Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 155 of 325
Found at i:47395732 original size:79 final size:77
Alignment explanation
Indices: 47395560--47395743 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 77
47395550 GTGCTAAGTG
* * *
47395560 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGACTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCAAAGG
*
47395625 CATTGGTGCGAGTT
64 CATTGGAGCGAGTT
* * *
47395639 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGACTAAG-CCCAAA
* *
47395703 GGCATTTGAGTGAG-T
62 GGCATTGGAGCGAGTT
*
47395718 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
47395744 TATGTGATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCAAAGGCA
TTGGAGCGAGTT
Found at i:47396351 original size:16 final size:16
Alignment explanation
Indices: 47396330--47396363 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47396320 ATGGAAATGT
47396330 TGGTAACGGTTAGTCA
1 TGGTAACGGTTAGTCA
* *
47396346 TGGTAATGGTTATTCA
1 TGGTAACGGTTAGTCA
47396362 TG
1 TG
47396364 ATCACTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (16 bp):
TGGTAACGGTTAGTCA
Found at i:47400833 original size:79 final size:81
Alignment explanation
Indices: 47400732--47400916 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
47400722 ACGACTCGCT
** * *
47400732 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
47400795 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
47400812 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
47400876 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
47400892 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47400917 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:47400916 original size:40 final size:39
Alignment explanation
Indices: 47400725--47400916 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
47400715 GGATATAACG
* ** * *
47400725 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47400765 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
47400805 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47400844 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
47400884 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
47400917 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:47406926 original size:40 final size:40
Alignment explanation
Indices: 47406776--47406969 Score: 207
Period size: 40 Copynumber: 4.8 Consensus size: 40
47406766 TTCGAATGAT
* * * * *
47406776 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGAGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
47406817 ATCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGAG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
47406857 TTCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
47406896 ATCCTAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
47406937 A-CCGGGCTATGTCTCGAAGGCATTTGAGCGAGT
1 ATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGT
47406970 AGCTATATCC
Statistics
Matches: 131, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.26
40 68 0.52
41 28 0.21
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:47406985 original size:79 final size:78
Alignment explanation
Indices: 47406778--47406995 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 78
47406768 CGAATGATAT
* * *
47406778 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
47406842 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * * *
47406859 CCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCTAGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
47406922 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* * * *
47406938 CCGGGCTATGTCTCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
47406996 TATGTGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
78 3 0.03
79 57 0.50
80 44 0.39
81 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:47419353 original size:21 final size:21
Alignment explanation
Indices: 47419329--47419370 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47419319 GCATAGACAT
*
47419329 GTGTGACCTGCCCATACGGGC
1 GTGTGACCTGCCCACACGGGC
47419350 GTGTGACCTGCCCACACGGGC
1 GTGTGACCTGCCCACACGGGC
47419371 ATCTGACCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.36, G:0.33, T:0.17
Consensus pattern (21 bp):
GTGTGACCTGCCCACACGGGC
Found at i:47419377 original size:21 final size:21
Alignment explanation
Indices: 47419332--47419378 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
47419322 TAGACATGTG
* * *
47419332 TGACCTGCCCATACGGGCGTG
1 TGACCTGCCCACACGGGCATC
47419353 TGACCTGCCCACACGGGCATC
1 TGACCTGCCCACACGGGCATC
47419374 TGACC
1 TGACC
47419379 CCTGTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (21 bp):
TGACCTGCCCACACGGGCATC
Found at i:47420095 original size:29 final size:29
Alignment explanation
Indices: 47420045--47420239 Score: 189
Period size: 29 Copynumber: 6.7 Consensus size: 29
47420035 TTTTTTTTTT
* * *
47420045 ACAGAGATGGCCACAAAAGCTTCCTTTTA
1 ACAGAGATCGCCACAAAGGCTTCCATTTA
* *
47420074 ACAGAGATCGTCACCAAGGCTTCCATTTA
1 ACAGAGATCGCCACAAAGGCTTCCATTTA
* *
47420103 ACAAAGATCGCCACAAAGACTTCCATTTA
1 ACAGAGATCGCCACAAAGGCTTCCATTTA
* * *
47420132 ATAAAGATCACCACAAAGGCTTCCATTTA
1 ACAGAGATCGCCACAAAGGCTTCCATTTA
*
47420161 ATAGAGATCGCCACAAAGGCTT-CATTTTA
1 ACAGAGATCGCCACAAAGGCTTCCA-TTTA
* * * *
47420190 GCA-ATGATCACTACAAAGGTTTCC-TTATA
1 ACAGA-GATCGCCACAAAGGCTTCCATT-TA
* *
47420219 ATAGAGATAGCCACAAAGGCT
1 ACAGAGATCGCCACAAAGGCT
47420240 CACTTATACA
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
28 5 0.04
29 129 0.95
30 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (29 bp):
ACAGAGATCGCCACAAAGGCTTCCATTTA
Found at i:47420206 original size:87 final size:87
Alignment explanation
Indices: 47420049--47420239 Score: 217
Period size: 87 Copynumber: 2.2 Consensus size: 87
47420039 TTTTTTACAG
* * * * * *
47420049 AGATGGCCACAAAAGCTTCCTTTTAACAGAGATCGTCACCAAGGCTTCCATTTAACAAAGATCGC
1 AGATAGCCACAAAGGCTTCCATTTAACAGAGATCGCCACAAAGGCTTCCATTTAACAAAGATCAC
47420114 CACAAAGACTTCCATT-TAATAA
66 CACAAAGACTTCC-TTATAATAA
* * *
47420136 AGATCA-CCACAAAGGCTTCCATTTAATAGAGATCGCCACAAAGGCTT-CATTTTAGCAATGATC
1 AGAT-AGCCACAAAGGCTTCCATTTAACAGAGATCGCCACAAAGGCTTCCA-TTTAACAAAGATC
* ** *
47420199 ACTACAAAGGTTTCCTTATAATAG
64 ACCACAAAGACTTCCTTATAATAA
47420223 AGATAGCCACAAAGGCT
1 AGATAGCCACAAAGGCT
47420240 CACTTATACA
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
86 5 0.06
87 82 0.94
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (87 bp):
AGATAGCCACAAAGGCTTCCATTTAACAGAGATCGCCACAAAGGCTTCCATTTAACAAAGATCAC
CACAAAGACTTCCTTATAATAA
Found at i:47422248 original size:5 final size:6
Alignment explanation
Indices: 47422231--47422255 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47422221 AGAAACAACC
47422231 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
47422256 CATAGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:47422321 original size:26 final size:23
Alignment explanation
Indices: 47422292--47422344 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 23
47422282 TAAGTCTAAG
*
47422292 AAAATAAATATAAAGCAACTAAAATA
1 AAAATAAAAATAAAG---CTAAAATA
47422318 AAAATAAAAATAAAGCTAAAATA
1 AAAATAAAAATAAAGCTAAAATA
47422341 AAAA
1 AAAA
47422345 AAGAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 12 0.46
26 14 0.54
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATAAAAATAAAGCTAAAATA
Found at i:47422346 original size:26 final size:25
Alignment explanation
Indices: 47422292--47422374 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 25
47422282 TAAGTCTAAG
* *
47422292 AAAATAAATATAAAGCAACTAAAATA
1 AAAATAAAAATAAAGCAAC-AAAAAA
*
47422318 AAAATAAAAATAAAGCTAA-AATAAA
1 AAAATAAAAATAAAGC-AACAAAAAA
*
47422343 AAAAGAAAAA-AAAG-AA-AAAGAAA
1 AAAATAAAAATAAAGCAACAAA-AAA
47422366 AGAAATAAA
1 A-AAATAAA
47422375 CTCAATGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.08
23 4 0.08
24 10 0.21
25 13 0.27
26 15 0.31
27 2 0.04
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.12
Consensus pattern (25 bp):
AAAATAAAAATAAAGCAACAAAAAA
Found at i:47422361 original size:23 final size:23
Alignment explanation
Indices: 47422312--47422366 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
47422302 TAAAGCAACT
* * *
47422312 AAAATAAAAATAAAAATAAAGCT
1 AAAATAAAAAAAAAAAAAAAGCA
47422335 AAAATAAAAAAAGAAAAAAAAG-A
1 AAAATAAAAAAA-AAAAAAAAGCA
*
47422358 AAAAGAAAA
1 AAAATAAAA
47422367 GAAATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAATAAAAAAAAAAAAAAAGCA
Found at i:47422505 original size:17 final size:19
Alignment explanation
Indices: 47422485--47422548 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
47422475 TAAGCATAAG
47422485 AAAAATAAAACAA-AGA-A
1 AAAAATAAAACAACAGATA
* *
47422502 AAAAATAATATAACAGATA
1 AAAAATAAAACAACAGATA
* * *
47422521 AAAAATAATATAACAAATA
1 AAAAATAAAACAACAGATA
*
47422540 ATAAATAAA
1 AAAAATAAA
47422549 TAAATAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.28
18 3 0.08
19 26 0.65
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAATAAAACAACAGATA
Found at i:47422525 original size:19 final size:19
Alignment explanation
Indices: 47422501--47422571 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
47422491 AAAACAAAGA
*
47422501 AAAAAATAATATAACAGAT
1 AAAAAATAATATAACAAAT
47422520 AAAAAATAATATAACAAAT
1 AAAAAATAATATAACAAAT
* *
47422539 AATAAATAA-ATAAATAAAT
1 AAAAAATAATAT-AACAAAT
* *
47422558 AATAAATAAAATAA
1 AAAAAATAATATAA
47422572 AAAAGGGTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
18 2 0.04
19 43 0.91
20 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (19 bp):
AAAAAATAATATAACAAAT
Found at i:47422548 original size:4 final size:4
Alignment explanation
Indices: 47422518--47422572 Score: 55
Period size: 4 Copynumber: 14.2 Consensus size: 4
47422508 AATATAACAG
*
47422518 ATAA A-AA AT-A ATATA ACAA AT-A ATAA ATAA ATAA ATAA AT-A ATAA
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
47422563 ATAAA ATAA A
1 AT-AA ATAA A
47422573 AAAGGGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 12 0.28
4 24 0.56
5 7 0.16
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:47422570 original size:31 final size:31
Alignment explanation
Indices: 47422501--47422571 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
47422491 AAAACAAAGA
*
47422501 AAAAAATAATATAACAGATAAAAAATAATAT
1 AAAAAATAATATAACAAATAAAAAATAATAT
* *
47422532 AACAAATAATA-AATAAATAAATAAATAATA-
1 AAAAAATAATATAACAAATAAA-AAATAATAT
47422562 AATAAAATAA
1 AA-AAAATAA
47422572 AAAAGGGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (31 bp):
AAAAAATAATATAACAAATAAAAAATAATAT
Found at i:47429073 original size:24 final size:22
Alignment explanation
Indices: 47429033--47429080 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
47429023 ATTCCCTTTA
47429033 GATGTGGTTTGTGATTGTGTATAT
1 GATGTGGTTTGTGATTG-GT-TAT
*
47429057 GATG-GGTTATGTTATTGGTTAT
1 GATGTGGTT-TGTGATTGGTTAT
47429079 GA
1 GA
47429081 ATGCTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 11 0.50
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
GATGTGGTTTGTGATTGGTTAT
Found at i:47432891 original size:46 final size:46
Alignment explanation
Indices: 47432660--47432887 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
47432650 AGTTAAATAT
47432660 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
47432706 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
47432752 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
47432798 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
47432844 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
47432888 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:47432945 original size:47 final size:47
Alignment explanation
Indices: 47432891--47433001 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
47432881 ATGTATGAGA
* * *
47432891 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
47432938 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
47432985 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
47433002 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:47435615 original size:40 final size:40
Alignment explanation
Indices: 47435560--47435823 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
47435550 CTCGACGATG
*
47435560 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
*
47435600 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
47435640 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
47435680 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
47435720 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
47435760 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
47435800 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
47435824 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:47436551 original size:40 final size:40
Alignment explanation
Indices: 47436487--47436587 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
47436477 AATGGTATCT
* ** * *
47436487 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
*
47436527 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
*
47436567 GGGCT-ATGTCCCGAAGACAAT
1 GGGCTAAT-TCCCGAAGGCAAT
47436588 CGAGTGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 48 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
Found at i:47436603 original size:40 final size:40
Alignment explanation
Indices: 47436525--47436621 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
47436515 GTTACTAAAT
* * *
47436525 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
* * *
47436565 CCGGGCT-ATGTCCCGAAGACAATCGAGTGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGTGAATCACTATAA
* *
47436605 CC-GGTTAAATCCCGAAG
1 CCGGGCTAATTCCCGAAG
47436622 GTACGTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
Found at i:47439520 original size:46 final size:46
Alignment explanation
Indices: 47439289--47439516 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
47439279 AGTTAAATAT
47439289 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
47439335 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
47439381 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
47439427 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
47439473 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
47439517 AGATGTATAT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:47439574 original size:47 final size:47
Alignment explanation
Indices: 47439520--47439630 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
47439510 ATGTATGAGA
* * *
47439520 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
47439567 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
47439614 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
47439631 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:47444411 original size:47 final size:46
Alignment explanation
Indices: 47444259--47444435 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 46
47444249 TGTAACCCGC
* * *
47444259 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTCACAT
*
47444305 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCACAT
* *
47444355 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-CACAT
47444399 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47444436 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 6 0.05
45 1 0.01
46 36 0.32
47 56 0.50
48 2 0.02
49 2 0.02
50 5 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:47444427 original size:94 final size:93
Alignment explanation
Indices: 47444267--47444438 Score: 283
Period size: 94 Copynumber: 1.8 Consensus size: 93
47444257 GCCCATAAGT
* *
47444267 GAACTCGGACTCAACTCAACGAGCTCGGCTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGCTGTCCACATCCATAAGTGAACTCGGACTCAACTCAA
47444332 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
*
47444360 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TCCACATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGG-C-TGTCCACATCCATAAGTGAACTCGGACTCAACTC
*
47444424 AACGAGTTCGGATGC
64 AACGAGTTCAGATGC
47444439 TCAACCATTC
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
93 27 0.37
94 45 0.62
95 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCTGTCCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:47462001 original size:40 final size:38
Alignment explanation
Indices: 47461965--47462071 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 38
47461955 ATATCCGGAC
*
47461965 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCC-GGT
* * * *
47462005 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCAGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCC-GGT
*
47462044 TAAGTCCCGAAGGCATCCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
47462072 CTATAACCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (38 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGT
Found at i:47462072 original size:40 final size:40
Alignment explanation
Indices: 47461971--47462100 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
47461961 GGACTAAGAT
* * *
47461971 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
47462010 CCGAAGGCATTTGTGCGAGTTACTAAACCCAGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* * *
47462050 CCGAAGGCATCCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
47462090 CCGAAGGCATT
1 CCGAAGGCATT
47462101 TGAGCTAGTC
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.42
40 37 0.47
41 8 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:47465765 original size:40 final size:40
Alignment explanation
Indices: 47465714--47465938 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
47465704 CTAACGGGGT
* * * * *
47465714 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
47465754 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
47465794 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
47465834 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
47465874 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
47465914 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
47465939 GGTTATATCC
Statistics
Matches: 168, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.07
40 157 0.93
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:47469015 original size:40 final size:40
Alignment explanation
Indices: 47468888--47469017 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
47468878 ATGCTGGAAA
* * * * *
47468888 TTATATCCGAGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
47468928 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
47468968 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
47469008 TTATATCCGG
1 TTATATCCGG
47469018 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:47475052 original size:13 final size:13
Alignment explanation
Indices: 47475034--47475058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47475024 AACGAAGATA
47475034 GACACGGCCGTGC
1 GACACGGCCGTGC
47475047 GACACGGCCGTG
1 GACACGGCCGTG
47475059 TGCACCCAAA
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:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:47488717 original size:23 final size:23
Alignment explanation
Indices: 47488691--47488736 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47488681 TGTCTAAGAG
47488691 TAAATTGGTCATAATTAAGCGGA
1 TAAATTGGTCATAATTAAGCGGA
*
47488714 TAAATTTGTCATAATTAAGCGGA
1 TAAATTGGTCATAATTAAGCGGA
47488737 GTTGGTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (23 bp):
TAAATTGGTCATAATTAAGCGGA
Found at i:47489977 original size:29 final size:29
Alignment explanation
Indices: 47489946--47490178 Score: 202
Period size: 29 Copynumber: 8.0 Consensus size: 29
47489936 CATAAGGGCA
* *
47489946 TCCTTTTAATAGAGATAGCCACAAAGACA
1 TCCTTTTAATAGAGATAGCCACAAAGGCT
* * *
47489975 TCCATTTAACT-GAGATAGCCACAAAAGCA
1 TCCTTTTAA-TAGAGATAGCCACAAAGGCT
* * *
47490004 TCCTTTTTTATAGAGATGGGCACAAAGGCT
1 TCC-TTTTAATAGAGATAGCCACAAAGGCT
* * * * *
47490034 TCCTTTTAACATAGATTGTCACCAAGGCT
1 TCCTTTTAATAGAGATAGCCACAAAGGCT
* *
47490063 TCCATTTAATAGAGATTGCCACAAAGGCT
1 TCCTTTTAATAGAGATAGCCACAAAGGCT
* * *
47490092 TCCATTTAATAGAGATCGCCATAAAGGCT
1 TCCTTTTAATAGAGATAGCCACAAAGGCT
* *
47490121 TCCTTTTAACA-ATGATCA-CCATAAAGGCT
1 TCCTTTTAATAGA-GAT-AGCCACAAAGGCT
* * *
47490150 TCCTTATAATAGAAATAGCTACAAAGGCT
1 TCCTTTTAATAGAGATAGCCACAAAGGCT
47490179 GACTTATACA
Statistics
Matches: 167, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.01
29 142 0.85
30 23 0.14
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
TCCTTTTAATAGAGATAGCCACAAAGGCT
Found at i:47490148 original size:87 final size:88
Alignment explanation
Indices: 47489946--47490178 Score: 224
Period size: 87 Copynumber: 2.7 Consensus size: 88
47489936 CATAAGGGCA
* * * * * * *
47489946 TCCTTTTAATAGAGAT-AGCCACAAAGACATCCATTTAACT-GAGATAGCCACAAAAGCATCCTT
1 TCCTTTTAACATAGATCA-CCACAAAGGCTTCCATTTAA-TAGAGATAGCCACAAAGGCTTCCTA
* * *
47490009 TTTTATAGAGATGGGCACAAAGGCT
64 TTTAATAGAGATCGCCACAAAGGCT
*** * *
47490034 TCCTTTTAACATAGATTGTCACCAAGGCTTCCATTTAATAGAGATTGCCACAAAGGCTTCC-ATT
1 TCCTTTTAACATAGATCACCACAAAGGCTTCCATTTAATAGAGATAGCCACAAAGGCTTCCTATT
*
47490098 TAATAGAGATCGCCATAAAGGCT
66 TAATAGAGATCGCCACAAAGGCT
* * *
47490121 TCCTTTTAACA-ATGATCACCATAAAGGCTTCC-TTATAATAGAAATAGCTACAAAGGCT
1 TCCTTTTAACATA-GATCACCACAAAGGCTTCCATT-TAATAGAGATAGCCACAAAGGCT
47490179 GACTTATACA
Statistics
Matches: 118, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
86 3 0.03
87 67 0.57
88 48 0.41
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (88 bp):
TCCTTTTAACATAGATCACCACAAAGGCTTCCATTTAATAGAGATAGCCACAAAGGCTTCCTATT
TAATAGAGATCGCCACAAAGGCT
Found at i:47496479 original size:23 final size:24
Alignment explanation
Indices: 47496436--47496491 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
47496426 GAAATTAAAT
*
47496436 TATAATTTTTACAATAATAAA-AA
1 TATAATTTTTACAAGAATAAATAA
*
47496459 TATAATTTTTA-AAGGATTAAATAA
1 TATAATTTTTACAA-GAATAAATAA
47496483 -A-AATTTTTA
1 TATAATTTTTA
47496492 TCATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 10 0.34
23 17 0.59
24 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
TATAATTTTTACAAGAATAAATAA
Found at i:47497793 original size:2 final size:2
Alignment explanation
Indices: 47497786--47497813 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47497776 CATATTTATT
47497786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47497814 CAAATGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47501616 original size:28 final size:28
Alignment explanation
Indices: 47501547--47501610 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
47501537 AATGAGATTG
47501547 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
47501575 GCACTAAGTGTGCGAGTTTGATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAATTGTAT-A
47501603 GCACTAAG
1 GCACTAAG
47501611 ATTGCGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:47508829 original size:2 final size:2
Alignment explanation
Indices: 47508822--47508847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47508812 CACATTCGGC
47508822 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
47508848 AATGTATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47509429 original size:28 final size:28
Alignment explanation
Indices: 47509397--47509464 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
47509387 AATGAGATTG
47509397 GCACTAAGTGTGCGAGTTTAATTGCA-T-A
1 GCACTAAGTGTGCGAGTTTAATT--ATTAA
*
47509425 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
47509453 GCACTAAGTGTG
1 GCACTAAGTGTG
47509465 TGGACTTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 35 0.95
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:47510437 original size:28 final size:28
Alignment explanation
Indices: 47510405--47510488 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
47510395 AACTGTGATC
47510405 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
47510433 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
47510455 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
47510483 ACGTGT
1 ACGTGT
47510489 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:47510468 original size:50 final size:49
Alignment explanation
Indices: 47510357--47510545 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
47510347 TGAGGTCGCA
* * * * * *
47510357 TGTGTAGTACAAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
47510408 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
47510458 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
47510507 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47510546 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 42 0.35
50 45 0.38
51 32 0.27
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:47513526 original size:15 final size:15
Alignment explanation
Indices: 47513503--47513559 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
47513493 TATCGTATCT
47513503 TGGGTTTCTTTACTC
1 TGGGTTTCTTTACTC
* *
47513518 TGGGCTTCTTTATTC
1 TGGGTTTCTTTACTC
*
47513533 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTACTC
*
47513547 TTGGATTTCTTTA
1 -TGGGTTTCTTTA
47513560 TTCAGTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 2 0.06
15 33 0.94
ACGTcount: A:0.09, C:0.18, G:0.19, T:0.54
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:47515820 original size:50 final size:49
Alignment explanation
Indices: 47515699--47515887 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
47515689 TGAGGTCGCA
* * * * *
47515699 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
47515750 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
47515800 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
47515849 TGTGTAGTACTATGTACAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47515888 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 40 0.34
50 44 0.38
51 33 0.28
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:47520881 original size:20 final size:20
Alignment explanation
Indices: 47520858--47520897 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47520848 CTTATATTTA
*
47520858 ATTTAAA-ATTATTATAAAAT
1 ATTTAAATAATATT-TAAAAT
47520878 ATTTAAATAATATTTAAAAT
1 ATTTAAATAATATTTAAAAT
47520898 GCTTAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAATAATATTTAAAAT
Found at i:47525610 original size:27 final size:27
Alignment explanation
Indices: 47525572--47525627 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
47525562 TGCATGAATA
47525572 CTACAACTAAAGCTTAAAATAAACTAC
1 CTACAACTAAAGCTTAAAATAAACTAC
47525599 CTACAACTAAAGCTTAAAATAAACTAC
1 CTACAACTAAAGCTTAAAATAAACTAC
47525626 CT
1 CT
47525628 CAGTTATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.23, G:0.04, T:0.23
Consensus pattern (27 bp):
CTACAACTAAAGCTTAAAATAAACTAC
Found at i:47530248 original size:40 final size:40
Alignment explanation
Indices: 47530140--47530349 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
47530130 CGGGATTTAA
* * * * *
47530140 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * * *
47530180 CTGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47530220 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47530260 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47530300 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
47530340 CCGAATATAT
1 CCGGATATAT
47530350 TTCCAATGTT
Statistics
Matches: 150, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 149 0.99
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:47533735 original size:28 final size:28
Alignment explanation
Indices: 47533703--47533801 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
47533693 GCCATAAGCC
*
47533703 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
47533731 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
47533759 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
47533788 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47533802 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:47541400 original size:28 final size:28
Alignment explanation
Indices: 47541368--47541466 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
47541358 GCAATAAGCC
*
47541368 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
47541396 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
47541424 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
47541453 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47541467 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:47544049 original size:80 final size:80
Alignment explanation
Indices: 47543965--47544113 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47543955 TATGGTAACC
* * * *
47543965 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47544029 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47544045 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47544110 CCGG
66 CCGG
47544114 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47544055 original size:40 final size:38
Alignment explanation
Indices: 47544006--47544113 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47543996 ATCACGATTT
*
47544006 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47544046 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47544086 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47544114 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47552060 original size:80 final size:80
Alignment explanation
Indices: 47551976--47552124 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47551966 TATGGTAACC
* * * *
47551976 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47552040 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47552056 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47552121 CCGG
66 CCGG
47552125 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47552066 original size:40 final size:38
Alignment explanation
Indices: 47552017--47552124 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47552007 ATCACGATTT
*
47552017 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47552057 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47552097 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47552125 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47556276 original size:30 final size:29
Alignment explanation
Indices: 47556231--47556308 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
47556221 CATAGTATCG
*
47556231 TATCTTTGG-TTTCTTTATCCTGGATCTCTT
1 TATC-TTGGATTTCTTTATCC-GGATCTCTC
* *
47556261 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTA-TCCGGATCTCTC
47556291 TATCTTGGATTTCTTTAT
1 TATCTTGGATTTCTTTAT
47556309 TCGGTTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
28 1 0.02
29 4 0.10
30 32 0.78
31 4 0.10
ACGTcount: A:0.12, C:0.18, G:0.14, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATCCGGATCTCTC
Found at i:47556279 original size:15 final size:15
Alignment explanation
Indices: 47556240--47556319 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
47556230 GTATCTTTGG
*
47556240 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
47556255 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
47556270 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
47556285 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
47556300 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
47556314 TTTCTT
1 TTTCTT
47556320 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:47559329 original size:40 final size:39
Alignment explanation
Indices: 47559252--47559434 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
47559242 CGAATGATGA
* * *
47559252 CCGGGCTAAGTCCCGAAGGC-TGTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAAT
* *
47559292 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
47559332 CCGGGCTAAGCCCGAAGGCA-TGGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
*
47559370 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
47559410 CCGGGCTATGTCCCGCAGGCATTTG
1 CCGGGCTAAGT-CCGAAGGCATTTG
47559435 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 24 0.20
39 18 0.15
40 70 0.58
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:47559386 original size:78 final size:80
Alignment explanation
Indices: 47559252--47559429 Score: 222
Period size: 78 Copynumber: 2.2 Consensus size: 80
47559242 CGAATGATGA
47559252 CCGGGCTAAGTCCCGAAGGCTGTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTGTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
47559317 TGCGAGTTACTAATT
66 TGCGAGTTACTAATT
* * * **
47559332 CCGGGCTAAG-CCCGAAGGCATG-GTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TGTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
*
47559393 TGTGCGAGTTACT-ATAA
64 TGTGCGAGTTACTAAT-T
* *
47559410 CCGGGCTATGTCCCGCAGGC
1 CCGGGCTAAGTCCCGAAGGC
47559430 ATTTGAACGA
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
77 3 0.03
78 50 0.58
79 21 0.24
80 12 0.14
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCTGTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAATT
Found at i:47562128 original size:46 final size:46
Alignment explanation
Indices: 47562075--47562246 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
47562065 TTGGGCATCT
*
47562075 GAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
* * * *
47562121 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCGTCC
* * * *
47562168 GAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
* * *
47562214 G-AGTCGTTGAGTTGAGTCCGAGTCCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47562247 GCAGGTTACA
Statistics
Matches: 101, Mismatches: 18, Indels: 15
0.75 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
45 29 0.29
46 31 0.31
47 31 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
Found at i:47568969 original size:2 final size:2
Alignment explanation
Indices: 47568962--47568998 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
47568952 ACATTCGGCC
47568962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47568999 AATGTATGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47576089 original size:46 final size:46
Alignment explanation
Indices: 47576036--47576131 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
47576026 TAGAGTAGAA
*
47576036 AGATACTTACAGACTTGGTGCCGGGGATTCAGTGTGCCACCTTATC
1 AGATACTTACAGACTTGGTGCCAGGGATTCAGTGTGCCACCTTATC
47576082 AGATACTTACAGACTTGGTGCCAGGGATTCAGTGTGCCACCTTATC
1 AGATACTTACAGACTTGGTGCCAGGGATTCAGTGTGCCACCTTATC
47576128 AGAT
1 AGAT
47576132 TTCAGACAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (46 bp):
AGATACTTACAGACTTGGTGCCAGGGATTCAGTGTGCCACCTTATC
Found at i:47580229 original size:27 final size:27
Alignment explanation
Indices: 47580149--47580249 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
47580139 GGGTATTTTA
* **
47580149 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47580176 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
47580203 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
47580230 GTAATTTTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGG
47580250 CATTTCAGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.97
28 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:47580469 original size:18 final size:18
Alignment explanation
Indices: 47580446--47580486 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
47580436 TGGGCCCGTA
47580446 GGCCCATTGGGCCCACAT
1 GGCCCATTGGGCCCACAT
47580464 GGCCCATTGGGCCCACAT
1 GGCCCATTGGGCCCACAT
47580482 GGCCC
1 GGCCC
47580487 CTTTCGGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (18 bp):
GGCCCATTGGGCCCACAT
Found at i:47581638 original size:29 final size:29
Alignment explanation
Indices: 47581599--47581678 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
47581589 CTTAATAATC
*
47581599 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
47581629 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
47581658 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
47581679 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:47589529 original size:29 final size:29
Alignment explanation
Indices: 47589490--47589569 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
47589480 CTTAATAATC
*
47589490 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
47589520 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
47589549 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
47589570 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:47601325 original size:28 final size:27
Alignment explanation
Indices: 47601262--47601331 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47601252 ATAGTGAGTC
47601262 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47601289 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47601317 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47601332 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47608815 original size:28 final size:27
Alignment explanation
Indices: 47608752--47608821 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47608742 ATAGTGAGTC
47608752 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47608779 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47608807 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47608822 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47622588 original size:93 final size:93
Alignment explanation
Indices: 47622476--47622647 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47622466 CGCCCATAAG
* *
47622476 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47622541 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
47622569 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47622634 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47622648 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47622644 original size:46 final size:46
Alignment explanation
Indices: 47622469--47622644 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47622459 TGTAACCCGC
* * *
47622469 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
47622515 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47622565 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47622608 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47622645 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47630817 original size:71 final size:71
Alignment explanation
Indices: 47630733--47630896 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47630723 CGATTTGTCT
47630733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47630798 CTTTCA
66 CTTTCA
47630804 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
47630869 CTTTCA
66 CTTTCA
47630875 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
47630897 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:47630934 original size:71 final size:70
Alignment explanation
Indices: 47630733--47630930 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
47630723 CGATTTGTCT
* * *
47630733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
47630798 CTTTCA
65 CTTTCA
* * *
47630804 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
47630869 CTTTCA
65 CTTTCA
* *
47630875 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
47630931 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:47653652 original size:23 final size:23
Alignment explanation
Indices: 47653622--47653668 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47653612 TGGATTCATG
47653622 TATGAGAAATGTATGTTGTGCGC
1 TATGAGAAATGTATGTTGTGCGC
47653645 TATGAGAAATGTATGTTGTGCGC
1 TATGAGAAATGTATGTTGTGCGC
47653668 T
1 T
47653669 GTAATTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.36
Consensus pattern (23 bp):
TATGAGAAATGTATGTTGTGCGC
Found at i:47658663 original size:27 final size:29
Alignment explanation
Indices: 47658594--47658664 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
47658584 GTGACGAGAT
*
47658594 TGGCACTAAGCGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47658623 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47658652 TGGCACTATGTGT
1 TGGCACTAAGTGT
47658665 ACGATTTACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47658677 original size:24 final size:24
Alignment explanation
Indices: 47658650--47658788 Score: 233
Period size: 24 Copynumber: 5.8 Consensus size: 24
47658640 GCTGGAAATA
*
47658650 TATGGCACTATGTGTACGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
47658674 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
47658698 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
47658722 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
**
47658746 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
47658770 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
47658789 ACATAATAAG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 112 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:47658802 original size:48 final size:48
Alignment explanation
Indices: 47658653--47658810 Score: 187
Period size: 48 Copynumber: 3.3 Consensus size: 48
47658643 GGAAATATAT
* ** *
47658653 GGCACTATGTGTACGATTTACTATGGCACTATGTGTGCG-ATTTACTA
1 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
* *
47658700 TGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCT-AT-
1 -GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-AC-ATAATA
**
47658749 GGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA
1 GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
*
47658797 AGCACTATGTGTGC
1 GGCACTATGTGTGC
47658811 CACATTCGGT
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 89 0.94
50 1 0.01
51 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (48 bp):
GGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA
Found at i:47658802 original size:72 final size:72
Alignment explanation
Indices: 47658649--47658810 Score: 218
Period size: 72 Copynumber: 2.2 Consensus size: 72
47658639 TGCTGGAAAT
* * * *
47658649 ATATGGCACTATGTGTACGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
**
47658714 CGATTTA
66 CGACATA
* * * *
47658721 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
47658786 CGAACATA
66 CG-ACATA
47658794 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
47658811 CACATTCGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 74 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
CGACATA
Found at i:47661461 original size:48 final size:48
Alignment explanation
Indices: 47661219--47661447 Score: 334
Period size: 48 Copynumber: 4.8 Consensus size: 48
47661209 ACTGTGCTAA
* * * *
47661219 ATGTGCCTA-TGTAAGACCATTTCTGGGACATAGCATCGGCGATTATAT
1 ATGTGCC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* * *
47661267 ATGTGCCAGTATAAGACCATGTCTGGGACATGTCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* *
47661315 ATATGCCAGTGTAAGTCCATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
* *
47661363 ATGTGCCTGTGTAATACCATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
*
47661411 GTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 ATGTGCCAGTGTAAGACCATGTCTAGGACATGGCATC
47661448 AGAAATGATA
Statistics
Matches: 163, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 1 0.01
48 162 0.99
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
Found at i:47661472 original size:48 final size:47
Alignment explanation
Indices: 47661227--47661494 Score: 213
Period size: 48 Copynumber: 5.6 Consensus size: 47
47661217 AAATGTGCCT
* * * * * *
47661227 ATGTAAGACCATTTCTGGGACATAGCATCGGCGATTATATAT-GTGCC
1 ATGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGT-TC
* * * * * *
47661274 AGTATAAGACCATGTCTGGGACATGTCATCGGCGATGATATAT-ATGCC
1 A-TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGT-TC
* * *
47661322 AGTGTAAGTCCATGTCTAGGACATGGCATCGGCGATGATATAT-GTGCC
1 A-TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGT-TC
* * *
47661370 TGTGTAATACCATGTCTAGGACATGGCATCGGCGATGATATGT-GTGCC
1 -ATGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGT-TC
* **
47661418 AGTGTAAGACCATGTCTAGGACATGGCATCAGAAATGATATGTGGATTC
1 A-TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGG-TTC
*
47661467 ATGTAAGACCATGTC-AGAAACATGGCAT
1 ATGTAAGACCATGTCTAG-GACATGGCAT
47661495 TGGTACTTTA
Statistics
Matches: 193, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
47 3 0.02
48 186 0.96
49 3 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (47 bp):
ATGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGTTC
Found at i:47661472 original size:96 final size:96
Alignment explanation
Indices: 47661228--47661494 Score: 279
Period size: 96 Copynumber: 2.8 Consensus size: 96
47661218 AATGTGCCTA
* * * * ** * * * *
47661228 TGTAAGACCATTTCTGGGACATAGCATCGGCGATTATATATGTG-CCAGTATAAGACCATGTCTG
1 TGTAAGACCATGTCTAGGACATGGCATCAGAAATGATATATGTGACTA-TGTAAGACCATGTCTA
*
47661292 GGACATGTCATCGGCGATGATATATATGCCAG
65 GGACATGGCATCGGCGATGATATATATGCCAG
* * ** * * *
47661324 TGTAAGTCCATGTCTAGGACATGGCATCGGCGATGATATATGTGCCTGTGTAATACCATGTCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCAGAAATGATATATGTGACTATGTAAGACCATGTCTAG
* *
47661389 GACATGGCATCGGCGATGATATGTGTGCCAG
66 GACATGGCATCGGCGATGATATATATGCCAG
* *
47661420 TGTAAGACCATGTCTAGGACATGGCATCAGAAATGATATGTG-GATTCATGTAAGACCATGTC-A
1 TGTAAGACCATGTCTAGGACATGGCATCAGAAATGATATATGTGACT-ATGTAAGACCATGTCTA
*
47661483 GAAACATGGCAT
65 G-GACATGGCAT
47661495 TGGTACTTTA
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
95 4 0.03
96 140 0.97
97 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (96 bp):
TGTAAGACCATGTCTAGGACATGGCATCAGAAATGATATATGTGACTATGTAAGACCATGTCTAG
GACATGGCATCGGCGATGATATATATGCCAG
Found at i:47661479 original size:144 final size:144
Alignment explanation
Indices: 47661219--47661494 Score: 351
Period size: 144 Copynumber: 1.9 Consensus size: 144
47661209 ACTGTGCTAA
* * *
47661219 ATGTGCCTATGTAAGACCATTTCTGGGACATAGCATCGGCGATTATATATGTGCCAGTATAAGAC
1 ATGTGCCTATGTAAGACCATGTCTAGGACATAGCATCGGCGATGATATATGTGCCAGTATAAGAC
* * * ** * *
47661284 CATGTCTGGGACATGTCATCGGCGATGATATATATGCCAGTGTAAGTCCATGTCTAG-GACATGG
66 CATGTCTAGGACATGGCATCAGAAATGATATATATGCCAGTGTAAGACCATGTC-AGAAACATGG
47661348 CATCGGCGATGATAT
130 CATCGGCGATGATAT
* * * * *
47661363 ATGTGCCTGTGTAATACCATGTCTAGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGAC
1 ATGTGCCTATGTAAGACCATGTCTAGGACATAGCATCGGCGATGATATATGTGCCAGTATAAGAC
* *
47661428 CATGTCTAGGACATGGCATCAGAAATGATATGTGGAT-TCA-TGTAAGACCATGTCAGAAACATG
66 CATGTCTAGGACATGGCATCAGAAATGATATAT--ATGCCAGTGTAAGACCATGTCAGAAACATG
47661491 GCAT
129 GCAT
47661495 TGGTACTTTA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
143 2 0.02
144 106 0.95
145 2 0.02
146 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (144 bp):
ATGTGCCTATGTAAGACCATGTCTAGGACATAGCATCGGCGATGATATATGTGCCAGTATAAGAC
CATGTCTAGGACATGGCATCAGAAATGATATATATGCCAGTGTAAGACCATGTCAGAAACATGGC
ATCGGCGATGATAT
Found at i:47669078 original size:48 final size:48
Alignment explanation
Indices: 47669007--47669317 Score: 310
Period size: 48 Copynumber: 6.5 Consensus size: 48
47668997 TGTGCCTGTA
* *
47669007 TAAGACCATGTCTGGGACATGGCATCGGTGATTATATATTTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTGCTAGTG
* * * *
47669055 TAAGACCACGTCTAGGAAATGGCATCGGCAATTATATATGTGCCTA-TG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTG-CTAGTG
* * * *
47669103 TAAGACCAAGTTTGGGACATGGCATCGGCGA-T-GATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTGCTAGTG
* * * *
47669149 TAAGACCATGTCCGGGACATGGCATCGGTGATGATATATGTGCTTGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTGCTAGTG
* ** * * * *
47669197 TAAGACCATGTCTGGGACATGGAATTAGCAATGATATGTGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTGCTAGTG
* * * * *
47669245 TAAGACCATTTTTGGGACATGGCATCGGCGATGATATGTG-GATTCA-TG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTG-CT-AGTG
47669293 TAAGACCATGTC-GGGAACATGGCAT
1 TAAGACCATGTCTGGG-ACATGGCAT
47669318 TGTTACTTCA
Statistics
Matches: 216, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
45 3 0.01
46 35 0.16
47 5 0.02
48 169 0.78
49 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATTATATATGTGCTAGTG
Found at i:47669259 original size:142 final size:144
Alignment explanation
Indices: 47669007--47669317 Score: 416
Period size: 142 Copynumber: 2.2 Consensus size: 144
47668997 TGTGCCTGTA
* * *
47669007 TAAGACCATGTCTGGGACATGGCATCGGTGATTATATATTTGCTAGTGTAAGACCACGTCTAGGA
1 TAAGACCATGTCCGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCACGTCTAGGA
* * *
47669072 AATGGCATCGGCAATTATATATGTGCCTATGTAAGACCAAGTTTGGGACATGGCATCGGCGATGA
66 AATGGAATCAGCAATGATATATGTGCCTATGTAAGACCAAGTTTGGGACATGGCATCGGCGATGA
*
47669137 TGTGT-G-CT-AGTG
131 TATGTGGACTCA-TG
* * *
47669149 TAAGACCATGTCCGGGACATGGCATCGGTGATGATATATGTGCTTGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCCGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCACGTCTAGGA
* * * **
47669214 CATGGAATTAGCAATGATATGTGTGCC-AGTGTAAGACCATTTTTGGGACATGGCATCGGCGATG
66 AATGGAATCAGCAATGATATATGTGCCTA-TGTAAGACCAAGTTTGGGACATGGCATCGGCGATG
*
47669278 ATATGTGGATTCATG
130 ATATGTGGACTCATG
47669293 TAAGACCATGT-CGGGAACATGGCAT
1 TAAGACCATGTCCGGG-ACATGGCAT
47669318 TGTTACTTCA
Statistics
Matches: 148, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
141 1 0.01
142 118 0.80
143 5 0.03
144 23 0.16
145 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (144 bp):
TAAGACCATGTCCGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCACGTCTAGGA
AATGGAATCAGCAATGATATATGTGCCTATGTAAGACCAAGTTTGGGACATGGCATCGGCGATGA
TATGTGGACTCATG
Found at i:47676264 original size:27 final size:27
Alignment explanation
Indices: 47676206--47676287 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
47676196 CAGCATGGCT
* * *
47676206 ACCAGAAT-TGATATTGTGACAGAGTC
1 ACCAGAATCAGATATTGTGGCAGAGCC
*
47676232 ATCAG-ATACAGATATTGTGGCAGAGCC
1 ACCAGAAT-CAGATATTGTGGCAGAGCC
* *
47676259 ACCAGAATCAGATAATGTGGCAAAGCC
1 ACCAGAATCAGATATTGTGGCAGAGCC
47676286 AC
1 AC
47676288 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.04
26 4 0.09
27 38 0.83
28 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
ACCAGAATCAGATATTGTGGCAGAGCC
Found at i:47676434 original size:27 final size:27
Alignment explanation
Indices: 47676406--47676770 Score: 433
Period size: 27 Copynumber: 13.5 Consensus size: 27
47676396 GATCGGCGCT
** *
47676406 TACAGGGGTATTTTAGTAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCC
*
47676433 TACAGGGGTATTTCGGTAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCC
* *
47676460 TATAGGGGTATCTCGGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* ** *
47676487 TATAGGGGTATTTTAGTAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCC
*
47676514 TACAGGGGTATTTCGGTAATTCTACCT
1 TACAGGGGTATTTCGGTAATTCTACCC
*
47676541 TACAGGGGTATTTCGGTAGTTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
** *
47676568 TACAGGGGTATTTTAGTATTTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* ** *
47676595 TATAAAGGTATTTCGGTATTTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* * *
47676622 TACAAGGATATTTCGATAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* *
47676649 TACAGGGATATTTCAGTAATTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* *
47676676 TATAGGGGTATTTCGGTATTTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* * *
47676703 TACAAGGGTATTTCGATATTTCTACCC
1 TACAGGGGTATTTCGGTAATTCTACCC
* * *
47676730 TACAAGGGTATTTCAGTAATTCTATCC
1 TACAGGGGTATTTCGGTAATTCTACCC
*
47676757 TACAAGGGTATTTC
1 TACAGGGGTATTTC
47676771 AATAATTTTG
Statistics
Matches: 297, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 297 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAGGGGTATTTCGGTAATTCTACCC
Found at i:47676548 original size:81 final size:81
Alignment explanation
Indices: 47676406--47676770 Score: 487
Period size: 81 Copynumber: 4.5 Consensus size: 81
47676396 GATCGGCGCT
* * * *
47676406 TACAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTAT
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
* *
47676471 CTCGGTAATTCTACCC
66 TTCGATAATTCTACCC
* * * *
47676487 TATAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTAT
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
* *
47676552 TTCGGTAGTTCTACCC
66 TTCGATAATTCTACCC
* * ** * *
47676568 TACAGGGGTATTTTAGTATTTCTACCCTATAAAGGTATTTCGGTATTTCTACCCTACAAGGATAT
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
47676633 TTCGATAATTCTACCC
66 TTCGATAATTCTACCC
* * * *
47676649 TACAGGGATATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTAT
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
*
47676714 TTCGATATTTCTACCC
66 TTCGATAATTCTACCC
* * * *
47676730 TACAAGGGTATTTCAGTAATTCTATCCTACAAGGGTATTTC
1 TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
47676771 AATAATTTTG
Statistics
Matches: 256, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 256 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
TACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
TTCGATAATTCTACCC
Found at i:47676791 original size:27 final size:27
Alignment explanation
Indices: 47676734--47677020 Score: 226
Period size: 27 Copynumber: 10.7 Consensus size: 27
47676724 CTACCCTACA
* ** *
47676734 AGGGTATTTCAGTAATTCTATCCTA-CA
1 AGGGTATTTCAGTAATTTTA-CAAATCG
* **
47676761 AGGGTATTTCAATAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * **
47676788 AGGGTAAAATGA-TAATTTTGTAAATCG
1 AGGGT-ATTTCAGTAATTTTACAAATCG
* * * *
47676815 GGGGTACATT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
*
47676842 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
47676869 AGGGTATTTCAGTAATTTTACAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
47676896 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
47676923 AGGGTATTTCAGTAATTTTGCAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** * *
47676950 AGGATATTTGGGTAATTTTATAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
47676977 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
47677003 GGGGTATTTCATTAATTT
1 AGGGTATTTCAGTAATTT
47677021 GGTAAACTAA
Statistics
Matches: 215, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.01
26 18 0.08
27 187 0.87
28 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:47676846 original size:81 final size:80
Alignment explanation
Indices: 47676761--47677020 Score: 274
Period size: 81 Copynumber: 3.2 Consensus size: 80
47676751 CTATCCTACA
* * ** * *
47676761 AGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGGGGGTACATTG
1 AGGGTATTTCAGTAATTTTGCAAATCGAGGGT-ATTTGATAATTTTATAAATCGGGGGTACTTTG
*
47676826 GTAATTTTACAAGTCG
65 GTAATTTTACAAATCG
* * * * *
47676842 AGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAA-CTGAGGGTA-TTT
1 AGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTTGA-TAATTTTATAAATC-GGGGGTACTTT
*
47676905 CAGTAATTTTACAAATCG
64 -GGTAATTTTACAAATCG
* * * *
47676923 AGGGTATTTCAGTAATTTTGCAAACCGAGGATATTTGGGTAATTTTATAAATTGGGGGTACTTTG
1 AGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTT-GATAATTTTATAAATCGGGGGTACTTTG
*
47676988 GTAATTTTACAACT-G
65 GTAATTTTACAAATCG
* *
47677003 GGGGTATTTCATTAATTT
1 AGGGTATTTCAGTAATTT
47677021 GGTAAACTAA
Statistics
Matches: 147, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
80 23 0.16
81 121 0.82
82 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTTGCAAATCGAGGGTATTTGATAATTTTATAAATCGGGGGTACTTTGG
TAATTTTACAAATCG
Found at i:47686212 original size:43 final size:43
Alignment explanation
Indices: 47686165--47686312 Score: 226
Period size: 43 Copynumber: 3.4 Consensus size: 43
47686155 TTGTGGTTAT
47686165 GTGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTAC
*
47686208 GTGTACGACCATGTCTGGGACATTGGCATCATTATACGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTAC
* ** *
47686251 GTGTACGACCATGTCTGGGACATTGGCATTGTTA-ATCGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCATTATA-CGATTAC
*
47686294 GTGTAAGACCCTGTCTGGG
1 GTGTAAGACCATGTCTGGG
47686313 GCAGTGACAT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 1 0.01
43 97 0.99
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTAC
Found at i:47686347 original size:86 final size:86
Alignment explanation
Indices: 47686166--47686348 Score: 217
Period size: 86 Copynumber: 2.1 Consensus size: 86
47686156 TGTGGTTATG
* *
47686166 TGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTACGTGTACGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTACGTGTAAGACCATGTCTGGGACAG
* * *
47686231 TGGCATCATTATACGATTACG
66 TGACATCATTATACGATAACA
* ** * * *
47686252 TGTACGACCATGTCTGGGACATTGGCATTGTTA-ATCGATTTCGTGTAAGACCCTGTCTGGGGCA
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATA-CGATTACGTGTAAGACCATGTCTGGGACA
**
47686316 GTGACATCGA-TATGTGATAACA
65 GTGACATC-ATTATACGATAACA
47686338 TGTAAGACCAT
1 TGTAAGACCAT
47686349 ATTTTGGATA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 1 0.01
86 79 0.98
87 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (86 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATTATACGATTACGTGTAAGACCATGTCTGGGACAG
TGACATCATTATACGATAACA
Found at i:47689077 original size:27 final size:27
Alignment explanation
Indices: 47689061--47689311 Score: 303
Period size: 27 Copynumber: 9.3 Consensus size: 27
47689051 CGACTTGTAA
47689061 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
47689088 AATTACCATTTTACCCTC-AGTTTATAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
47689115 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
47689142 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
47689169 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
47689196 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
47689223 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
47689250 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
47689277 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
47689304 AATTACCA
1 AATTACCA
47689312 AAATACCCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.02
27 189 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:47689318 original size:27 final size:27
Alignment explanation
Indices: 47689072--47689400 Score: 93
Period size: 27 Copynumber: 12.2 Consensus size: 27
47689062 ATTACCATTT
* ***
47689072 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
47689099 TACCCTCAGTTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
47689126 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
47689153 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
47689180 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
47689207 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ****
47689234 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
47689261 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
47689288 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
47689315 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
* ** * *
47689342 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTC-AATTTACAGAATTACCAAAA
*** *
47689369 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
47689396 TACCC
1 TACCC
47689401 CTGGTTTGTA
Statistics
Matches: 246, Mismatches: 54, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
27 246 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:47689327 original size:54 final size:54
Alignment explanation
Indices: 47689061--47689310 Score: 392
Period size: 54 Copynumber: 4.6 Consensus size: 54
47689051 CGACTTGTAA
* * *
47689061 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTATAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
47689115 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
47689169 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
47689223 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
47689277 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
47689311 AAAATACCCT
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 179 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:47689329 original size:81 final size:81
Alignment explanation
Indices: 47689061--47689311 Score: 362
Period size: 81 Copynumber: 3.1 Consensus size: 81
47689051 CGACTTGTAA
*
47689061 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
47689126 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* * *
47689142 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGT
* *
47689205 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
47689223 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
47689288 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
47689304 AATTACCA
1 AATTACCA
47689312 AAATACCCTT
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 144 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:47689405 original size:27 final size:27
Alignment explanation
Indices: 47689304--47689457 Score: 200
Period size: 27 Copynumber: 5.7 Consensus size: 27
47689294 CAATTTACAG
47689304 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
47689331 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
47689358 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
47689385 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
47689412 AATTACTAAAATACCCTTTGCTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
47689439 AATTACCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
47689458 TAGGGTAGAA
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:47689457 original size:81 final size:81
Alignment explanation
Indices: 47689297--47689457 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
47689287 TTACCTTCAA
* * * *
47689297 TTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGCTTATAAAATT
*
47689362 ACTAAAATACCCTTGG
66 ACCAAAATACCCTTGG
* * * * *
47689378 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGCTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGCTTATAAAATT
*
47689443 ACCGAAATACCCTTG
66 ACCAAAATACCCTTG
47689458 TAGGGTAGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGCTTATAAAATT
ACCAAAATACCCTTGG
Found at i:47689471 original size:54 final size:54
Alignment explanation
Indices: 47689304--47689454 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 54
47689294 CAATTTACAG
* *
47689304 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
47689358 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* * *
47689412 AATTACTAAAATACCCTTTGCTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
47689455 TTGTAGGGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:47691450 original size:43 final size:43
Alignment explanation
Indices: 47691397--47691541 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
47691387 TATCCCAAAT
* *
47691397 ATGGTCTTACATGTTACCATATATCGATGGCAATGTCCCAGAC
1 ATGGTCTTACATGTAACCATATATCGATGCCAATGTCCCAGAC
* * * *
47691440 GTGGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAACCATATATCGATGCCAATGTCCCAGAC
* *
47691483 ATGGTCTTACATGTAATCACA-ATA-CAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAA-C-CATATATCGATGCCAATGTCCCAGAC
*
47691526 ATGATCTTACATGTAA
1 ATGGTCTTACATGTAA
47691542 TCACATCTAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 82 0.94
44 3 0.03
45 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAACCATATATCGATGCCAATGTCCCAGAC
Found at i:47692786 original size:26 final size:26
Alignment explanation
Indices: 47692735--47692786 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
47692725 TTTGGTAATT
* * *
47692735 AAATGTTATATTTATATACTGTTATG
1 AAATGTTAAATTTAAATACTGCTATG
47692761 AAATGTTAGAATTTAAATA-TGCTATG
1 AAATGTTA-AATTTAAATACTGCTATG
47692787 GCCGAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (26 bp):
AAATGTTAAATTTAAATACTGCTATG
Found at i:47704294 original size:35 final size:35
Alignment explanation
Indices: 47704234--47704399 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
47704224 GCTGAATACT
* *
47704234 CAAGTTTCATTATATCATCACATATGGCTAAATATA
1 CAAG-TTCAATATATCATCACATATGGCCAAATATA
* * * *
47704270 CAAGTACAATATATCATCATATATGACCGAATATA
1 CAAGTTCAATATATCATCACATATGGCCAAATATA
* * * * * * *
47704305 CAAGCTCAATAAAACATCACATGTAGTCAAATATT
1 CAAGTTCAATATATCATCACATATGGCCAAATATA
** * *
47704340 CAAGTTTTATATAACATCACATGTGGCCAAATATA
1 CAAGTTCAATATATCATCACATATGGCCAAATATA
47704375 CAAGTTCAATATATCATCACATATG
1 CAAGTTCAATATATCATCACATATG
47704400 TACGTACCTA
Statistics
Matches: 102, Mismatches: 28, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 98 0.96
36 4 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (35 bp):
CAAGTTCAATATATCATCACATATGGCCAAATATA
Found at i:47710256 original size:43 final size:43
Alignment explanation
Indices: 47710189--47710314 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 43
47710179 ATAAAGCTCG
* **
47710189 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTTTCAC-A
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAA
* * *
47710230 TATCGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
1 TA-CAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAA
*
47710274 TACAATGCCAATGTCCCAAATATGGTCTTACATGTAATCAC
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCAC
47710315 TTCTAGGTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.03
42 6 0.08
43 61 0.85
44 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAA
Found at i:47712240 original size:31 final size:31
Alignment explanation
Indices: 47712202--47712263 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
47712192 ATTTGCATAT
*
47712202 ACATATACATCACCAGATATACCAAAATAAG
1 ACATATACATCACCAAATATACCAAAATAAG
47712233 ACATATACATCACCAAATATACCAAAATAAG
1 ACATATACATCACCAAATATACCAAAATAAG
47712264 CCAACTCTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.19
Consensus pattern (31 bp):
ACATATACATCACCAAATATACCAAAATAAG
Found at i:47725966 original size:93 final size:93
Alignment explanation
Indices: 47725853--47726023 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47725843 GCCCATAAGT
* *
47725853 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47725918 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
47725946 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47726011 CGAGTTCGGATGC
66 CGAGCTCGGATGC
47726024 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47726020 original size:46 final size:46
Alignment explanation
Indices: 47725845--47726020 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
47725835 TGTAACCCGC
* * *
47725845 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47725891 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47725937 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47725984 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47726021 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47728457 original size:15 final size:15
Alignment explanation
Indices: 47728401--47728480 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
47728391 CAAAGATAAC
*
47728401 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
47728415 AATAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47728430 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
47728445 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
47728460 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47728475 AAGAAA
1 AAGAAA
47728481 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 8 0.16
15 42 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47728489 original size:15 final size:15
Alignment explanation
Indices: 47728412--47728489 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
47728402 AGAAAACCGA
* *
47728412 ATAAATAAATCCAAG
1 ATAAAGAAACCCAAG
*
47728427 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
47728441 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
47728456 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
47728472 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
47728487 ATA
1 ATA
47728490 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 43 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.15, T:0.14
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:47731531 original size:93 final size:93
Alignment explanation
Indices: 47731417--47731587 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
47731407 GCCCATAAGT
* * *
47731417 GAACTCAGACTCAACTCAACGA-TCTCGGGCGTTCGTATCAATAAGTGAACTCAGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGT-TCGGACATTCGCATCAATAAGTGAACTCAGACTCAACTCA
47731481 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
47731510 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCAATAAGTGAACTCAGACTCAACTCAA
*
47731575 CGAGTTCGGATGC
66 CGAGCTCGGATGC
47731588 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCAATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47731578 original size:46 final size:46
Alignment explanation
Indices: 47731409--47731584 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
47731399 TGTAACCCGC
* * *
47731409 CCATAAGTGAACTCAGACTCAACTCAACGA-TCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGT-TCGGACATTCGCAT
* * *
47731455 CAATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** *
47731501 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47731548 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
47731585 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
46 66 0.63
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47731603 original size:46 final size:45
Alignment explanation
Indices: 47731460--47731603 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
47731450 CGTATCAATA
* *
47731460 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
47731509 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
47731552 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
47731599 AGTGA
1 AGTGA
47731604 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 28 0.35
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:47735798 original size:28 final size:27
Alignment explanation
Indices: 47735735--47735804 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47735725 ATAGTGAGTC
47735735 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47735762 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47735790 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47735805 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47738797 original size:28 final size:28
Alignment explanation
Indices: 47738766--47738821 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
47738756 TAAATTATCG
*
47738766 AGGATGACACTTAGTGTGCGAGACATCC
1 AGGATGACACTTAGTGTGCAAGACATCC
* * *
47738794 AGGATGGCACTTTGTGTGCAATACATCC
1 AGGATGACACTTAGTGTGCAAGACATCC
47738822 GTGAAGGCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
AGGATGACACTTAGTGTGCAAGACATCC
Found at i:47738830 original size:28 final size:28
Alignment explanation
Indices: 47738773--47738840 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
47738763 TCGAGGATGA
* *
47738773 CACTTAGTGTGCGAGACATCCAGGATGG
1 CACTTAGTGTGCAAGACATCCAGGAAGG
* *
47738801 CACTTTGTGTGCAATACATCC-GTGAAGG
1 CACTTAGTGTGCAAGACATCCAG-GAAGG
47738829 CA-TTGAGTGTGC
1 CACTT-AGTGTGC
47738841 TAAACTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (28 bp):
CACTTAGTGTGCAAGACATCCAGGAAGG
Found at i:47743878 original size:24 final size:24
Alignment explanation
Indices: 47743851--47743947 Score: 185
Period size: 24 Copynumber: 4.0 Consensus size: 24
47743841 GCTTATTATG
*
47743851 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
47743875 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
47743899 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
47743923 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
47743947 A
1 A
47743948 CTTTCTACCC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:47748545 original size:40 final size:40
Alignment explanation
Indices: 47748467--47748571 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
47748457 CGAAAAAAAA
* * * * *
47748467 TCGGCTATTTGTGGCGCTTAGTGTGCGAATCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGAGAATCGACATAGCG
* * *
47748507 TCGGCTATATATGGCACTTAGTGTGAGAGTTGAGATAGCG
1 TCGGCTATATATGGCACTTAGTGTGAGAATCGACATAGCG
* * * *
47748547 TCAGCTATGTACGACACTTAGTGTG
1 TCGGCTATATATGGCACTTAGTGTG
47748572 TGAGATATCG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGAGAATCGACATAGCG
Found at i:47748601 original size:28 final size:28
Alignment explanation
Indices: 47748561--47748670 Score: 157
Period size: 28 Copynumber: 3.9 Consensus size: 28
47748551 CTATGTACGA
*
47748561 CACTTAGTGTGTGAGATATCGGGTATGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
* *
47748589 CACTTAGTGTGTGAGATATCTAGTGTGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
*
47748617 CACTTAGTGTGCGAGATATCGAGTATGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
** *
47748645 CACTTAGTGTGCAAGATATTGAGTAT
1 CACTTAGTGTGTGAGATATCGAGTAT
47748671 TCAACTACAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.33
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATCGAGTATGG
Found at i:47755263 original size:54 final size:53
Alignment explanation
Indices: 47755082--47755329 Score: 233
Period size: 53 Copynumber: 4.7 Consensus size: 53
47755072 ACACGGGTAC
* ** * * *
47755082 CTTACCATTGCCATTACTTGTCATGGTCTTACGTGGTATCCTT---TTGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAAGAA
* * * *
47755131 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAAGAA
* * * *
47755184 CTCACCAATGTCATGCCTCTG-CATGGTCTTACATGGGA-CCTTTGACTTAAGTAA
1 CTTACCAATGCCATGCCT-TGACATGGTCTTACATGGTATCC-TTGCCTTAAG-AA
*
47755238 CTTATCAATGCCATGCCTTGACATGGTCTTACA-GGATATCCTTGCCTT-AGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGG-TATCCTTGCCTTAAG-AA
*
47755291 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGT
47755330 TTCTTTAAAC
Statistics
Matches: 163, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 48 0.29
54 44 0.27
55 27 0.17
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAAGAA
Found at i:47768116 original size:43 final size:43
Alignment explanation
Indices: 47768025--47768124 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
47768015 AGATGTGATT
* * * * *
47768025 ACATGTAAGACCATGTCTGGGACATTGGCATCATTAATCGATT
1 ACATGTAAGACCATGTCTAGGACAGTGGCATCAGTAATAGATA
* * *
47768068 TCATGTAAGACCTTGTCTAGGACAGTGGCATCGGT-ATGAGATA
1 ACATGTAAGACCATGTCTAGGACAGTGGCATCAGTAAT-AGATA
47768111 ACATGTAAGACCAT
1 ACATGTAAGACCAT
47768125 TCATGGGATA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTAGGACAGTGGCATCAGTAATAGATA
Found at i:47779134 original size:42 final size:42
Alignment explanation
Indices: 47779075--47779180 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 42
47779065 TGACATTAGG
*
47779075 GTTATGAG-TTTACGTGTAAGACCATATCTGGAATATGGCATC
1 GTTATGAGATTT-CGTGTAAGACCATATCTGGAACATGGCATC
* *
47779117 GTTATGAGATTTTGTGTAAGACCATGTCTGGAACATGGCATC
1 GTTATGAGATTTCGTGTAAGACCATATCTGGAACATGGCATC
* *
47779159 ATTATGAGA-ATCGTGTAAGACC
1 GTTATGAGATTTCGTGTAAGACC
47779181 GTAGCTGGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 11 0.19
42 43 0.75
43 3 0.05
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
GTTATGAGATTTCGTGTAAGACCATATCTGGAACATGGCATC
Found at i:47786137 original size:24 final size:24
Alignment explanation
Indices: 47786090--47786137 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
47786080 AAGTAGGGTT
* *
47786090 CATGTTTAAAAATTTACTCGTGTG
1 CATGTTTAAAAATTTACCCATGTG
47786114 CATGTTTAAAAATTTACCCATGTG
1 CATGTTTAAAAATTTACCCATGTG
47786138 TGACATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (24 bp):
CATGTTTAAAAATTTACCCATGTG
Found at i:47787117 original size:17 final size:19
Alignment explanation
Indices: 47787089--47787125 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
47787079 ATCATAACTC
47787089 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
47787107 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
47787125 A
1 A
47787126 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:47788709 original size:30 final size:30
Alignment explanation
Indices: 47788675--47788743 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
47788665 GTGTGTCTCA
47788675 GCCGTGTGTGACACACGGCCAAGTAACACG
1 GCCGTGTGTGACACACGGCCAAGTAACACG
* *
47788705 GCCGTTTGTGACATACGGCCAAGTAACACG
1 GCCGTGTGTGACACACGGCCAAGTAACACG
47788735 GCCGTGTGT
1 GCCGTGTGT
47788744 CCCCTGTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (30 bp):
GCCGTGTGTGACACACGGCCAAGTAACACG
Done.