Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 105 of 109
Found at i:33580317 original size:21 final size:22
Alignment explanation
Indices: 33580272--33580318 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
33580262 ATTAAATTTT
*
33580272 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
* *
33580294 AAAATTTTAAA-ATATAAATAA
1 AAAATTTGAAATATAAAAATAA
33580315 AAAA
1 AAAA
33580319 AGGAGGGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:33580319 original size:23 final size:22
Alignment explanation
Indices: 33580272--33580319 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
33580262 ATTAAATTTT
*
33580272 AAAATTTGAAATATAAAAATTAA
1 AAAATTTAAAATATAAAAA-TAA
* *
33580295 AAATTTTAAAATATAAATA-AA
1 AAAATTTAAAATATAAAAATAA
33580316 AAAA
1 AAAA
33580320 GGAGGGAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 5 0.24
23 16 0.76
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATTTAAAATATAAAAATAA
Found at i:33585599 original size:13 final size:13
Alignment explanation
Indices: 33585583--33585609 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33585573 ATGTGACATC
33585583 AAAAAAATTAACA
1 AAAAAAATTAACA
33585596 AAAAAAATTAACA
1 AAAAAAATTAACA
33585609 A
1 A
33585610 GGTTAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAATTAACA
Found at i:33589056 original size:22 final size:20
Alignment explanation
Indices: 33589017--33589058 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
33589007 GACTTATCCC
*
33589017 TAAATTTTAAGTTTAAATTA
1 TAAATTTTAAGTTGAAATTA
33589037 TAAATTTTAAAAGTTGAAATTA
1 TAAATTTT--AAGTTGAAATTA
33589059 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TAAATTTTAAGTTGAAATTA
Found at i:33592684 original size:2 final size:2
Alignment explanation
Indices: 33592677--33592705 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33592667 CAATCCATCC
33592677 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 A
33592706 AAGATCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33594331 original size:16 final size:16
Alignment explanation
Indices: 33594310--33594343 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33594300 AGATAAGAAA
*
33594310 AATAGGGTAGGACGTT
1 AATAGGGTAGGAAGTT
*
33594326 AATAGGGTTGGAAGTT
1 AATAGGGTAGGAAGTT
33594342 AA
1 AA
33594344 AAAGAGGAGG
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:0.35, C:0.03, G:0.35, T:0.26
Consensus pattern (16 bp):
AATAGGGTAGGAAGTT
Found at i:33599746 original size:18 final size:18
Alignment explanation
Indices: 33599723--33599758 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33599713 ATATGATAAT
33599723 CATATGAAAGCTGTATTA
1 CATATGAAAGCTGTATTA
33599741 CATATGAAAGCTGTATTA
1 CATATGAAAGCTGTATTA
33599759 AGTTAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
CATATGAAAGCTGTATTA
Found at i:33604699 original size:2 final size:2
Alignment explanation
Indices: 33604692--33604735 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33604682 AACCAAACAC
33604692 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33604734 AG
1 AG
33604736 TTACCAAGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33612355 original size:30 final size:29
Alignment explanation
Indices: 33612298--33612356 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
33612288 ATTTTAAAAA
*
33612298 TTCAAAAAATATAAAAATACATAAATATT
1 TTCAAAAAATATAAAAATAAATAAATATT
* *
33612327 TTCAAAAATATATAATAATAAATTAATATT
1 TTCAAAAA-ATATAAAAATAAATAAATATT
33612357 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (29 bp):
TTCAAAAAATATAAAAATAAATAAATATT
Found at i:33612376 original size:25 final size:24
Alignment explanation
Indices: 33612340--33612390 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 24
33612330 AAAAATATAT
33612340 AATAATAAATTAATATTAAATAAA
1 AATAATAAATTAATATTAAATAAA
*
33612364 AATAATTATATTAATATTAAATAAA
1 AATAA-TAAATTAATATTAAATAAA
33612389 AA
1 AA
33612391 AACCCTCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAATAAATTAATATTAAATAAA
Found at i:33612606 original size:19 final size:20
Alignment explanation
Indices: 33612582--33612634 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
33612572 TCAATGGTTT
33612582 TTTTTTTTAAATTTTAAT-A
1 TTTTTTTTAAATTTTAATGA
*
33612601 TTTTTTTTAGAATTTTGATGA
1 TTTTTTTTA-AATTTTAATGA
*
33612622 TTTTTTATAAATT
1 TTTTTTTTAAATT
33612635 CGGAATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 9 0.30
20 12 0.40
21 9 0.30
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (20 bp):
TTTTTTTTAAATTTTAATGA
Found at i:33612606 original size:20 final size:22
Alignment explanation
Indices: 33612581--33612627 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 22
33612571 CTCAATGGTT
33612581 TTTTTTTTTA-AATTTTAAT-A
1 TTTTTTTTTAGAATTTTAATGA
*
33612601 -TTTTTTTTAGAATTTTGATGA
1 TTTTTTTTTAGAATTTTAATGA
33612622 TTTTTT
1 TTTTTT
33612628 ATAAATTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 8 0.35
21 1 0.04
22 5 0.22
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTAGAATTTTAATGA
Found at i:33621039 original size:30 final size:32
Alignment explanation
Indices: 33620961--33621039 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 32
33620951 ACCTTAAATT
* *
33620961 TTAAGATTAAGTTAAAAAATTATAATTTAATTA
1 TTAA-ATTACGTTAAAAAATTATAATTTAATAA
* *
33620994 TTAAATTAC-TCAAAAAATT-TTATTTAAGTAA
1 TTAAATTACGTTAAAAAATTATAATTTAA-TAA
33621025 TTAAA-T-CGTTAAAAA
1 TTAAATTACGTTAAAAA
33621040 TGTTATGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 1 0.03
30 14 0.36
31 16 0.41
32 4 0.10
33 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (32 bp):
TTAAATTACGTTAAAAAATTATAATTTAATAA
Found at i:33621361 original size:31 final size:31
Alignment explanation
Indices: 33621325--33621387 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
33621315 CATCCTAATT
33621325 ATTTAAAT-AAAAGTTTTTAAATAATTCAATG
1 ATTTAAATGAAAA-TTTTTAAATAATTCAATG
*
33621356 ATTTAAATGAAAATTTTTGAATAATTCAATG
1 ATTTAAATGAAAATTTTTAAATAATTCAATG
33621387 A
1 A
33621388 CCAAATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (31 bp):
ATTTAAATGAAAATTTTTAAATAATTCAATG
Found at i:33625353 original size:30 final size:31
Alignment explanation
Indices: 33625309--33625374 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
33625299 ATAAAATAGT
*
33625309 AAAATTACATTTTGACCCTTT-AAAATTGATA
1 AAAATTACAATTTGACCCTTTGAAAATT-ATA
*
33625340 AAAATT-CAATTTGATCCTTTGAAAATTATA
1 AAAATTACAATTTGACCCTTTGAAAATTATA
*
33625370 GAAAT
1 AAAAT
33625375 GTAAACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (31 bp):
AAAATTACAATTTGACCCTTTGAAAATTATA
Found at i:33625848 original size:58 final size:58
Alignment explanation
Indices: 33625783--33625896 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
33625773 AAATGGGAAG
* ** *
33625783 TTAGGTCTTAATCTTGAGTTAAAATATCAATACTTAGTGTCATGTCTCGAGGCATAAA
1 TTAGGTCTGAATCTTGAGTTAAAATATCAATACACAGTGTCATGTCTCGAGACATAAA
33625841 TTAGGTCTGAATCTTGAGTTAAAATATCAATACACAGTGTCATGTCTCGAGACATA
1 TTAGGTCTGAATCTTGAGTTAAAATATCAATACACAGTGTCATGTCTCGAGACATA
33625897 GAGATCGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (58 bp):
TTAGGTCTGAATCTTGAGTTAAAATATCAATACACAGTGTCATGTCTCGAGACATAAA
Found at i:33632602 original size:21 final size:20
Alignment explanation
Indices: 33632570--33632611 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
33632560 TTGAAAACTA
33632570 ATTTCCAATAATATAATATTT
1 ATTTCCAATAATATAAT-TTT
*
33632591 ATTT-CAATTAATTTAATTTT
1 ATTTCCAA-TAATATAATTTT
33632611 A
1 A
33632612 CTTGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTCCAATAATATAATTTT
Found at i:33636373 original size:14 final size:15
Alignment explanation
Indices: 33636345--33636374 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33636335 CTGTTCTCAT
33636345 ATATAATATATTTTC
1 ATATAATATATTTTC
33636360 ATATAATA-ATTTTC
1 ATATAATATATTTTC
33636374 A
1 A
33636375 CTATTACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATATATTTTC
Found at i:33651433 original size:298 final size:297
Alignment explanation
Indices: 33650897--33651495 Score: 1164
Period size: 298 Copynumber: 2.0 Consensus size: 297
33650887 ATAATTCTTA
33650897 TATTTTAAATTTAAGATTTTATATATAATTTGGCTCCTAAATTATATCGAAATTTCTCATTTTAA
1 TATTTTAAATTTAAGATTTTATATATAATTTGGCTCCTAAATTATA-CGAAATTTCTCATTTTAA
33650962 TACTTAATTTTTTGTCTCATTTTTTGATACATTAACTTTAATTTGATATAATTATATACATGAAA
65 TACTTAATTTTTTGTCTCATTTTTTGATACATTAACTTTAATTTGATATAATTATATACATGAAA
33651027 CTTTTGGTTGTGGTTCAAATGTATATATGAAATCTTAATTTTGATTCAACCATGCTCATTTAAAG
130 CTTTTGGTTGTGGTTCAAATGTATATATGAAATCTTAATTTTGATTCAACCATGCTCATTTAAAG
33651092 AAATAAATGCATCAGTTTATTTTTATATGGGAGAAATACAATTATATGTATATGCAATAAATAAA
195 AAATAAATGCATCAGTTTATTTTTATATGGGAGAAATACAATTATATGTATATGCAATAAATAAA
33651157 CATAAAATGATGTTATATTAATAATTGTGTTAATAATT
260 CATAAAATGATGTTATATTAATAATTGTGTTAATAATT
33651195 TATTTTAAATTTAAGATTTTATATATAATTTGGCTCCTCTAAATTATA-GAAATTTCTCATTTTA
1 TATTTTAAATTTAAGATTTTATATATAATTTGGCT-C-CTAAATTATACGAAATTTCTCATTTTA
33651259 ATACTTAATTTTTTGTCTCATTTTTTGATACATTAACTTTAATTTGATATAATTATATACATGAA
64 ATACTTAATTTTTTGTCTCATTTTTTGATACATTAACTTTAATTTGATATAATTATATACATGAA
33651324 ACTTTTGGTTGTGGTTCAAATGTATATATGAAATCTTAATTTTGATTCAACCATGCTCATTTAAA
129 ACTTTTGGTTGTGGTTCAAATGTATATATGAAATCTTAATTTTGATTCAACCATGCTCATTTAAA
33651389 GAAATAAATGCATCAGTTTATTTTTATATGGGAGAAATACAATTATATGTATATGCAATAAATAA
194 GAAATAAATGCATCAGTTTATTTTTATATGGGAGAAATACAATTATATGTATATGCAATAAATAA
33651454 ACATAAAATGATGTTATATTAATAATTGTGTTAATAATT
259 ACATAAAATGATGTTATATTAATAATTGTGTTAATAATT
33651493 TAT
1 TAT
33651496 AAAAATAAAA
Statistics
Matches: 299, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
298 288 0.96
299 1 0.00
300 10 0.03
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (297 bp):
TATTTTAAATTTAAGATTTTATATATAATTTGGCTCCTAAATTATACGAAATTTCTCATTTTAAT
ACTTAATTTTTTGTCTCATTTTTTGATACATTAACTTTAATTTGATATAATTATATACATGAAAC
TTTTGGTTGTGGTTCAAATGTATATATGAAATCTTAATTTTGATTCAACCATGCTCATTTAAAGA
AATAAATGCATCAGTTTATTTTTATATGGGAGAAATACAATTATATGTATATGCAATAAATAAAC
ATAAAATGATGTTATATTAATAATTGTGTTAATAATT
Found at i:33660022 original size:10 final size:9
Alignment explanation
Indices: 33659995--33660021 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33659985 TTCTTATAAT
33659995 TTTTTAAAA
1 TTTTTAAAA
33660004 TTTTTAAAA
1 TTTTTAAAA
33660013 TTTTTAAAA
1 TTTTTAAAA
33660022 ACTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:33662843 original size:31 final size:32
Alignment explanation
Indices: 33662776--33662843 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
33662766 TTCCAATATT
* * * *
33662776 TTTTATTATTAATAAGTATTTGAGTAAAATTA
1 TTTTATTATTAATAAATATTTAAATAAAATGA
*
33662808 -TTTATTATTAATAAATATTTAAAT-TAATGA
1 TTTTATTATTAATAAATATTTAAATAAAATGA
33662838 TTTTAT
1 TTTTAT
33662844 AATGATTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (32 bp):
TTTTATTATTAATAAATATTTAAATAAAATGA
Found at i:33669950 original size:72 final size:72
Alignment explanation
Indices: 33669833--33669974 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
33669823 CATAGATCTT
33669833 TAACGCCACCAAACAACTAACACATTTCGCTTCACATTGATCTACTCTTAGCCAAAAAAAAAAAA
1 TAACGCCACCAAACAACTAACACATTTCGCTTCACATTGATCTACTCTTAGCCAAAAAAAAAAAA
33669898 AAAAAAA
66 AAAAAAA
33669905 TAACGCCACCAAACAAACTAACACA-TTCGCTTCACATTGATCTACTCTTAGCCAAAAAAAAAAA
1 TAACGCCACCAAAC-AACTAACACATTTCGCTTCACATTGATCTACTCTTAGCCAAAAAAAAAAA
33669969 AAAAAA
65 AAAAAA
33669975 CATGAAATCC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 59 0.86
73 10 0.14
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (72 bp):
TAACGCCACCAAACAACTAACACATTTCGCTTCACATTGATCTACTCTTAGCCAAAAAAAAAAAA
AAAAAAA
Found at i:33671421 original size:26 final size:27
Alignment explanation
Indices: 33671392--33671444 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
33671382 TTTACTTAAC
*
33671392 TTTAATATACATATTT-AAATTTTTAT
1 TTTAATATAAATATTTAAAATTTTTAT
* *
33671418 TTTATTATAAATTTTTAGAAATTTTTA
1 TTTAATATAAATATTTA-AAATTTTTA
33671445 GAAATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 13 0.59
28 9 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTAATATAAATATTTAAAATTTTTAT
Found at i:33682216 original size:20 final size:21
Alignment explanation
Indices: 33682179--33682221 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
33682169 AAATATTAAA
33682179 AAATATATTTTTATAATTTTT
1 AAATATATTTTTATAATTTTT
33682200 AAATA-ATTTTCTA-AATTTTT
1 AAATATATTTT-TATAATTTTT
33682220 AA
1 AA
33682222 NNNNNNNNNN
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATATATTTTTATAATTTTT
Found at i:33690802 original size:21 final size:19
Alignment explanation
Indices: 33690763--33690802 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
33690753 AACAATTAAA
33690763 TCATAAATAAAATAAAATT
1 TCATAAATAAAATAAAATT
*
33690782 TCATCAAATAATAATAGAATT
1 TCAT-AAATAA-AATAAAATT
33690803 AATATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (19 bp):
TCATAAATAAAATAAAATT
Found at i:33694042 original size:4 final size:4
Alignment explanation
Indices: 33694023--33694056 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
33694013 TCACAGATGT
* *
33694023 CATA CATG CATG CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
33694057 CACAAATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:33695974 original size:12 final size:12
Alignment explanation
Indices: 33695957--33695984 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33695947 AAACGTACAT
33695957 AATGGCCAACCA
1 AATGGCCAACCA
33695969 AATGGCCAACCA
1 AATGGCCAACCA
33695981 AATG
1 AATG
33695985 AGGAAACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.18, T:0.11
Consensus pattern (12 bp):
AATGGCCAACCA
Found at i:33697313 original size:1 final size:1
Alignment explanation
Indices: 33697307--33697367 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
33697297 CTCCCAGCAC
****** *
33697307 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCCCCACAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33697368 TCCACAGAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33701175 original size:12 final size:14
Alignment explanation
Indices: 33701158--33701189 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
33701148 TTAAGTAATA
33701158 AAATAAATAA-AT-
1 AAATAAATAATATG
33701170 AAATAAATAATATG
1 AAATAAATAATATG
33701184 AAATAA
1 AAATAA
33701190 TACATCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 2 0.11
14 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
AAATAAATAATATG
Found at i:33702064 original size:136 final size:136
Alignment explanation
Indices: 33701854--33702126 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
33701844 ATTTTTTTCT
33701854 ATAATATATTCGAGAAGAAAAGTATTTAAACCCTGAATGAGGTTTTAAAAAATTCTCCCCTGTAT
1 ATAATATATTCGAGAAGAAAAGTATTTAAACCCTGAATGAGGTTTTAAAAAATTCTCCCCTGTAT
33701919 AATTCAAAATATTCATTTATTCTTGTGAGATTTGATGAAAAATATATCAATCTTTTTAGATTTAT
66 AATTCAAAATATTCATTTATTCTTGTGAGATTTGATGAAAAATATATCAATCTTTTTAGATTTAT
33701984 TTATTA
131 TTATTA
33701990 ATAATATATTCGAGAAGAAAAGTATTTAAACCCTGAATGAGGTTTTAAAAAATTCTCCCCTGTAT
1 ATAATATATTCGAGAAGAAAAGTATTTAAACCCTGAATGAGGTTTTAAAAAATTCTCCCCTGTAT
33702055 AATTCAAAATATTCATTTATTCTTGTGAGATTTGATGAAAAATATATCAATCTTTTTAGATTTAT
66 AATTCAAAATATTCATTTATTCTTGTGAGATTTGATGAAAAATATATCAATCTTTTTAGATTTAT
33702120 TTATTA
131 TTATTA
33702126 A
1 A
33702127 ATAAATTTTA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (136 bp):
ATAATATATTCGAGAAGAAAAGTATTTAAACCCTGAATGAGGTTTTAAAAAATTCTCCCCTGTAT
AATTCAAAATATTCATTTATTCTTGTGAGATTTGATGAAAAATATATCAATCTTTTTAGATTTAT
TTATTA
Found at i:33705359 original size:26 final size:26
Alignment explanation
Indices: 33705323--33705398 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 26
33705313 TGATTGCGGC
33705323 ATACCCAACCCAAAACCCAAACAA-CA
1 ATACCCAACCC-AAACCCAAACAACCA
*
33705349 ATACCCAACCCAAACTCAAACCAACCA
1 ATACCCAACCCAAACCCAAA-CAACCA
33705376 ATACCACAAACCCAAACCCAAAC
1 ATACC-C-AACCCAAACCCAAAC
33705399 CAAACCTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.18
26 14 0.32
27 7 0.16
28 2 0.05
29 13 0.30
ACGTcount: A:0.51, C:0.43, G:0.00, T:0.05
Consensus pattern (26 bp):
ATACCCAACCCAAACCCAAACAACCA
Found at i:33705391 original size:6 final size:6
Alignment explanation
Indices: 33705325--33705410 Score: 58
Period size: 6 Copynumber: 14.5 Consensus size: 6
33705315 ATTGCGGCAT
* *
33705325 ACCC-A ACCCAAA ACCCAA ACAACAA TACCC-A ACCCAA ACTCAA A-CC-A
1 ACCCAA ACCC-AA ACCCAA AC-CCAA -ACCCAA ACCCAA ACCCAA ACCCAA
*
33705372 A-CCAA TACCACAA ACCCAA ACCCAA A-CCAA ACCTAA ACC
1 ACCCAA -ACC-CAA ACCCAA ACCCAA ACCCAA ACCCAA ACC
33705411 TAACCCTAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
4 4 0.06
5 15 0.23
6 29 0.44
7 13 0.20
8 5 0.08
ACGTcount: A:0.51, C:0.44, G:0.00, T:0.05
Consensus pattern (6 bp):
ACCCAA
Found at i:33705392 original size:29 final size:26
Alignment explanation
Indices: 33705323--33705401 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 26
33705313 TGATTGCGGC
33705323 ATACCCAACCCAAAACCCAAA-CAACA
1 ATACCCAACCC-AAACCCAAACCAACA
*
33705349 ATACCCAACCCAAACTCAAACCAACCA
1 ATACCCAACCCAAACCCAAACCAA-CA
33705376 ATACCACAAACCCAAACCCAAACCAA
1 ATACC-C-AACCCAAACCCAAACCAA
33705402 ACCTAAACCT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
25 8 0.17
26 14 0.30
27 7 0.15
28 1 0.02
29 17 0.36
ACGTcount: A:0.52, C:0.43, G:0.00, T:0.05
Consensus pattern (26 bp):
ATACCCAACCCAAACCCAAACCAACA
Found at i:33705403 original size:11 final size:11
Alignment explanation
Indices: 33705355--33705416 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
33705345 AACAATACCC
33705355 AACCCAAACTCA
1 AACCCAAAC-CA
33705367 AA-CC-AACCA
1 AACCCAAACCA
33705376 ATACCACAAACCCA
1 A-ACC-CAAA-CCA
33705390 AACCCAAACCA
1 AACCCAAACCA
* *
33705401 AACCTAAACCT
1 AACCCAAACCA
33705412 AACCC
1 AACCC
33705417 TAATAAGCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 19 0.45
12 7 0.17
13 5 0.12
14 4 0.10
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (11 bp):
AACCCAAACCA
Found at i:33706885 original size:26 final size:26
Alignment explanation
Indices: 33706815--33706885 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
33706805 ACATCATTTC
33706815 TTTATTTTAAACTATTTTGTATATTA
1 TTTATTTTAAACTATTTTGTATATTA
* * *
33706841 TTTATTTGAAACTTCTTTTTTACATATTA
1 TTTATTTTAAAC-TATTTTGT--ATATTA
33706870 -TTATTTTAAACT-TTTT
1 TTTATTTTAAACTATTTT
33706886 ACATCATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 15 0.39
27 7 0.18
28 10 0.26
29 6 0.16
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTATTTTAAACTATTTTGTATATTA
Found at i:33707000 original size:27 final size:26
Alignment explanation
Indices: 33706943--33707027 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
33706933 TGTAGTTTGT
* *
33706943 ATATTATTTATTTTAATTTGTTTTAC
1 ATATTATTTACTTTAAATTGTTTTAC
*
33706969 ATATTATTTGCTTTAAATTGTTTT--
1 ATATTATTTACTTTAAATTGTTTTAC
* ** * *
33706993 ATACTATTTACTCCAAATTGTTCTAT
1 ATATTATTTACTTTAAATTGTTTTAC
33707019 ATATTATTT
1 ATATTATTT
33707028 TGTTTCGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
24 19 0.40
26 29 0.60
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (26 bp):
ATATTATTTACTTTAAATTGTTTTAC
Found at i:33710373 original size:22 final size:22
Alignment explanation
Indices: 33710345--33710388 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33710335 TAGGGGGACA
33710345 AAGGGTCCCATGTCTCACTCCT
1 AAGGGTCCCATGTCTCACTCCT
33710367 AAGGGTCCCATGTCTCACTCCT
1 AAGGGTCCCATGTCTCACTCCT
33710389 TTTGCTCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.27
Consensus pattern (22 bp):
AAGGGTCCCATGTCTCACTCCT
Found at i:33724248 original size:144 final size:144
Alignment explanation
Indices: 33724099--33724389 Score: 564
Period size: 144 Copynumber: 2.0 Consensus size: 144
33724089 AATTGAAAAA
33724099 AAAAAAAAAAAAAAACCACCTTTTTTCCTTTCAATTTGCACAACACAATCTCACATCGTATCGAC
1 AAAAAAAAAAAAAAACCACCTTTTTTCCTTTCAATTTGCACAACACAATCTCACATCGTATCGAC
33724164 ATCTAAAACTCAAAAGAGTCTGTGATTTCCCTTACTTCCTCAAACCAGAAGCCATGGCCAGCATG
66 ATCTAAAACTCAAAAGAGTCTGTGATTTCCCTTACTTCCTCAAACCAGAAGCCATGGCCAGCATG
33724229 ATAATGGCTTCCTC
131 ATAATGGCTTCCTC
**
33724243 AAAAAAAAAAAAACCCCACCTTTTTTCCTTTCAATTTGCACAACACAATCTCACATCGTATCGAC
1 AAAAAAAAAAAAAAACCACCTTTTTTCCTTTCAATTTGCACAACACAATCTCACATCGTATCGAC
33724308 ATCTAAAACTCAAAAGAGTCTGTGATTTCCCTTACTTCCTCAAACCAGAAGCCATGGCCAGCATG
66 ATCTAAAACTCAAAAGAGTCTGTGATTTCCCTTACTTCCTCAAACCAGAAGCCATGGCCAGCATG
33724373 ATAATGGCTTCCTC
131 ATAATGGCTTCCTC
33724387 AAA
1 AAA
33724390 GCCTGTAATC
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.26
Consensus pattern (144 bp):
AAAAAAAAAAAAAAACCACCTTTTTTCCTTTCAATTTGCACAACACAATCTCACATCGTATCGAC
ATCTAAAACTCAAAAGAGTCTGTGATTTCCCTTACTTCCTCAAACCAGAAGCCATGGCCAGCATG
ATAATGGCTTCCTC
Found at i:33726173 original size:29 final size:30
Alignment explanation
Indices: 33726139--33726211 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
33726129 TTAACCTTTA
*
33726139 TCAAAGTGCTCAAATGAA-TGTCAAAC-ATT
1 TCAAAGTGCTCAAAT-AAGAGTCAAACTATT
* *
33726168 TCAAAGTGCTTAAATAAGAGTCAAACTTTT
1 TCAAAGTGCTCAAATAAGAGTCAAACTATT
*
33726198 TGAAAGTGCTCAAA
1 TCAAAGTGCTCAAA
33726212 CAAATTAGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.05
29 21 0.57
30 14 0.38
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (30 bp):
TCAAAGTGCTCAAATAAGAGTCAAACTATT
Found at i:33732964 original size:15 final size:17
Alignment explanation
Indices: 33732927--33732970 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
33732917 CTAATATCCT
33732927 AATCCAAAAATTATCAG
1 AATCCAAAAATTATCAG
*
33732944 AATCCAAAAGTTA-CA-
1 AATCCAAAAATTATCAG
33732959 AATCCAACAAAT
1 AATCCAA-AAAT
33732971 GATGTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (17 bp):
AATCCAAAAATTATCAG
Found at i:33745608 original size:19 final size:18
Alignment explanation
Indices: 33745568--33745608 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
33745558 TTTATAATAT
33745568 TTTATTTTATTATTTCAG
1 TTTATTTTATTATTTCAG
33745586 TTTATTTTATAGTATTT-AG
1 TTTATTTTAT--TATTTCAG
33745605 TTTA
1 TTTA
33745609 AGTATTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTATTTTATTATTTCAG
Found at i:33749566 original size:5 final size:5
Alignment explanation
Indices: 33749556--33749581 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33749546 GATGAAAGGC
33749556 AAGAG AAGAG AAGAG AAGAG AAGAG A
1 AAGAG AAGAG AAGAG AAGAG AAGAG A
33749582 GAAGAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:33754193 original size:50 final size:50
Alignment explanation
Indices: 33754139--33754236 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
33754129 AAAAGATAAT
*
33754139 ATTAATATATTTAA-ATATTTTCAATAATTTTTATTATTA-CAAATATTTTA
1 ATTAA-ATATTTAATA-ATTTTCAATAATCTTTATTATTATCAAATATTTTA
*
33754189 ATTAAGTATTTAATAATTTTCAATAATCTTTATTATTATCAAATATTT
1 ATTAAATATTTAATAATTTTCAATAATCTTTATTATTATCAAATATTT
33754237 GAACTAACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 29 0.66
50 15 0.34
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (50 bp):
ATTAAATATTTAATAATTTTCAATAATCTTTATTATTATCAAATATTTTA
Found at i:33754257 original size:49 final size:48
Alignment explanation
Indices: 33754152--33754257 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 48
33754142 AATATATTTA
* * * ** *
33754152 AATATTTTCAATAATTTTTATTATTACAAATATTTTAATTAAGTATTT
1 AATATTTTCAATAATCTTTATTATTACAAATATTTGAACTAACAATAT
33754200 AATAATTTTCAATAATCTTTATTATTATCAAATATTTGAACTAACCAATAT
1 AAT-ATTTTCAATAATCTTTATTATTA-CAAATATTTGAACTAA-CAATAT
33754251 -ATATTTT
1 AATATTTT
33754258 ATCCACAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 3 0.06
49 27 0.55
50 16 0.33
51 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.50
Consensus pattern (48 bp):
AATATTTTCAATAATCTTTATTATTACAAATATTTGAACTAACAATAT
Found at i:33759224 original size:21 final size:21
Alignment explanation
Indices: 33759200--33759239 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33759190 ATGATGAATT
* *
33759200 TTATTGTTCCATCACTTACAA
1 TTATAGTTACATCACTTACAA
*
33759221 TTATAGTTACATCTCTTAC
1 TTATAGTTACATCACTTAC
33759240 CCATGTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.45
Consensus pattern (21 bp):
TTATAGTTACATCACTTACAA
Found at i:33760536 original size:20 final size:20
Alignment explanation
Indices: 33760515--33760567 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
33760505 TACTTAATAT
33760515 TTTAT-TTAATTATTTAAAA
1 TTTATATTAATTATTTAAAA
**
33760534 TTTATATTAATT-TATTAATT
1 TTTATATTAATTAT-TTAAAA
33760554 TTTATATTATATTA
1 TTTATATTA-ATTA
33760568 AAAAGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 19 0.68
21 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATATTAATTATTTAAAA
Found at i:33761488 original size:2 final size:2
Alignment explanation
Indices: 33761483--33761526 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33761473 NNNCACACAC
33761483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33761525 AT
1 AT
33761527 GCAAAGTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33767273 original size:3 final size:3
Alignment explanation
Indices: 33767265--33767316 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
33767255 ATGTTTTTAT
33767265 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33767313 ATA A
1 ATA A
33767317 GGAACAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33769333 original size:33 final size:33
Alignment explanation
Indices: 33769262--33769336 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
33769252 TGTTTAAATG
* * *
33769262 TAAGACCATAGCTAGGCTATGGCATTTTAATGA
1 TAAGACCATAACTAGGCTATGACATTTTAATCA
* *
33769295 AAAGACCATAACTAGGTTATGACACTTTTAA-CA
1 TAAGACCATAACTAGGCTATGACA-TTTTAATCA
33769328 TAAGACCAT
1 TAAGACCAT
33769337 GGTTAGACCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (33 bp):
TAAGACCATAACTAGGCTATGACATTTTAATCA
Found at i:33772098 original size:46 final size:46
Alignment explanation
Indices: 33772031--33772130 Score: 182
Period size: 46 Copynumber: 2.2 Consensus size: 46
33772021 TTTGAGTATT
* *
33772031 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTATACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
33772077 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
33772123 TCTGATCA
1 TCTGATCA
33772131 TAGCCTAGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:33775608 original size:81 final size:81
Alignment explanation
Indices: 33775473--33775634 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
33775463 GTTATTGGAC
33775473 AAAGGGTTCATTAGACCGAGTATGTCTCCTTGGAATGCACCTATCGTATTTGTGAAAAAGAAAGA
1 AAAGGGTTCATTAGACCGAGTATGTCTCCTTGGAATGCACCTATCGTATTTGTGAAAAAGAAAGA
33775538 TGGTTCTTTGAGACTA
66 TGGTTCTTTGAGACTA
33775554 AAAGGGTTCATTAGACCGAGTATGTCTCCTTGGAATGCACCTATCGTATTTGTGAAAAAGAAAGA
1 AAAGGGTTCATTAGACCGAGTATGTCTCCTTGGAATGCACCTATCGTATTTGTGAAAAAGAAAGA
33775619 TGGTTCTTTGAGACTA
66 TGGTTCTTTGAGACTA
33775635 TGTATAGACT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (81 bp):
AAAGGGTTCATTAGACCGAGTATGTCTCCTTGGAATGCACCTATCGTATTTGTGAAAAAGAAAGA
TGGTTCTTTGAGACTA
Found at i:33776693 original size:110 final size:107
Alignment explanation
Indices: 33776513--33776711 Score: 317
Period size: 110 Copynumber: 1.8 Consensus size: 107
33776503 ATATTTGGCA
33776513 ATTTGGTTAAACGAGAAATCGAAACCCAACACCTTAGGGCACGTCCCTCGAATTTCCAAACGCAA
1 ATTTGGTTAAACGAGAAATCGAAACCCAACACCTTAGGGCACGTCCCTCGAATTTCCAAACGCAA
33776578 AACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCC
66 AACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCC
* * * * **
33776620 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTAAACGAG--AAATCGAAACCCAACACCTTAGGGCACG-TCCCTCGAATTTCCAAACG
33776685 CAAAACATTGCCTTATTTTGAAATTTT
63 CAAAACATTGCCTTATTTTGAAATTTT
33776712 ATAAATAAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
107 14 0.17
109 25 0.30
110 44 0.53
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (107 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAACACCTTAGGGCACGTCCCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTGAAATTTTTAAGAAGGATATTAAGCC
Found at i:33776975 original size:20 final size:19
Alignment explanation
Indices: 33776948--33776994 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
33776938 ATATATGTAT
33776948 ATATATATAAAGTATATAA
1 ATATATATAAAGTATATAA
* *
33776967 ATA-ATATATAAGTATGTAT
1 ATATATATA-AAGTATATAA
33776986 ATATATATA
1 ATATATATA
33776995 CAAATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 14 0.58
20 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
ATATATATAAAGTATATAA
Found at i:33777306 original size:23 final size:21
Alignment explanation
Indices: 33777258--33777311 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
33777248 ATACAATAGG
*
33777258 ATAATTATATTCCAAATTTAA
1 ATAATTATATTCCAAATATAA
*
33777279 ATAATTATATTCTAATATAATAA
1 ATAATTATATTCCAA-AT-ATAA
*
33777302 ATAATAATAT
1 ATAATTATAT
33777312 AATGCCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTATATTCCAAATATAA
Found at i:33788630 original size:23 final size:24
Alignment explanation
Indices: 33788586--33788630 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
33788576 ATTTACCCAT
*
33788586 GGGAGAAGCCAGAATAATTTTTTA
1 GGGAGAAGCCAGAATAAATTTTTA
33788610 GGGAG-AGCC-GAATGAAATTTT
1 GGGAGAAGCCAGAAT-AAATTTT
33788631 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.27
Consensus pattern (24 bp):
GGGAGAAGCCAGAATAAATTTTTA
Found at i:33790523 original size:4 final size:4
Alignment explanation
Indices: 33790514--33790538 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33790504 TTTTCTTACA
33790514 TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT T
33790539 ATGTCGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:33794881 original size:18 final size:18
Alignment explanation
Indices: 33794858--33794893 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33794848 TTAATATATT
33794858 ATTTTG-TATTTAAATTTA
1 ATTTTGATATTT-AATTTA
33794876 ATTTTGATATTTAATTTA
1 ATTTTGATATTTAATTTA
33794894 GTAGTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTTTGATATTTAATTTA
Found at i:33797029 original size:27 final size:25
Alignment explanation
Indices: 33796993--33797125 Score: 143
Period size: 27 Copynumber: 5.3 Consensus size: 25
33796983 ATTAATTATA
33796993 AAATAATTACAATATTCATACAAAATT
1 AAAT-ATTACAATATTCATACAAAA-T
33797020 ACAATATTACAATATTCATAC-AAA-
1 A-AATATTACAATATTCATACAAAAT
*
33797044 AAA-ATTGCAATATTCATACAAAACT
1 AAATATTACAATATTCATACAAAA-T
33797069 ATAATATTACAATATTCATAC-AAA-
1 A-AATATTACAATATTCATACAAAAT
*
33797093 AAAT-TTATAATATTCATACAAAATT
1 AAATATTACAATATTCATACAAAA-T
33797118 ACAATATT
1 A-AATATT
33797126 CATACAAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 22
0.79 0.03 0.19
Matches are distributed among these distances:
22 29 0.32
23 11 0.12
24 2 0.02
25 2 0.02
26 11 0.12
27 34 0.37
28 3 0.03
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (25 bp):
AAATATTACAATATTCATACAAAAT
Found at i:33797055 original size:22 final size:22
Alignment explanation
Indices: 33796992--33797259 Score: 138
Period size: 19 Copynumber: 12.2 Consensus size: 22
33796982 AATTAATTAT
*
33796992 AAAATAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
33797014 ---AAAATTACAATATTACAATATTC
1 AAAAAAATTACAATATT-C-ATA--C
*
33797037 ATACAAAAAAATTGCAATATTCATAC
1 --A-AAAA-AATTACAATATTCATAC
33797063 AAAACTATAATATTACAATATTCATAC
1 -AAA--A-AA-ATTACAATATTCATAC
* *
33797090 AAAAAATTTATAATATTCATAC
1 AAAAAAATTACAATATTCATAC
33797112 ---AAAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
* *
33797131 -AAAAAATTACTA-ATCCA-A-
1 AAAAAAATTACAATATTCATAC
* * *
33797149 AACTATAAA-TACAA-ATTTAATTAT
1 AA--AAAAATTACAATA-TTCA-TAC
*
33797173 AAAATAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
*
33797195 ---AACATTACAATATTCAT--
1 AAAAAAATTACAATATTCATAC
*
33797212 AAAAAAATTATAATATTCATAC
1 AAAAAAATTACAATATTCATAC
* *
33797234 AAAAAATTTAAAATATTCATAC
1 AAAAAAATTACAATATTCATAC
33797256 AAAA
1 AAAA
33797260 TTCTAATCTA
Statistics
Matches: 191, Mismatches: 24, Indels: 62
0.69 0.09 0.22
Matches are distributed among these distances:
19 47 0.25
20 25 0.13
21 18 0.09
22 43 0.23
23 12 0.06
24 6 0.03
25 1 0.01
26 6 0.03
27 16 0.08
28 3 0.02
29 3 0.02
30 11 0.06
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:33797060 original size:49 final size:49
Alignment explanation
Indices: 33796992--33797125 Score: 214
Period size: 49 Copynumber: 2.7 Consensus size: 49
33796982 AATTAATTAT
*
33796992 AAAATAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
33797041 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
33797090 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAATTACAATATT
33797126 CATACAAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:33797075 original size:41 final size:42
Alignment explanation
Indices: 33797027--33797237 Score: 127
Period size: 39 Copynumber: 5.0 Consensus size: 42
33797017 ATTACAATAT
*
33797027 TACAATATTCATACAAAAAAA-TTGCAATATTCATACAAAAC
1 TACAATATTCATACAAAAAAATTTACAATATTCATACAAAAC
* * *
33797068 TATAATATTACAATATTCATACAAAAAATTTATAATATTCATACAAAAT
1 TACAATATT-C-ATA--C--A-AAAAAATTTACAATATTCATACAAAAC
* * *
33797117 TACAATATTCATAC-AAAAAA-TTACTA-ATCCAAAACTATAAA-
1 TACAATATTCATACAAAAAAATTTACAATATTC-ATAC-A-AAAC
* * * * *
33797158 TACAA-ATTTAATTATAAAATAA-TTACAATATTCATACAACAT
1 TACAATA-TTCA-TACAAAAAAATTTACAATATTCATACAAAAC
*
33797200 TACAATATTCAT--AAAAAAA-TTATAATATTCATACAAAA
1 TACAATATTCATACAAAAAAATTTACAATATTCATACAAAA
33797238 AATTTAAAAT
Statistics
Matches: 133, Mismatches: 20, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
39 26 0.20
40 8 0.06
41 26 0.20
42 15 0.11
43 17 0.13
44 3 0.02
45 2 0.02
47 4 0.03
48 7 0.05
49 25 0.19
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (42 bp):
TACAATATTCATACAAAAAAATTTACAATATTCATACAAAAC
Found at i:33797814 original size:27 final size:27
Alignment explanation
Indices: 33797316--33797803 Score: 976
Period size: 27 Copynumber: 18.1 Consensus size: 27
33797306 TAATTAATAA
33797316 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797343 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797370 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797397 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797424 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797451 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797478 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797505 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797532 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797559 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797586 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797613 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797640 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797667 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797694 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797721 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797748 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797775 CTCCGAAGTAGGCACCACCATTGGCGC
1 CTCCGAAGTAGGCACCACCATTGGCGC
33797802 CT
1 CT
33797804 TCCAGATAGG
Statistics
Matches: 461, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 461 1.00
ACGTcount: A:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (27 bp):
CTCCGAAGTAGGCACCACCATTGGCGC
Found at i:33804740 original size:20 final size:20
Alignment explanation
Indices: 33804715--33804757 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
33804705 TGTAGCTTTG
33804715 GTTTCTTTTAAAGCAGTTTA
1 GTTTCTTTTAAAGCAGTTTA
33804735 GTTTCTTTTAAAGCAGTTTA
1 GTTTCTTTTAAAGCAGTTTA
33804755 GTT
1 GTT
33804758 AATCATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.51
Consensus pattern (20 bp):
GTTTCTTTTAAAGCAGTTTA
Found at i:33807047 original size:16 final size:17
Alignment explanation
Indices: 33807026--33807058 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33807016 TTTATTAATT
33807026 ATTTAAT-GTTAAAATA
1 ATTTAATGGTTAAAATA
33807042 ATTTAATGGTTAAAATA
1 ATTTAATGGTTAAAATA
33807059 TTTTGCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTTAATGGTTAAAATA
Found at i:33807061 original size:16 final size:15
Alignment explanation
Indices: 33807025--33807061 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
33807015 TTTTATTAAT
33807025 TATTTAATGTTAAAA
1 TATTTAATGTTAAAA
33807040 TAATTTAATGGTTAAAA
1 T-ATTTAAT-GTTAAAA
33807057 TATTT
1 TATTT
33807062 TGCTAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (15 bp):
TATTTAATGTTAAAA
Found at i:33814861 original size:15 final size:15
Alignment explanation
Indices: 33814841--33814869 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33814831 GAACTATTAG
33814841 TTTTTTCTATTAATA
1 TTTTTTCTATTAATA
33814856 TTTTTTCTATTAAT
1 TTTTTTCTATTAAT
33814870 TCCTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTCTATTAATA
Found at i:33826215 original size:9 final size:9
Alignment explanation
Indices: 33826197--33826237 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
33826187 TGGCTGAAGC
33826197 TCTTCCTCT
1 TCTTCCTCT
*
33826206 TCTTCATCT
1 TCTTCCTCT
*
33826215 TCTTCCTCC
1 TCTTCCTCT
33826224 TCTTCCTCT
1 TCTTCCTCT
33826233 TCTTC
1 TCTTC
33826238 TTCACCTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.54
Consensus pattern (9 bp):
TCTTCCTCT
Found at i:33826263 original size:3 final size:3
Alignment explanation
Indices: 33826257--33826288 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33826247 CTCGCCATCA
*
33826257 TCG TCG TCG TCG TCG TCG TCG TCA TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
33826289 ATCATCTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.34, G:0.28, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:33826289 original size:9 final size:9
Alignment explanation
Indices: 33826252--33826291 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
33826242 CCTTCCTCGC
*
33826252 CATCATCGT
1 CATCGTCGT
*
33826261 CGTCGTCGT
1 CATCGTCGT
*
33826270 CGTCGTCGT
1 CATCGTCGT
33826279 CATCGTCGT
1 CATCGTCGT
33826288 CATC
1 CATC
33826292 ATCTTCGTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.10, C:0.35, G:0.23, T:0.33
Consensus pattern (9 bp):
CATCGTCGT
Found at i:33826293 original size:12 final size:12
Alignment explanation
Indices: 33826252--33826300 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
33826242 CCTTCCTCGC
33826252 CATCATCGTCGT
1 CATCATCGTCGT
* *
33826264 CGTCGTCGTCGT
1 CATCATCGTCGT
*
33826276 CGTCATCGTCGT
1 CATCATCGTCGT
*
33826288 CATCATCTTCGT
1 CATCATCGTCGT
33826300 C
1 C
33826301 CTCTTCTCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.10, C:0.35, G:0.20, T:0.35
Consensus pattern (12 bp):
CATCATCGTCGT
Found at i:33826416 original size:21 final size:21
Alignment explanation
Indices: 33826392--33826431 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
33826382 ATCTTCCTCC
33826392 TCACCTGCAT-CTTCATCTTGA
1 TCACCTGC-TGCTTCATCTTGA
33826413 TCACCTGCTGCTTCATCTT
1 TCACCTGCTGCTTCATCTT
33826432 CCTCATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.15, C:0.35, G:0.10, T:0.40
Consensus pattern (21 bp):
TCACCTGCTGCTTCATCTTGA
Found at i:33826439 original size:24 final size:24
Alignment explanation
Indices: 33826381--33826439 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 24
33826371 TCACCTGATC
*
33826381 CATCTTCCTCCTCACCTGCATCTT
1 CATCTTCCTCATCACCTGCATCTT
*
33826405 CATC-T--TGATCACCTGC-TGCTT
1 CATCTTCCTCATCACCTGCAT-CTT
33826426 CATCTTCCTCATCA
1 CATCTTCCTCATCA
33826440 TCATTGTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 1 0.04
23 1 0.04
24 9 0.32
ACGTcount: A:0.15, C:0.41, G:0.07, T:0.37
Consensus pattern (24 bp):
CATCTTCCTCATCACCTGCATCTT
Found at i:33830216 original size:100 final size:101
Alignment explanation
Indices: 33830029--33830267 Score: 372
Period size: 100 Copynumber: 2.4 Consensus size: 101
33830019 AATTCATCAT
* *
33830029 TTACATTCATAATGTCATAACCCAGTTATGGTCTTATCATCAGAACGCCATAACCCAGCTATGGT
1 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAACGCCATAACCCAGCTATGGT
* ** *
33830094 CTTACATATAAACATTGTCATGGTCCAAATATGGCC
66 CTTACATATAAACACTACCATGGTCCAAACATGGCC
* * *
33830130 TTACGTTCATAGTGCCATAACCCAGTT-TGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAACGCCATAACCCAGCTATGGT
* *
33830194 CTTACATATAAACACTACCATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAAACATGGCC
33830230 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATC
33830268 CGTCAATTCA
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 91 0.73
101 34 0.27
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAACGCCATAACCCAGCTATGGT
CTTACATATAAACACTACCATGGTCCAAACATGGCC
Found at i:33836647 original size:35 final size:35
Alignment explanation
Indices: 33836566--33836647 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
33836556 ATATATACAC
*
33836566 TAAA-TAAAATAATAATAAAATAATATTTAAAAAT
1 TAAATTAAAATATTAATAAAATAATATTTAAAAAT
* **
33836600 TAAATTAAAATATTAATAAACTAATATTTATTTAAT
1 TAAATTAAAATATTAATAAAATAATATTTA-AAAAT
33836636 T-AATTAAAATAT
1 TAAATTAAAATAT
33836648 CTCCAACATC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 4 0.10
35 34 0.81
36 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (35 bp):
TAAATTAAAATATTAATAAAATAATATTTAAAAAT
Found at i:33855098 original size:28 final size:28
Alignment explanation
Indices: 33855058--33855912 Score: 1710
Period size: 28 Copynumber: 30.5 Consensus size: 28
33855048 ATTACATATT
33855058 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855086 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855114 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855142 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855170 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855198 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855226 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855254 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855282 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855310 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855338 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855366 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855394 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855422 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855450 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855478 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855506 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855534 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855562 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855590 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855618 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855646 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855674 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855702 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855730 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855758 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855786 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855814 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855842 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855870 AACAAATATAAACATTTTTTTGGAAAGC
1 AACAAATATAAACATTTTTTTGGAAAGC
33855898 AACAAATATAAACAT
1 AACAAATATAAACAT
33855913 ACTAAACTAT
Statistics
Matches: 827, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 827 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (28 bp):
AACAAATATAAACATTTTTTTGGAAAGC
Found at i:33858597 original size:75 final size:75
Alignment explanation
Indices: 33858368--33858665 Score: 324
Period size: 75 Copynumber: 4.0 Consensus size: 75
33858358 TGGGTATGAT
* * * * *
33858368 GTATGAATATGGA-G-GT-GAACACTGAATTGCTACCATATCTTATAGAAGATTCTACAAGTCCT
1 GTATGAATATGGAGGAGTGGAACATTGAATTGATATCAAAGCTTATAGAAGATTCTACAAGTCCT
33858430 AAAGAGATGG
66 AAAGAGATGG
* * * *
33858440 GTAAGACTATGGA-GA-T-GAACATTGAATTGTTACCAAAGCCTTATAGAAGATTCTACAAGTCC
1 GTATGAATATGGAGGAGTGGAACATTGAATTGATATCAAAG-CTTATAGAAGATTCTACAAGTCC
33858502 TAAAGAGATGG
65 TAAAGAGATGG
* * * *
33858513 GTCAT-AATATGGAGGAGTGGAGCATCGAATTGATATCAAAGCTTATAGAAGATTCTCCAAGTAC
1 GT-ATGAATATGGAGGAGTGGAACATTGAATTGATATCAAAGCTTATAGAAGATTCTACAAGTCC
*
33858577 TAAAGAGATAG
65 TAAAGAGATGG
* * * * * * *
33858588 ATATGAATATTGAGGAG-GAGAACGTTGAATTGATGTCAAAGCTTATAGAAGATTCTTCAAATGC
1 GTATGAATATGGAGGAGTG-GAACATTGAATTGATATCAAAGCTTATAGAAGATTCTACAAGTCC
33858652 TAAAGAGATGG
65 TAAAGAGATGG
33858663 GTA
1 GTA
33858666 AGGATGTGGC
Statistics
Matches: 192, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
72 31 0.16
73 43 0.22
74 6 0.03
75 94 0.49
76 18 0.09
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (75 bp):
GTATGAATATGGAGGAGTGGAACATTGAATTGATATCAAAGCTTATAGAAGATTCTACAAGTCCT
AAAGAGATGG
Found at i:33863039 original size:19 final size:19
Alignment explanation
Indices: 33863015--33863064 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
33863005 TTGTTTGATA
33863015 AAATTAATCTTATTTTATT
1 AAATTAATCTTATTTTATT
*
33863034 AAATTAA--TTA-TTTCTT
1 AAATTAATCTTATTTTATT
33863050 AAATCTAATCTTATT
1 AAAT-TAATCTTATT
33863065 AATATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
19 10 0.38
20 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTAATCTTATTTTATT
Found at i:33863736 original size:29 final size:29
Alignment explanation
Indices: 33863699--33863763 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
33863689 GTAAGTACTT
*
33863699 AATTTTTTTAAAAAATTAAAAATTATAAA
1 AATTATTTTAAAAAATTAAAAATTATAAA
** * *
33863728 AATTATTTTGTAAAATTAAAATTTATTAA
1 AATTATTTTAAAAAATTAAAAATTATAAA
33863757 AATTATT
1 AATTATT
33863764 AAAAAGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AATTATTTTAAAAAATTAAAAATTATAAA
Found at i:33867089 original size:26 final size:25
Alignment explanation
Indices: 33867059--33867110 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
33867049 GTCAACTCTC
33867059 TTTTATAACCAAATATAAAATATTAA
1 TTTTATAA-CAAATATAAAATATTAA
* * *
33867085 TTTTATAACTATTATAAAATTTTAA
1 TTTTATAACAAATATAAAATATTAA
33867110 T
1 T
33867111 AATTTATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTTATAACAAATATAAAATATTAA
Found at i:33872307 original size:14 final size:14
Alignment explanation
Indices: 33872288--33872326 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
33872278 CATTACATAT
33872288 TAAAATGTTTTCCG
1 TAAAATGTTTTCCG
* *
33872302 TAAAATGATTTCTG
1 TAAAATGTTTTCCG
*
33872316 GAAAATGTTTT
1 TAAAATGTTTT
33872327 ACTTTTCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (14 bp):
TAAAATGTTTTCCG
Found at i:33878330 original size:12 final size:12
Alignment explanation
Indices: 33878313--33878338 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33878303 CTTGTAACCC
33878313 TGTTTGAGTTCA
1 TGTTTGAGTTCA
33878325 TGTTTGAGTTCA
1 TGTTTGAGTTCA
33878337 TG
1 TG
33878339 CCTCACACGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (12 bp):
TGTTTGAGTTCA
Found at i:33879479 original size:15 final size:15
Alignment explanation
Indices: 33879459--33879496 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
33879449 ACCTCCTCCT
33879459 ACCGCAGCTGCTGCC
1 ACCGCAGCTGCTGCC
33879474 ACCGCAGCTGCTGCC
1 ACCGCAGCTGCTGCC
*
33879489 GCCGCAGC
1 ACCGCAGC
33879497 CGCGTCGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.47, G:0.29, T:0.11
Consensus pattern (15 bp):
ACCGCAGCTGCTGCC
Found at i:33880650 original size:207 final size:208
Alignment explanation
Indices: 33880397--33880838 Score: 832
Period size: 207 Copynumber: 2.1 Consensus size: 208
33880387 TTAAATGTTA
* * *
33880397 TTTTTATTTAATTTATAATTAATTTTATTTTTTATGACTTAAAAATAAATATTTTATAAAAATAT
1 TTTTTTTTTAA-TTACAAATAATTTTATTTTTTATGACTTAAAAATAAATATTTTATAAAAATAT
33880462 GAATATTTGTTTTAAAAAAAATTAGACAATATTATTTGCCAACCAAAATGTAAAATTCAAACAAT
65 GAATATTTGTTTTAAAAAAAATTAGACAATATTATTTGCCAACCAAAATGTAAAATTCAAACAAT
33880527 TTAGAACCGATTTTCCAATATAGAAACTTATTTTGACTTTTTGTGTGTATTATCAAAGCGTTTAC
130 TTAGAACCGATTTTCCAATATAGAAACTTATTTTGACTTTTTGTGTGTATTATCAAAGCGTTTAC
33880592 ATGATTGTGATCTT
195 ATGATTGTGATCTT
33880606 TTTTTTTTTAATTACAAATAATTTTA-TTTTTATGACTTAAAAATAAATATTTTATAAAAATATG
1 TTTTTTTTTAATTACAAATAATTTTATTTTTTATGACTTAAAAATAAATATTTTATAAAAATATG
33880670 AATATTTGTTTTAAAAAAAATTAGACAATATTATTTGCCAACCAAAATGTAAAATTCAAACAATT
66 AATATTTGTTTTAAAAAAAATTAGACAATATTATTTGCCAACCAAAATGTAAAATTCAAACAATT
33880735 TAGAACCGATTTTCCAATATAGAAACTTATTTTGACTTTTTGTGTGTATTATCAAAGCGTTTACA
131 TAGAACCGATTTTCCAATATAGAAACTTATTTTGACTTTTTGTGTGTATTATCAAAGCGTTTACA
33880800 TGATTGTGATCTT
196 TGATTGTGATCTT
33880813 TTTTTTTTTAATTACAAATAAATTTT
1 TTTTTTTTTAATTACAAAT-AATTTT
33880839 TATATTAGTC
Statistics
Matches: 229, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
207 200 0.87
208 19 0.08
209 10 0.04
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (208 bp):
TTTTTTTTTAATTACAAATAATTTTATTTTTTATGACTTAAAAATAAATATTTTATAAAAATATG
AATATTTGTTTTAAAAAAAATTAGACAATATTATTTGCCAACCAAAATGTAAAATTCAAACAATT
TAGAACCGATTTTCCAATATAGAAACTTATTTTGACTTTTTGTGTGTATTATCAAAGCGTTTACA
TGATTGTGATCTT
Found at i:33883926 original size:3 final size:3
Alignment explanation
Indices: 33883918--33883959 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
33883908 TTTCATCCAA
*
33883918 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33883960 TTCAGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:33885745 original size:14 final size:14
Alignment explanation
Indices: 33885708--33885760 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
33885698 TATATTTAAA
33885708 AAAATATAAAAACTT
1 AAAATATAAAAA-TT
* * *
33885723 TATACATAAAAATT
1 AAAATATAAAAATT
*
33885737 AAAATATAAAAACT
1 AAAATATAAAAATT
*
33885751 AAAATTTAAA
1 AAAATATAAA
33885761 TTTTAAAAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 21 0.70
15 9 0.30
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:33903828 original size:19 final size:18
Alignment explanation
Indices: 33903784--33903829 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
33903774 ACCAAACATT
33903784 TATTTTGATTTTTTATACA
1 TATTTT-ATTTTTTATACA
33903803 T-TTTTATTTTATTATGA-A
1 TATTTTATTTT-TTAT-ACA
33903821 TATTTTATT
1 TATTTTATT
33903830 ATCTCCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TATTTTATTTTTTATACA
Found at i:33922536 original size:17 final size:17
Alignment explanation
Indices: 33922504--33922556 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
33922494 ATATTACGAA
*
33922504 TTAAAAATAGATATATAT
1 TTAATAATA-ATATATAT
*
33922522 TTAATAATAATATATAA
1 TTAATAATAATATATAT
* *
33922539 TAAATAATAAAATATAT
1 TTAATAATAATATATAT
33922556 T
1 T
33922557 ATTTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 22 0.73
18 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAATAATAATATATAT
Found at i:33922618 original size:23 final size:24
Alignment explanation
Indices: 33922573--33922618 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
33922563 AATTAATTAT
*
33922573 TAATAACATATGAAATATGTATAA
1 TAATAACATATGAAATATATATAA
33922597 TAATAA-ATATGAAACTA-ATATA
1 TAATAACATATGAAA-TATATATA
33922619 GTGTGCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (24 bp):
TAATAACATATGAAATATATATAA
Found at i:33927690 original size:17 final size:17
Alignment explanation
Indices: 33927658--33927710 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
33927648 ATATTACGAA
*
33927658 TTAAAAATAGATATATAT
1 TTAATAATA-ATATATAT
*
33927676 TTAATAATAATATATAA
1 TTAATAATAATATATAT
* *
33927693 TAAATAATAAAATATAT
1 TTAATAATAATATATAT
33927710 T
1 T
33927711 ATTTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 22 0.73
18 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAATAATAATATATAT
Found at i:33927772 original size:23 final size:24
Alignment explanation
Indices: 33927727--33927772 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
33927717 AATTAATTAT
*
33927727 TAATAACATATGAAATATGTATAA
1 TAATAACATATGAAATATATATAA
33927751 TAATAA-ATATGAAACTA-ATATA
1 TAATAACATATGAAA-TATATATA
33927773 GTGTGCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (24 bp):
TAATAACATATGAAATATATATAA
Found at i:33946249 original size:38 final size:38
Alignment explanation
Indices: 33946200--33946332 Score: 158
Period size: 38 Copynumber: 3.3 Consensus size: 38
33946190 TCCTTCTAGC
33946200 TTTTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
1 TTTTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
* *
33946238 TTTTGCTGATTTGCTCCCTCTGTTCCTCTGTTTATTTTCTTTTT
1 TTTTGCCGATTTGCTCCCTCTGTT--TCT-TTTCTTTTC---TT
*
33946282 TTTCTGCCGATTTGCTCCCTCTGTTTCTTTTCCTTTCTT
1 TTT-TGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
* *
33946321 TTCTGTCGATTT
1 TTTTGCCGATTT
33946333 CCTCAGTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
38 31 0.38
39 4 0.05
40 3 0.04
41 8 0.10
42 7 0.09
43 3 0.04
44 5 0.06
45 20 0.25
ACGTcount: A:0.04, C:0.26, G:0.11, T:0.59
Consensus pattern (38 bp):
TTTTGCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTT
Found at i:33946266 original size:46 final size:46
Alignment explanation
Indices: 33946216--33946324 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 46
33946206 CGATTTGCTC
* *
33946216 CCTCTGTTTCTTTTCTTTTCTTTTTTGCTGATTTGCTCCCTCTGTT
1 CCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCTGTT
*
33946262 CCTCTGTTTATTTTCTTTT-TTTTCTGCCGATTTGCTCCCTCTGTT
1 CCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCTGTT
*
33946307 --TCT-TTTCCTTTCTTTTCT
1 CCTCTGTTTCTTTTCTTTTCT
33946325 GTCGATTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
42 11 0.19
43 4 0.07
45 24 0.42
46 18 0.32
ACGTcount: A:0.03, C:0.27, G:0.09, T:0.61
Consensus pattern (46 bp):
CCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCTGTT
Found at i:33948572 original size:54 final size:53
Alignment explanation
Indices: 33948514--33948712 Score: 139
Period size: 54 Copynumber: 3.5 Consensus size: 53
33948504 TGAATCTAGA
33948514 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATACTTAATAT
1 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATA-TTAATAT
* * * * *
33948568 TAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATA
1 TAATTATTTTAAATT-T-TATTA-A--ATCATATATT-TTA-ATTA--AAA-T-ATAT--TAATA
33948633 T
53 T
* * * *
33948634 TGATTA-TTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
1 TAATTATTTTA-AATTTTATTAAATCATATATTTTAATTAAAATATA-TTAATAT
* *
33948688 TAATTATGTTTAAATATGATTAAAT
1 TAATTAT-TTTAAATTTTATTAAAT
33948713 TATTTATTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
54 23 0.21
55 15 0.14
56 9 0.08
57 4 0.04
59 13 0.12
60 4 0.04
61 12 0.11
63 4 0.04
64 6 0.05
65 7 0.06
66 14 0.13
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (53 bp):
TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTAATAT
Found at i:33948674 original size:18 final size:17
Alignment explanation
Indices: 33948646--33948680 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33948636 ATTATTAAGA
*
33948646 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33948663 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33948681 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33949206 original size:16 final size:16
Alignment explanation
Indices: 33949163--33949197 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33949153 TGGTTCCTTA
*
33949163 TTAATTATAA-TATAT
1 TTAATAATAATTATAT
33949178 TTAATAATAATTATAT
1 TTAATAATAATTATAT
33949194 TTAA
1 TTAA
33949198 ATATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATAATTATAT
Found at i:33949396 original size:16 final size:16
Alignment explanation
Indices: 33949372--33949404 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33949362 TTGATTTGCT
*
33949372 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
33949388 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
33949404 A
1 A
33949405 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:33951599 original size:29 final size:30
Alignment explanation
Indices: 33951564--33951635 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
33951554 TAATTTAAGT
*
33951564 TTCATGTGTATAATTGC-ACTAAATCAAAG
1 TTCATGTGTATAATTGCAACTAAACCAAAG
* *
33951593 TTCATGTAGCA-AATTGCATATTAAACCAAAG
1 TTCATGT-GTATAATTGCA-ACTAAACCAAAG
*
33951624 TTCATGTATATA
1 TTCATGTGTATA
33951636 TTTGATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 13 0.38
30 3 0.09
31 18 0.53
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (30 bp):
TTCATGTGTATAATTGCAACTAAACCAAAG
Found at i:33955353 original size:5 final size:5
Alignment explanation
Indices: 33955343--33956373 Score: 2062
Period size: 5 Copynumber: 206.2 Consensus size: 5
33955333 TGAGCATTCG
33955343 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955393 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955443 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955493 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955543 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955593 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955643 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955693 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955743 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955793 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955843 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955893 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955943 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33955993 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956043 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956093 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956143 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956193 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956243 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956293 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
33956343 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
33956374 AATTTTCGAG
Statistics
Matches: 1026, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 1026 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATCGA
Found at i:33957820 original size:2 final size:2
Alignment explanation
Indices: 33957813--33957841 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33957803 TGAAATATTT
33957813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33957842 CAGGTTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33961736 original size:16 final size:17
Alignment explanation
Indices: 33961709--33961745 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
33961699 AATTAAGTCA
33961709 ATAATAATATAAAATTT
1 ATAATAATATAAAATTT
*
33961726 ATAAT-ATATAACATTT
1 ATAATAATATAAAATTT
33961742 ATAA
1 ATAA
33961746 GTAAGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATATAAAATTT
Found at i:33962511 original size:118 final size:118
Alignment explanation
Indices: 33962285--33962518 Score: 321
Period size: 118 Copynumber: 2.0 Consensus size: 118
33962275 ATTATTGTGC
*
33962285 AATTACATGCAATTAAATCCAAATCCAATTACTTGGTGGCTTTCCAAATACTATTGAATTCAAGA
1 AATTACATGCAATTAAATCCAAATCCAATTACTTGGTGACTTTCCAAATACTATTGAATTCAAGA
* * *
33962350 AAAAAGTAATTTAATATCATGTTCATTTTTATAACGGCATAATGATAATTTGT
66 AAAAAGTAATTTAATATCATGTTCATTCTCATAAAGGCATAATGATAATTTGT
* * * *
33962403 AATTACATGCAATTACA-CCAAATCGAATTA-TTAGGTGACTTTCTAGATACTATTGAATTCAAG
1 AATTACATGCAATTAAATCCAAATCCAATTACTT-GGTGACTTTCCAAATACTATTGAATTCAAG
** *
33962466 AAAAAAAAGTAATTT-ATATCATGTTTGTTCTCGTAAAGGCATAATGATAATTT
65 --AAAAAAGTAATTTAATATCATGTTCATTCTCATAAAGGCATAATGATAATTT
33962519 TAACCTTCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
116 2 0.02
117 39 0.38
118 48 0.47
119 13 0.13
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (118 bp):
AATTACATGCAATTAAATCCAAATCCAATTACTTGGTGACTTTCCAAATACTATTGAATTCAAGA
AAAAAGTAATTTAATATCATGTTCATTCTCATAAAGGCATAATGATAATTTGT
Found at i:33971996 original size:42 final size:43
Alignment explanation
Indices: 33971896--33972005 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 43
33971886 CAATGTCAAC
* * **
33971896 GTCCCAGACGTGGTCTTACATGTAATCAAATAACGATGTCACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAACGACATCACT
* * * *
33971939 GTCCCAGACAGGGTCTTACACGTAATCATAT-ATGACATCAGT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAACGACATCACT
33971981 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACACGTAA
33972006 ATCTTAAACC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 31 0.53
43 27 0.47
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATAACGACATCACT
Found at i:33975462 original size:18 final size:18
Alignment explanation
Indices: 33975439--33975477 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
33975429 ACATTGCTTC
33975439 TCAAAAGTACTTTTAAAG
1 TCAAAAGTACTTTTAAAG
* *
33975457 TCAAAAGTATTTTTGAAG
1 TCAAAAGTACTTTTAAAG
33975475 TCA
1 TCA
33975478 GAGGCAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (18 bp):
TCAAAAGTACTTTTAAAG
Found at i:33978867 original size:6 final size:7
Alignment explanation
Indices: 33978850--33978874 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33978840 TAAATTTTCA
33978850 AAAAAAT
1 AAAAAAT
33978857 AAAAAAT
1 AAAAAAT
33978864 AAAAAAT
1 AAAAAAT
33978871 AAAA
1 AAAA
33978875 CTTTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:33984301 original size:399 final size:399
Alignment explanation
Indices: 33983563--33984360 Score: 1596
Period size: 399 Copynumber: 2.0 Consensus size: 399
33983553 TGGCCAAATC
33983563 TTGTCGGTGTTGATGTCTGACCACATGACTGTTTTTCTTTCTTTAATGCCTTTCTCTGCCATGTA
1 TTGTCGGTGTTGATGTCTGACCACATGACTGTTTTTCTTTCTTTAATGCCTTTCTCTGCCATGTA
33983628 CTGAAGATGTTGGATTTCTGACCGTATATTTTAACCTTATGGAGGATTCCTTTTACTTTCAATTG
66 CTGAAGATGTTGGATTTCTGACCGTATATTTTAACCTTATGGAGGATTCCTTTTACTTTCAATTG
33983693 AAGTGTTTTTTTTTTTTGGTGTTTAGATAAATTTGTATAAAATATTTTTTATTGTTTAATAATTT
131 AAGTGTTTTTTTTTTTTGGTGTTTAGATAAATTTGTATAAAATATTTTTTATTGTTTAATAATTT
33983758 TTAAAAAAATATAAAATAGATATACATTTGAGATTTTCTTATTTTTTTTATTGTTTAATTGAGTT
196 TTAAAAAAATATAAAATAGATATACATTTGAGATTTTCTTATTTTTTTTATTGTTTAATTGAGTT
33983823 TATTTTATATTTTATAATTTTTTACATATATTAAAAATATTTTGTTAAATTCAAATTTATTACAA
261 TATTTTATATTTTATAATTTTTTACATATATTAAAAATATTTTGTTAAATTCAAATTTATTACAA
33983888 CATCATTTGTTAGTTACATAATTACCAAGTGTGTATTTTTTATTTAAAAATGTGACATCAACAAA
326 CATCATTTGTTAGTTACATAATTACCAAGTGTGTATTTTTTATTTAAAAATGTGACATCAACAAA
33983953 ATTGACAAA
391 ATTGACAAA
33983962 TTGTCGGTGTTGATGTCTGACCACATGACTGTTTTTCTTTCTTTAATGCCTTTCTCTGCCATGTA
1 TTGTCGGTGTTGATGTCTGACCACATGACTGTTTTTCTTTCTTTAATGCCTTTCTCTGCCATGTA
33984027 CTGAAGATGTTGGATTTCTGACCGTATATTTTAACCTTATGGAGGATTCCTTTTACTTTCAATTG
66 CTGAAGATGTTGGATTTCTGACCGTATATTTTAACCTTATGGAGGATTCCTTTTACTTTCAATTG
33984092 AAGTGTTTTTTTTTTTTGGTGTTTAGATAAATTTGTATAAAATATTTTTTATTGTTTAATAATTT
131 AAGTGTTTTTTTTTTTTGGTGTTTAGATAAATTTGTATAAAATATTTTTTATTGTTTAATAATTT
33984157 TTAAAAAAATATAAAATAGATATACATTTGAGATTTTCTTATTTTTTTTATTGTTTAATTGAGTT
196 TTAAAAAAATATAAAATAGATATACATTTGAGATTTTCTTATTTTTTTTATTGTTTAATTGAGTT
33984222 TATTTTATATTTTATAATTTTTTACATATATTAAAAATATTTTGTTAAATTCAAATTTATTACAA
261 TATTTTATATTTTATAATTTTTTACATATATTAAAAATATTTTGTTAAATTCAAATTTATTACAA
33984287 CATCATTTGTTAGTTACATAATTACCAAGTGTGTATTTTTTATTTAAAAATGTGACATCAACAAA
326 CATCATTTGTTAGTTACATAATTACCAAGTGTGTATTTTTTATTTAAAAATGTGACATCAACAAA
33984352 ATTGACAAA
391 ATTGACAAA
33984361 AAAAATTTTA
Statistics
Matches: 399, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
399 399 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (399 bp):
TTGTCGGTGTTGATGTCTGACCACATGACTGTTTTTCTTTCTTTAATGCCTTTCTCTGCCATGTA
CTGAAGATGTTGGATTTCTGACCGTATATTTTAACCTTATGGAGGATTCCTTTTACTTTCAATTG
AAGTGTTTTTTTTTTTTGGTGTTTAGATAAATTTGTATAAAATATTTTTTATTGTTTAATAATTT
TTAAAAAAATATAAAATAGATATACATTTGAGATTTTCTTATTTTTTTTATTGTTTAATTGAGTT
TATTTTATATTTTATAATTTTTTACATATATTAAAAATATTTTGTTAAATTCAAATTTATTACAA
CATCATTTGTTAGTTACATAATTACCAAGTGTGTATTTTTTATTTAAAAATGTGACATCAACAAA
ATTGACAAA
Found at i:33995592 original size:30 final size:30
Alignment explanation
Indices: 33995556--33995618 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
33995546 ACTTATTTTA
* *
33995556 TTGTTAATTTTTTTATTATTTTAAAGAGAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
33995586 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
33995616 TTG
1 TTG
33995619 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:33996561 original size:29 final size:28
Alignment explanation
Indices: 33996511--33996580 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
33996501 AATAAACACT
* *
33996511 AAAAATTTATTTAAAAAATAAATAATAA
1 AAAAATATATTTAAAAAATAAAAAATAA
* *
33996539 AAAAAGTAT-TTTAAAAATTTAAAAAATTA
1 AAAAA-TATATTTAAAAA-ATAAAAAATAA
33996568 AAAAATATATTTA
1 AAAAATATATTTA
33996581 TTTATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 16 0.46
29 19 0.54
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAAATATATTTAAAAAATAAAAAATAA
Found at i:34002119 original size:30 final size:30
Alignment explanation
Indices: 34002083--34002144 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
34002073 ACTTATTTTA
* *
34002083 TTGTTAATTTTTTTATTATTTTAAAGAGAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
34002113 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
34002143 TT
1 TT
34002145 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:34002980 original size:29 final size:28
Alignment explanation
Indices: 34002930--34002999 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
34002920 AATAAACACT
* *
34002930 AAAAATTTATTTAAAAAATAAATAATAA
1 AAAAATATATTTAAAAAATAAAAAATAA
* *
34002958 AAAAAGTAT-TTTAAAAATTTAAAAAATTA
1 AAAAA-TATATTTAAAAA-ATAAAAAATAA
34002987 AAAAATATATTTA
1 AAAAATATATTTA
34003000 TTTATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 16 0.46
29 19 0.54
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAAATATATTTAAAAAATAAAAAATAA
Found at i:34025656 original size:78 final size:79
Alignment explanation
Indices: 34025555--34025704 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 79
34025545 TTAGACAATA
* * * *
34025555 TGTTGTTATAGAGAACTAATTTAATAAAGAATGCACTTTATAATTATAGATGTTGCTGTTATAAG
1 TGTTGTTATAGAAAACTAATTTAATAAAGAATGCACTTCATAACTATAGATGTTACTGTTATAAG
34025620 TGAAAATAAAACAT
66 TGAAAATAAAACAT
* * *
34025634 TGTTGTTATA-AAAACTAATTTAATAAAGAATGTACTTCATAACTATGGATGTTATTGTTATAAG
1 TGTTGTTATAGAAAACTAATTTAATAAAGAATGCACTTCATAACTATAGATGTTACTGTTATAAG
34025698 TGAAAAT
66 TGAAAAT
34025705 CTGTTACAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 54 0.84
79 10 0.16
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (79 bp):
TGTTGTTATAGAAAACTAATTTAATAAAGAATGCACTTCATAACTATAGATGTTACTGTTATAAG
TGAAAATAAAACAT
Found at i:34032952 original size:6 final size:6
Alignment explanation
Indices: 34032941--34032971 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
34032931 TCACCCACAA
34032941 AAACAC AAACAC AAACAC AAACAC AAACAC A
1 AAACAC AAACAC AAACAC AAACAC AAACAC A
34032972 CAGAGATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:34034107 original size:133 final size:133
Alignment explanation
Indices: 34033869--34034113 Score: 357
Period size: 133 Copynumber: 1.8 Consensus size: 133
34033859 TTGTGTATAT
* * * *
34033869 ATATGTGGTGTAACGGTCTTGATTCCTCCTAAAGGGAATTGCTGTATAACGATCTTGATTCCTCC
1 ATATGCGGTGTAACGGTCTTGATTCCTCCTAAAGGAAATTGCGGGATAACGATCTTGATTCCTCC
* * * **
34033934 TAAGGGGGATCGCATGAGCTGCATTTAAGTGAGTGTCTATCTACACGCGTGCTAGTCTTTTTCTG
66 TAAAGGGAATCACATGAGCTGCATTTAAGTGAGCATCTATCTACACGCGTGCTAGTCTTTTTCTG
34033999 TCC
131 TCC
*
34034002 ATATGCGGTGTAACGGTTTTGATTCCTCCTAAAGGAAATTGCGGCGA-AACGATCTTGATTCCTC
1 ATATGCGGTGTAACGGTCTTGATTCCTCCTAAAGGAAATTGCGG-GATAACGATCTTGATTCCTC
* **
34034066 CTAAATGGAATCACATGATTTGCATTTAAGTGAGCATCTATCTACACG
65 CTAAAGGGAATCACATGAGCTGCATTTAAGTGAGCATCTATCTACACG
34034114 TGCGTGAGAT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
133 97 0.99
134 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (133 bp):
ATATGCGGTGTAACGGTCTTGATTCCTCCTAAAGGAAATTGCGGGATAACGATCTTGATTCCTCC
TAAAGGGAATCACATGAGCTGCATTTAAGTGAGCATCTATCTACACGCGTGCTAGTCTTTTTCTG
TCC
Found at i:34039647 original size:78 final size:78
Alignment explanation
Indices: 34039548--34039786 Score: 406
Period size: 78 Copynumber: 3.1 Consensus size: 78
34039538 GTAGATCAGT
* *
34039548 TGATGGCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGATACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
34039613 CCAAATCCAAGGA
66 CCAAATCCAAGGA
*
34039626 TGATGTCGCTTCAAAAATAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
*
34039691 CCAAATCCGAGGA
66 CCAAATCCAAGGA
* * *
34039704 GGATGTCACTTCAAAAGTAGGCAACAAATCCAAAAATGGGGACACTGGTGACACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
*
34039769 CCAAATCCAAGAA
66 CCAAATCCAAGGA
34039782 TGATG
1 TGATG
34039787 ACAATGTTAA
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 150 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (78 bp):
TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
CCAAATCCAAGGA
Found at i:34039697 original size:42 final size:42
Alignment explanation
Indices: 34039572--34039789 Score: 111
Period size: 42 Copynumber: 5.5 Consensus size: 42
34039562 AAGTAGGCAA
*
34039572 CAAATCCAAAAATGAGGACACTGGTGATACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
** * * * ** * *
34039614 CAAATCCAAGGATGATGTCGCT--T--CA-A-AAATAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCA-AGTCTAC
34039650 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
* ** * * * **** * *
34039692 CAAATCCGAGGAGGATGTCACT--T--CA-AAAGTAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
*
34039728 CAAATCCAAAAATGGGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
* *
34039770 CAAATCCAAGAATGATGACA
1 CAAATCCAAAAATGAGGACA
34039790 ATGTTAAGCC
Statistics
Matches: 115, Mismatches: 47, Indels: 28
0.61 0.25 0.15
Matches are distributed among these distances:
36 35 0.30
37 8 0.07
38 5 0.04
40 6 0.05
41 8 0.07
42 53 0.46
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (42 bp):
CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
Found at i:34045040 original size:19 final size:19
Alignment explanation
Indices: 34045011--34045047 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34045001 GTCGTTTTCT
34045011 TTAAAATTATAAT-TGAGA
1 TTAAAATTATAATGTGAGA
34045029 TTAAATATTATAATGTGAG
1 TTAAA-ATTATAATGTGAG
34045048 GTAAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (19 bp):
TTAAAATTATAATGTGAGA
Found at i:34045052 original size:19 final size:18
Alignment explanation
Indices: 34045012--34045053 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
34045002 TCGTTTTCTT
*
34045012 TAAAATTATAATTGAGAT
1 TAAAATTATAATTGAGAG
34045030 TAAATATTATAATGTGAG-G
1 TAAA-ATTATAAT-TGAGAG
34045049 TAAAA
1 TAAAA
34045054 AAGAGTGCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (18 bp):
TAAAATTATAATTGAGAG
Found at i:34048446 original size:26 final size:26
Alignment explanation
Indices: 34048423--34048482 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
34048413 GTCTCGATAT
34048423 ATGGCTCTTTATGAGCTTCCCGATTA
1 ATGGCTCTTTATGAGCTTCCCGATTA
* * *
34048449 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTTATGAGCTTCCCGATTA
34048475 ATGGCTCT
1 ATGGCTCT
34048483 CCGGATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTTATGAGCTTCCCGATTA
Found at i:34053692 original size:28 final size:25
Alignment explanation
Indices: 34053660--34053717 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
34053650 TATAGTTACA
*
34053660 ATAAAATTTTTAATTATTTATTAATTTC
1 ATAAAATTTTTAA--A-ATATTAATTTC
*
34053688 ATAAATTTTTTAAAATATTAATTTC
1 ATAAAATTTTTAAAATATTAATTTC
34053713 ATAAA
1 ATAAA
34053718 TGTTAGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 15 0.54
26 1 0.04
28 12 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAAAATTTTTAAAATATTAATTTC
Found at i:34059327 original size:4 final size:4
Alignment explanation
Indices: 34059318--34059362 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
34059308 TTGGTTTTTG
34059318 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
34059363 AACACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:34067725 original size:14 final size:15
Alignment explanation
Indices: 34067690--34067726 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
34067680 CACTCTCCTC
*
34067690 TTTGCTCCTCTTCGT
1 TTTGCTTCTCTTCGT
34067705 TTT-CTTCTCTT-GT
1 TTTGCTTCTCTTCGT
34067718 TTTGCTTCT
1 TTTGCTTCT
34067727 TTGAGCGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 12 0.60
15 3 0.15
ACGTcount: A:0.00, C:0.27, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTGCTTCTCTTCGT
Done.