment explanation
Indices: 15385882--15387119 Score: 315
Period size: 44 Copynumber: 28.2 Consensus size: 44
15385872 CTTTAGAGAA
*
15385882 ATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15385926 ATAAGA-TCTACAATCGTCAACCTACTCCACTGCTGCTTAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15385970 ATAAGGA-T-GGTGTC-TAAATCTGCTTCC-CTACTACCTTCGGGAA
1 ATAA-GATTCGCTATCTTCAATCTGC-TCCACTACT-GCTTAGGGAG
** * ** *
15386013 ATAAGATTCGCCGTTTTTGATTTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * *
15386057 ATAA-AATCTACAATCTTCGACCTACTCCACTGCTACTTAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** * * *
15386101 ATAGGACT-GGTGGCTTAAATCTGCTTCC-CTACTACCTTGGGGAAG
1 ATAAGATTCGCTATCTTCAATCTGC-TCCACTACT-GCTTAGGG-AG
* ** * *
15386146 ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGTTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
15386190 ATAAGA-TCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
** * ** * * *
15386234 ATAAGGCTAG-TGGCTTAAATCTGCTTCC-CTTACTACCTT-GGAAAG
1 ATAAGATTCGCTATCTTCAATCTGC-TCCAC-TACT-GCTTAGG-GAG
* * *
15386279 ATAAGATTCGCCGTAT-TT-GATCTACTCCACTGCTGCTTAGGGAG
1 ATAAGATTCG-C-TATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * *
15386323 ATAATA-TCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAA
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
** * * * * *
15386367 ATAAGGCTAG-TAGCTTAAATCTGCTTCACTACTACCTTAGGGAAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACT-GCTTAGGG-AG
* ** * *
15386412 ATAAGATTCACCGTCTTCGATCTGTTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * * * *
15386456 ACAGGA-TCTACAATCTACAACCTACTTCACTGCTACTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * ** * *
15386500 ATAGGATT-GGTGGCTTAAATCTGCTCCACTACTGCTTATGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * *
15386543 ATAAGA-TCTACAATCTTCGACCTACTCCACTACTACTCAAGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * ** * * *
15386587 AGAGGACTGGC-GGCTTAAATCTGTTTCC-CTACTACCTT-GGGAAG
1 ATAAGATTCGCTATCTTCAATCTG-CTCCACTACT-GCTTAGGG-AG
* ** * * *
15386631 ATAAGATTCACCGTCTTCGATCTGCTCCACTATTGCTTAGTGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * *
15386675 ATAAGATATAC-C-ATCTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGAT-T-CGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** * * *
15386719 ATAGGACT-GGTGGCTTAAATCTGCTTCCTACTA-T-C-TCGAGAAG
1 ATAAGATTCGCTATCTTCAATCTGC-TCC-ACTACTGCTTAG-GGAG
* * *
15386762 ATAAGATTCGCCATCTTCAATATGCTCCACCACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * *
15386806 ATAAGA-TCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** *
15386850 ATAGGATT---TATGGCTTAAATCTGCTTC-CTACTATTTCGGGAAG
1 ATAAGATTCGCTAT--CTTCAATCTGCTCCACTACTGCTTAGGG-AG
** *
15386893 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * *
15386937 ATAAGA-TCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15386981 ATAAGACT-GGTGA-CTTAAATCTACTTCCTACTA-T-C-TCGGAAAG
1 ATAAGATTCGCT-ATCTTCAATCTGC-TCC-ACTACTGCTTAGG-GAG
** ** * *
15387024 ATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCCTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** *
15387068 ACAAGA-TCTGCAATCTTCAATCTACTCCACTGTTGCTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
*
15387112 ATAGGATT
1 ATAAGATT
15387120 TGATATGATG
Statistics
Matches: 825, Mismatches: 292, Indels: 153
0.65 0.23 0.12
Matches are distributed among these distances:
41 2 0.00
42 34 0.04
43 175 0.21
44 462 0.56
45 110 0.13
46 39 0.05
47 2 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
Found at i:15386202 original size:133 final size:133
Alignment explanation
Indices: 15385895--15386532 Score: 887
Period size: 133 Copynumber: 4.8 Consensus size: 133
15385885 AGATTCGCTA
*
15385895 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15385960 GCTTAGGGAGATAAGGA-TGGTGTC-TAAATCTGCTTCCCTACTACCTTCGGGAA-ATAAGATTC
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GGGAAGATAAGATTC
*
15386022 GCCG
130 ACCG
* * * * *
15386026 TTTTTGATTTGCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCGACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15386091 ACTTAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGGAAGATAAGATTC
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GGGAAGATAAGATTC
15386155 ACCG
130 ACCG
* *
15386159 TCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15386224 GCTCAGGGAGATAAGG-CTAGTGGCTTAAATCTGCTTCCCTTACTACCTTGGAAAGATAAGATTC
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCC-TACTACCTTGGGAAGATAAGATTC
*
15386288 GCCG
130 ACCG
* * * * *
15386292 TATTTGATCTACTCCACTGCTGCTTAGGGAGATAATATCTACAATCTTCAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* * * *
15386357 GCTCAGGGAAATAAGG-CTAGTAGCTTAAATCTGCTTCACTACTACCTTAGGGAAGATAAGATTC
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GGGAAGATAAGATTC
15386421 ACCG
130 ACCG
* * * * *
15386425 TCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGGATCTACAATCTACAACCTACTTCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15386490 ACTCAGGGAGAT-AGGATTGGTGGCTTAAATCTGC-TCCACTACT
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCC-CTACT
15386533 GCTTATGGAG
Statistics
Matches: 449, Mismatches: 50, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
130 4 0.01
131 76 0.17
132 42 0.09
133 315 0.70
134 12 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (133 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCA
CCG
Found at i:15386619 original size:87 final size:87
Alignment explanation
Indices: 15386431--15386619 Score: 254
Period size: 87 Copynumber: 2.2 Consensus size: 87
15386421 ACCGTCTTCG
* * * *
15386431 ATCTGTTCCACTACTGCTTAGGGAGACAGGATCTACAATCTACAACCTACTTCACTGCTACTCAG
1 ATCTGTTCCACTACTGCTTAGGGAGACAAGATCTACAATCTACAACCTACTCCACTACTACTCAA
* * *
15386496 GGAGATAGGATTGGTGGCTTAA
66 GGAGAGAGGACTGGCGGCTTAA
* * * * *
15386518 ATCTGCTCCACTACTGCTTATGGAGATAAGATCTACAATCTTCGACCTACTCCACTACTACTCAA
1 ATCTGTTCCACTACTGCTTAGGGAGACAAGATCTACAATCTACAACCTACTCCACTACTACTCAA
15386583 GGAGAGAGGACTGGCGGCTTAA
66 GGAGAGAGGACTGGCGGCTTAA
15386605 ATCTGTTTCC-CTACT
1 ATCTG-TTCCACTACT
15386620 ACCTTGGGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 85 0.97
88 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (87 bp):
ATCTGTTCCACTACTGCTTAGGGAGACAAGATCTACAATCTACAACCTACTCCACTACTACTCAA
GGAGAGAGGACTGGCGGCTTAA
Found at i:15386633 original size:131 final size:131
Alignment explanation
Indices: 15386518--15387117 Score: 858
Period size: 131 Copynumber: 4.6 Consensus size: 131
15386508 GGTGGCTTAA
* * * * *
15386518 ATCTGCTCCACTACTGCTTATGGAGATAAGATCTACAATCTTCGACCTACTCCACTACTACTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * * * *
15386583 GGAGAGAGGACTGGCGGCTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTT
66 GGAGATAGGACTGGTGGCTTAAATCTGCTT-CCTACTATCTCGGGAAGATAAGATTCGCCGTCTT
15386648 CG
130 CG
* * * *
15386650 ATCTGCTCCACTATTGCTTAGTGAGATAAGATATACCATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* *
15386715 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCGCCATCTTC
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTC
*
15386780 A
131 G
* * *
15386781 ATATGCTCCACCACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* ** *
15386846 GGAGATAGGATTTATGGCTTAAATCTGCTTCCTACTATTTCGGGAAGATAAGATTCGCCGTCTTC
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTC
15386911 G
131 G
*
15386912 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * * **
15386977 GGAGATAAGACTGGTGACTTAAATCTACTTCCTACTATCTCGGAAAGATAAGATTTACCGTCTTC
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTC
15387042 G
131 G
* * * * *
15387043 ATCTGCTCCACTACTGCCTAGGGAGACAAGATCTGCAATCTTCAATCTACTCCACTGTTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
15387108 GGAGATAGGA
66 GGAGATAGGA
15387118 TTTGATATGA
Statistics
Matches: 415, Mismatches: 53, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
131 332 0.80
132 83 0.20
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTC
G
Found at i:15386717 original size:219 final size:220
Alignment explanation
Indices: 15386298--15386743 Score: 635
Period size: 219 Copynumber: 2.0 Consensus size: 220
15386288 GCCGTATTTG
* * * * * *
15386298 ATCTACTCCACTGCTGCTTAGGGAGATAATATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTACTCAA
*
15386363 GGAAATAAGGCTAGTAGCTTAAATCTGCTTCACTACTACCTTAGGGAAGATAAGATTCACCGTCT
66 GGAAATAAGGCTAGCAGCTTAAATCTGCTTCACTACTACCTTAGGGAAGATAAGATTCACCGTCT
* * * *
15386428 TCGATCTGTTCCACTACTGCTTAGGGAGACAGGATCTACAATCTACAACCTACTTCACTGCTACT
131 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAATCTACAACCTACTCCACTGCTACT
*
15386493 CAGGGAGATAGGATTGGTGGCTTAA
196 CAGGGAGATAGGACTGGTGGCTTAA
* *
15386518 ATCTGCTCCACTACTGCTTATGGAGATAAGATCTACAATCTTCGACCTACTCCACTACTACTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTACTCAA
* * * * * *
15386583 GGAGA-GAGGACTGGCGGCTTAAATCTGTTTCCCTACTACCTT-GGGAAGATAAGATTCACCGTC
66 GGAAATAAGG-CTAGCAGCTTAAATCTGCTTCACTACTACCTTAGGGAAGATAAGATTCACCGTC
* * * * * *
15386646 TTCGATCTGCTCCACTATTGCTTAGTGAGATAAGATATACCATCTTCAACCTACTCCACTGCTGC
130 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAATCTACAACCTACTCCACTGCTAC
15386711 TCAGGGAGATAGGACTGGTGGCTTAA
195 TCAGGGAGATAGGACTGGTGGCTTAA
15386737 ATCTGCT
1 ATCTGCT
15386744 TCCTACTATC
Statistics
Matches: 199, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
219 111 0.56
220 88 0.44
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (220 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTACTCAA
GGAAATAAGGCTAGCAGCTTAAATCTGCTTCACTACTACCTTAGGGAAGATAAGATTCACCGTCT
TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAATCTACAACCTACTCCACTGCTACT
CAGGGAGATAGGACTGGTGGCTTAA
Found at i:15387805 original size:108 final size:108
Alignment explanation
Indices: 15387607--15387820 Score: 302
Period size: 108 Copynumber: 2.0 Consensus size: 108
15387597 GAAAAACGCT
* * * *
15387607 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTTGTTGAGAACAAAGCTCTAAATAAATGAAT
1 TGAAAAAGATTATCAAAATGGACAACATGAAATTTTATTGAGAACAAAGCTCGAAATAAATAAAT
* * *
15387672 CAATCAAGATAACAAACTTTGCTAAGATACGAACTGAATAAAA
66 CAATCAAGATAACAAACTTTACTAAGATAAGAAATGAATAAAA
* * * * *
15387715 TGAAACAGATTATCACAATGGATAACATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAACATGAAATTTTATTGAGAACAAAGCTCGAAATAAATAAAT
* *
15387780 TAATCAAGATAACAAATTTTACTAAGATAAGAAATGAATAA
66 CAATCAAGATAACAAACTTTACTAAGATAAGAAATGAATAA
15387821 GATAAAGATA
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAACATGAAATTTTATTGAGAACAAAGCTCGAAATAAATAAAT
CAATCAAGATAACAAACTTTACTAAGATAAGAAATGAATAAAA
Found at i:15397834 original size:1 final size:1
Alignment explanation
Indices: 15397824--15397877 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
15397814 TGGCCTCTCA
* * * * * *
15397824 TTTTTCTTTTTATTTTTTTTTTCTTTTTTTTTTCTTTTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15397878 AACATTCTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.02, C:0.06, G:0.04, T:0.89
Consensus pattern (1 bp):
T
Found at i:15397844 original size:11 final size:11
Alignment explanation
Indices: 15397823--15397878 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
15397813 TTGGCCTCTC
15397823 ATTTTTCTTTTT
1 ATTTTT-TTTTT
15397835 ATTTTTTTTTT
1 ATTTTTTTTTT
*
15397846 CTTTTTTTTTT
1 ATTTTTTTTTT
* *
15397857 CTTTTTTTTGT
1 ATTTTTTTTTT
*
15397868 -TTGTTTTTTT
1 ATTTTTTTTTT
15397878 A
1 A
15397879 ACATTCTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
10 8 0.21
11 25 0.64
12 6 0.15
ACGTcount: A:0.05, C:0.05, G:0.04, T:0.86
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:15402872 original size:15 final size:15
Alignment explanation
Indices: 15402852--15402881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15402842 GATAGGAGTA
15402852 AATAATAATAATACT
1 AATAATAATAATACT
*
15402867 AATAATAATAGTACT
1 AATAATAATAATACT
15402882 TTTAAGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:15413499 original size:17 final size:17
Alignment explanation
Indices: 15413466--15413512 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
15413456 GTTTTTAATT
*
15413466 ATTTAAA-TAAATAAAA
1 ATTTAAATTAAACAAAA
*
15413482 ATTTAAATTAAACCAAA
1 ATTTAAATTAAACAAAA
15413499 ATCTTAAATATAAA
1 AT-TTAAAT-TAAA
15413513 ACTAATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 7 0.27
17 9 0.35
18 6 0.23
19 4 0.15
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTAAATTAAACAAAA
Found at i:15413745 original size:16 final size:17
Alignment explanation
Indices: 15413723--15413767 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
15413713 TTTAAAAATC
15413723 ATAAAAATATAAACTAT
1 ATAAAAATATAAACTAT
* *
15413740 -TAAAAAGATAAAATTAT
1 ATAAAAATAT-AAACTAT
15413757 ATAAAAATATA
1 ATAAAAATATA
15413768 CAATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAAATATAAACTAT
Found at i:15413772 original size:18 final size:17
Alignment explanation
Indices: 15413723--15413772 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
15413713 TTTAAAAATC
*
15413723 ATAAAAATATAAACTAT
1 ATAAAAATATAAATTAT
*
15413740 -TAAAAAGATAAAATTAT
1 ATAAAAATAT-AAATTAT
15413757 ATAAAAATATACAATT
1 ATAAAAATATA-AATT
15413773 TAATTTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 8 0.30
17 7 0.26
18 12 0.44
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATATAAATTAT
Found at i:15422408 original size:5 final size:5
Alignment explanation
Indices: 15422398--15422423 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15422388 TGTTTGGAGT
15422398 GAAGA GAAGA GAAGA GAAGA GAAGA G
1 GAAGA GAAGA GAAGA GAAGA GAAGA G
15422424 TGAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:15427815 original size:6 final size:6
Alignment explanation
Indices: 15427804--15427833 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
15427794 TAATTAAAGA
15427804 ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT
15427834 TTTCATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:15437986 original size:240 final size:240
Alignment explanation
Indices: 15437563--15438042 Score: 960
Period size: 240 Copynumber: 2.0 Consensus size: 240
15437553 AATGAAATAA
15437563 AAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTATAC
1 AAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTATAC
15437628 AAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACTATT
66 AAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACTATT
15437693 TGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATGAAT
131 TGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATGAAT
15437758 CTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGGTCC
196 CTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGGTCC
15437803 AAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTATAC
1 AAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTATAC
15437868 AAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACTATT
66 AAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACTATT
15437933 TGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATGAAT
131 TGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATGAAT
15437998 CTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGGTCC
196 CTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGGTCC
15438043 TTCCTCAAAG
Statistics
Matches: 240, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 240 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (240 bp):
AAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTATAC
AAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACTATT
TGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATGAAT
CTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGGTCC
Found at i:15444249 original size:19 final size:19
Alignment explanation
Indices: 15444199--15444261 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
15444189 GAACAAAAAA
15444199 TTATAAAATAATCAAAATAAT
1 TTATAAAATAATCAAAAT--T
*
15444220 CT-TAAAA-AATCAAAATT
1 TTATAAAATAATCAAAATT
*
15444237 TTATAAAATAATCTTAAATT
1 TTATAAAATAATC-AAAATT
15444257 TTATA
1 TTATA
15444262 TAAAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 13 0.36
20 15 0.42
21 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TTATAAAATAATCAAAATT
Found at i:15448800 original size:48 final size:48
Alignment explanation
Indices: 15448730--15448834 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
15448720 ACATTGTCAA
15448730 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
1 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
15448778 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
1 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
15448826 AACAACACA
1 AACAACACA
15448835 TATACATGCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.50, C:0.30, G:0.10, T:0.11
Consensus pattern (48 bp):
AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
Found at i:15450930 original size:12 final size:12
Alignment explanation
Indices: 15450913--15450943 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15450903 GGATGAAAAT
15450913 AAGTCATTTTAC
1 AAGTCATTTTAC
15450925 AAGTCATTTTAC
1 AAGTCATTTTAC
15450937 AAGTCAT
1 AAGTCAT
15450944 ATTTCTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (12 bp):
AAGTCATTTTAC
Found at i:15452218 original size:11 final size:11
Alignment explanation
Indices: 15452202--15452232 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15452192 TATAAATACT
15452202 GCCATGGTCCA
1 GCCATGGTCCA
15452213 GCCATGGTCCA
1 GCCATGGTCCA
*
15452224 ACCATGGTC
1 GCCATGGTC
15452233 TTACGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (11 bp):
GCCATGGTCCA
Found at i:15454890 original size:320 final size:320
Alignment explanation
Indices: 15454308--15454947 Score: 1109
Period size: 320 Copynumber: 2.0 Consensus size: 320
15454298 AAAATATCTC
* *
15454308 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCTC
1 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAACATCATCAAAATATCAC
*
15454373 TAATTTCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
66 TAATATCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
* * *
15454438 TTTAAAATTCCATCCTTGAGTCATCACTTAATTTGGTGAATTTGTGATTTAGTCCCTAATAATTC
131 TTTAAAATTCCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTAATAATTC
15454503 TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
196 TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
* * *
15454568 AATATTTGCACTATTGGTCCTTCAACTTTTTTATATTTACATTTTAACCCCTCAAATTTT
261 AATATTTGCACTATTGGTCCTTCAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
15454628 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAACATCATCAAAATATCAC
1 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAACATCATCAAAATATCAC
* * * *
15454693 TAATATCATCATTGTCTTCTAGATTTTTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
66 TAATATCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
* *
15454758 TTTAAAATTTCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTCATAATTC
131 TTTAAAATTCCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTAATAATTC
* *
15454823 TTCACCTATTCAATTTGGTCTTAGTTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
196 TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
* *
15454888 AATATTTGCACTATTGGTCTTTTAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
261 AATATTTGCACTATTGGTCCTTCAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
15454948 GAGTATTTAC
Statistics
Matches: 301, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
320 301 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (320 bp):
ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAACATCATCAAAATATCAC
TAATATCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
TTTAAAATTCCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTAATAATTC
TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
AATATTTGCACTATTGGTCCTTCAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
Found at i:15455215 original size:25 final size:25
Alignment explanation
Indices: 15455160--15455222 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
15455150 TCTCGATACT
* * * *
15455160 TGGCTCTTATGAACTTCCCATTATT
1 TGGCTCTTATGAGCATCCCAATATG
* *
15455185 TAGCTCTTATGAGCATCCTAATATG
1 TGGCTCTTATGAGCATCCCAATATG
*
15455210 TGGCTCTCATGAG
1 TGGCTCTTATGAG
15455223 TTTCCTGATT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (25 bp):
TGGCTCTTATGAGCATCCCAATATG
Found at i:15455240 original size:25 final size:24
Alignment explanation
Indices: 15455184--15455279 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
15455174 TTCCCATTAT
* * *
15455184 TTAGCTCTTATGAGCATCCTAATA
1 TTAGCTCTCATGAGCTTCCTGATA
* *
15455208 TGTGGCTCTCATGAGTTTCCTGATTAA
1 T-TAGCTCTCATGAGCTTCCTGA-T-A
* *
15455235 TT-GCTCTCTTAAGCTTCCTGATA
1 TTAGCTCTCATGAGCTTCCTGATA
15455258 TTAGCTCTCATGAGCTTCCTGA
1 TTAGCTCTCATGAGCTTCCTGA
15455280 ATTTGGCTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.05
24 19 0.33
25 32 0.55
26 2 0.03
27 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (24 bp):
TTAGCTCTCATGAGCTTCCTGATA
Found at i:15455381 original size:25 final size:25
Alignment explanation
Indices: 15455309--15455382 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
15455299 TGTGGCTCGT
* *
15455309 ATGAGCTTCCCGATAAT-TGGCTCGC
1 ATGAGCTTCCC-ATTATATGGCTCAC
* * *
15455334 AAGAGCTTCCCATTACATAGCTCAC
1 ATGAGCTTCCCATTATATGGCTCAC
*
15455359 ATGAGCTTCCTATTATATGGCTCA
1 ATGAGCTTCCCATTATATGGCTCA
15455383 AAAGAGCTAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 3 0.08
25 36 0.92
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGGCTCAC
Found at i:15455389 original size:25 final size:25
Alignment explanation
Indices: 15455334--15455390 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15455324 ATTGGCTCGC
*
15455334 AAGAGCTTCCCATTACATAGCTCAC
1 AAGAGCTTCCCATTACATAGCTCAA
* * * *
15455359 ATGAGCTTCCTATTATATGGCTCAA
1 AAGAGCTTCCCATTACATAGCTCAA
15455384 AAGAGCT
1 AAGAGCT
15455391 ACCCGTTGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (25 bp):
AAGAGCTTCCCATTACATAGCTCAA
Found at i:15457408 original size:50 final size:51
Alignment explanation
Indices: 15457346--15457455 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 51
15457336 CCATTTCAAT
* *
15457346 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACCTTTCGTTTC
1 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
* * * *
15457397 CCTTTT-ATAATTTCATGACATAGTTTATTTGAATGCATACATTTCCTTTC
1 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
*
15457447 CTTTTTCAT
1 CCTTTTCAT
15457456 GCTTATTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 43 0.84
51 8 0.16
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (51 bp):
CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
Found at i:15469918 original size:17 final size:17
Alignment explanation
Indices: 15469896--15469931 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15469886 AAAGATAGAT
15469896 TTTTAGTCTAAATATTA
1 TTTTAGTCTAAATATTA
* *
15469913 TTTTAGTTTAAATTTTA
1 TTTTAGTCTAAATATTA
15469930 TT
1 TT
15469932 ATTTGTGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAGTCTAAATATTA
Found at i:15469985 original size:18 final size:18
Alignment explanation
Indices: 15469962--15470003 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
15469952 TTTATTTTGA
*
15469962 TTTAAATCTTAATATTAT
1 TTTAAATCTTAATATTAG
15469980 TTTAAATCTTAATATTAG
1 TTTAAATCTTAATATTAG
15469998 TTTAAA
1 TTTAAA
15470004 GTAGTTGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAAATCTTAATATTAG
Found at i:15477195 original size:21 final size:21
Alignment explanation
Indices: 15477171--15477223 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15477161 CATTGTTTCT
*
15477171 AATCTCACCGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* * *
15477192 AATCTCACAGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
15477213 AATCTCACCGC
1 AATCTCACCGC
15477224 CACCGCTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.38, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:15477612 original size:16 final size:16
Alignment explanation
Indices: 15477593--15477628 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15477583 TTTTCACTCC
* *
15477593 CTCCCTCCCTCCTTCA
1 CTCCCTCACACCTTCA
15477609 CTCCCTCACACCTTCA
1 CTCCCTCACACCTTCA
15477625 CTCC
1 CTCC
15477629 ACAAAACGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.61, G:0.00, T:0.28
Consensus pattern (16 bp):
CTCCCTCACACCTTCA
Found at i:15483257 original size:24 final size:24
Alignment explanation
Indices: 15483230--15483277 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15483220 CTTTACGATT
15483230 CTACTTAACCAGCCTCTATTCTAA
1 CTACTTAACCAGCCTCTATTCTAA
15483254 CTACTTAACCAGCCTCTATTCTAA
1 CTACTTAACCAGCCTCTATTCTAA
15483278 GGCATGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.04, T:0.33
Consensus pattern (24 bp):
CTACTTAACCAGCCTCTATTCTAA
Found at i:15486164 original size:3 final size:3
Alignment explanation
Indices: 15486158--15486197 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
15486148 CTATTATTAT
*
15486158 TAC TAC TAC TAC TAC TAC TAC TGC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
15486198 TATTTGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:15491764 original size:35 final size:35
Alignment explanation
Indices: 15491725--15491792 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
15491715 TACCTCAAAG
* * *
15491725 CCTTTTTAGTTGAACTTCTTATCATGAATATTTTA
1 CCTTTCTAATTGAACTCCTTATCATGAATATTTTA
*
15491760 CCTTTCTAATTGAACTCCTTATCTTGAATATTT
1 CCTTTCTAATTGAACTCCTTATCATGAATATTT
15491793 CGGAATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (35 bp):
CCTTTCTAATTGAACTCCTTATCATGAATATTTTA
Found at i:15492626 original size:121 final size:121
Alignment explanation
Indices: 15492412--15492657 Score: 474
Period size: 121 Copynumber: 2.0 Consensus size: 121
15492402 ACCTTTCATA
*
15492412 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCTCTTTTAGAAATACA
1 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
*
15492477 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTTATTCAATTTCATCACAAG
66 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
15492533 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
1 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
15492598 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
66 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
15492654 ACTA
1 ACTA
15492658 ACCAAATCAA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 123 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (121 bp):
ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
Found at i:15494284 original size:193 final size:193
Alignment explanation
Indices: 15493955--15494340 Score: 772
Period size: 193 Copynumber: 2.0 Consensus size: 193
15493945 AAACTTGGTC
15493955 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
1 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
15494020 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
66 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
15494085 TTTGATTGTTGTGATTGAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
131 TTTGATTGTTGTGATTGAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
15494148 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
1 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
15494213 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
66 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
15494278 TTTGATTGTTGTGATTGAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
131 TTTGATTGTTGTGATTGAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
15494341 TCTAAGTTTA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (193 bp):
ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
TTTGATTGTTGTGATTGAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
Found at i:15495016 original size:35 final size:35
Alignment explanation
Indices: 15494977--15495084 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
15494967 ATATGATAAA
15494977 TATAAAGCTATACCAATGCTTCAAGATTTATCAAC
1 TATAAAGCTATACCAATGCTTCAAGATTTATCAAC
* ** * *
15495012 TATAAA-C--CACCAA--C-TCAACTTTATATGATAAA
1 TATAAAGCTATACCAATGCTTCAAGATT-TAT--CAAC
15495044 TATAAAGCTATACCAATGCTTCAAGATTTATCAAC
1 TATAAAGCTATACCAATGCTTCAAGATTTATCAAC
15495079 TATAAA
1 TATAAA
15495085 CCACCAACTC
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
29 6 0.11
30 4 0.07
32 13 0.24
33 1 0.02
34 1 0.02
35 19 0.35
37 4 0.07
38 6 0.11
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (35 bp):
TATAAAGCTATACCAATGCTTCAAGATTTATCAAC
Found at i:15495069 original size:67 final size:67
Alignment explanation
Indices: 15494961--15495095 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
15494951 TTCAATAATA
15494961 AACTTTATATGATAAATATAAAGCTATACCAATGCTTCAAGATTTATCAACTATAAACCACCAAC
1 AACTTTATATGATAAATATAAAGCTATACCAATGCTTCAAGATTTATCAACTATAAACCACCAAC
15495026 TC
66 TC
15495028 AACTTTATATGATAAATATAAAGCTATACCAATGCTTCAAGATTTATCAACTATAAACCACCAAC
1 AACTTTATATGATAAATATAAAGCTATACCAATGCTTCAAGATTTATCAACTATAAACCACCAAC
15495093 TC
66 TC
15495095 A
1 A
15495096 TAAATGAGTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.30
Consensus pattern (67 bp):
AACTTTATATGATAAATATAAAGCTATACCAATGCTTCAAGATTTATCAACTATAAACCACCAAC
TC
Found at i:15495289 original size:21 final size:21
Alignment explanation
Indices: 15495265--15495304 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15495255 TATATTTATT
*
15495265 CATAACATAGGTAAGTTCAAC
1 CATAACATACGTAAGTTCAAC
*
15495286 CATAACATACGTAATTTCA
1 CATAACATACGTAAGTTCA
15495305 CAAATATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
CATAACATACGTAAGTTCAAC
Found at i:15509179 original size:18 final size:18
Alignment explanation
Indices: 15509125--15509172 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
15509115 AGTTGACTCG
15509125 AATAACTTGATTAATTTA
1 AATAACTTGATTAATTTA
15509143 AATAACTTGATTAATTTA
1 AATAACTTGATTAATTTA
15509161 AATAACTTGATT
1 AATAACTTGATT
15509173 CGTTTAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
AATAACTTGATTAATTTA
Found at i:15517892 original size:16 final size:16
Alignment explanation
Indices: 15517871--15517912 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15517861 TTATTAAATT
*
15517871 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15517887 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15517902 AT-TATGTTTAA
1 ATATAT-TTTAA
15517913 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15517897 original size:15 final size:15
Alignment explanation
Indices: 15517862--15517903 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15517852 TTAAGAATTT
*
15517862 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15517876 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15517890 TATTTAATAATAAT
1 TATTTAATTATAAT
15517904 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15518147 original size:16 final size:16
Alignment explanation
Indices: 15518126--15518195 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
15518116 TTGATTTGCT
*
15518126 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
15518142 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
15518158 ATTACTCCTCTAATCC
1 ATTACACCTCTAATCC
*
15518174 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
15518190 AATACA
1 ATTACA
15518196 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:15518850 original size:25 final size:28
Alignment explanation
Indices: 15518819--15518881 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 28
15518809 TTATAAAATA
15518819 TATTTTAAATTTA-AATTTTAT-TTATT
1 TATTTTAAATTTAGAATTTTATATTATT
* *
15518845 TA-TTT--ATTGAGAATTTTTTATTATT
1 TATTTTAAATTTAGAATTTTATATTATT
15518870 TATTTTAAATTT
1 TATTTTAAATTT
15518882 GTTGAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
23 4 0.14
24 7 0.24
25 10 0.34
26 5 0.17
28 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (28 bp):
TATTTTAAATTTAGAATTTTATATTATT
Found at i:15518880 original size:21 final size:22
Alignment explanation
Indices: 15518827--15518881 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
15518817 TATATTTTAA
15518827 ATTTAAATTTTATTTATTTATTT
1 ATTTAAA-TTTATTTATTTATTT
*
15518850 ATTGAGAATTT-TTTA-TTATTT
1 ATTTA-AATTTATTTATTTATTT
15518871 ATTTTAAATTT
1 A-TTTAAATTT
15518882 GTTGAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 12 0.43
22 7 0.25
23 7 0.25
24 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTAAATTTATTTATTTATTT
Done.